text:
year={2014}
}

@inproceedings{kim2014rapid,
  title={Rapid Prototyping Design and Control of Tensegrity Soft Robot for Locomotion},
  author={Kim, Kyunam and Agogino, Adrian K. and Moon, Deaho and Taneja, Laqshya and Toghyan, Aliakbar and Dehghani, Borna and SunSpiral, Vytas and Agogino, Alice M.},
  booktitle={IEEE International Conference on Robotics and Biomimetics (ROBIO)},
  year={2014}
}

@INPROCEEDINGS{friesen2014,
author={Friesen, Jeffrey and Pogue, Alexandra and Bewley, Thomas and de Oliveira, Mauricio and Skelton, Robert and SunSpiral, Vytas},
booktitle={ICRA},
title={{DuCTT}: A tensegrity robot for exploring duct systems},
year={2014},
month={May},
pages={4222-4228},
keywords={Actuators;Ducts;Force;Hardware;Mathematical model;Robot kinematics},
doi={10.1109/ICRA.2014.6907473},
}

@INPROCEEDINGS{sabelhaus2015system,
author={Sabelhaus, Andrew P. and Bruce, Jonathan and Caluwaerts, Ken and Manovi, Pavlo and Fallah Firoozi, Roya and Dobi, Sarah and Agogino, Alice and SunSpiral, Vytas},
booktitle={Submitted to International Conference on Robotics and Automation (ICRA)},
title={System Design and Locomotion of {SUPERball}, an Autonomous Tensegrity Robot},
year={2015},
}

@inproceedings{sabelhaus2013tinyterp,
  title={TinyTeRP: A Tiny Terrestrial Robotic Platform with Modular Sensing},
  author={Sabelhaus, Andrew P and Mirsky, Daniel and Hill, L Maxwell and Martins, Nuno C and Bergbreiter, Sarah},
  booktitle={Robotics and Automation (ICRA), 2013 IEEE International Conference on},
  pages={2600--2605},
  year={2013},
  organization={IEEE}
}

@article{obradovic2012lightweight,
  title={Lightweight design and crash analysis of composite frontal impact energy absorbing structures},
  author={Obradovic, Jovan and Boria, Simonetta and Belingardi, Giovanni},
  journal={Composite structures},
  volume={94},
  number={2},
  pages={423--430},
  year={2012},
  publisher={Elsevier}
}

@article{holnicki2003high,
  title={High-performance impact absorbing materials—the concept, design tools and applications},
  author={Holnicki-Szulc, Jan and Pawlowski, Piotr and Wiklo, Marcin},
  journal={Smart Materials and Structures},
  volume={12},
  number={3},
  pages={461},
  year={2003},
  publisher={IOP Publishing}
}

@article{alghamdi2001collapsible,
  title={Collapsible impact energy absorbers: an overview},
  author={Alghamdi, AAA},
  journal={Thin-walled structures},
  volume={39},
  number={2},
  pages={189--213},
  year={2001},
  publisher={Elsevier}
}

@article{abramowicz2003thin,
  title={Thin-walled structures as impact energy absorbers},
  author={Abramowicz, W},
  journal={Thin-Walled Structures},
  volume={41},
  number={2},
  pages={91--107},
  year={2003},
  publisher={Elsevier}
}

@article{carruthers1998energy,
  title={Energy absorption capability and crashworthiness of composite material structures: a review},
  author={Carruthers, Joe J and Kettle, AP and Robinson, AM},
  journal={Applied Mechanics Reviews},
  volume={51},
  number={10},
  pages={635--649},
  year={1998},
  publisher={American Society of Mechanical Engineers}
}

@inproceedings{skelton2005dynamics,
  title={Dynamics and control of tensegrity systems},
  author={Skelton, Robert},
  booktitle={IUTAM Symposium on Vibration Control of Nonlinear Mechanisms and Structures},
  pages={309--318},
  year={2005},
  organization={Springer}
}

@book{skelton2009tensegrity,
  title={Tensegrity systems},
  author={Skelton, Robert E and de Oliveira, Mauricio C},
  year={2009},
  publisher={Springer}
}

@article{kanchanasaratool2002modelling,
  title={Modelling and control of class NSP tensegrity structures},
  author={Kanchanasaratool, Narongsak and Williamson, Darrell},
  journal={International Journal of Control},
  volume={75},
  number={2},
  pages={123--139},
  year={2002},
  publisher={Taylor \& Francis}
}

@article{murakami2001static,
  title={Static and dynamic analyses of tensegrity structures. Part 1. Nonlinear equations of motion},
  author={Murakami, Hidenori},
  journal={International Journal of Solids and Structures},
  volume={38},
  number={20},
  pages={3599--3613},
  year={2001},
  publisher={Elsevier}
}

@article{mirats2009tensegrity,
  title={Tensegrity frameworks: Dynamic analysis review and open problems},
  author={Mirats Tur, Josep M and Juan, Sergi Hern{\`a}ndez},
  journal={Mechanism and Machine Theory},
  volume={44},
  number={1},
  pages={1--18},
  year={2009},
  publisher={Elsevier}
}

@article{juan2008tensegrity,
  title={Tensegrity frameworks: static analysis review},
  author={Juan, Sergi Hernandez and Mirats Tur, Josep M},
  journal={Mechanism and Machine Theory},
  volume={43},
  number={7},
  pages={859--881},
  year={2008},
  publisher={Elsevier}
}

@book{sultan1999modeling,
  title={Modeling, design, and control of tensegrity structures with applications},
  author={Sultan, Cornel},
  year={1999}
}

@article{sultan2002linear,
  title={Linear dynamics of tensegrity structures},
  author={Sultan, Cornel and Corless, Martin and Skelton, Robert E},
  journal={Engineering Structures},
  volume={24},
  number={6},
  pages={671--685},
  year={2002},
  publisher={Elsevier}
}

@book{nishimura2000static,
  title={Static and dynamic analyses of tensegrity structures},
  author={Nishimura, Yoshitaka},
  year={2000}
}

@article{wroldsen2009modelling,
  title={Modelling and control of non-minimal non-linear realisations of tensegrity systems},
  author={Wroldsen, AS and De Oliveira, MC and Skelton, RE},
  journal={International Journal of Control},
  volume={82},
  number={3},
  pages={389--407},
  year={2009},
  publisher={Taylor \& Francis}
}

@article{arsenault2006kinematic,
  title={Kinematic, static and dynamic analysis of a planar 2-DOF tensegrity mechanism},
  author={Arsenault, Marc and Gosselin, Cl{\'e}ment M},
  journal={Mechanism and Machine Theory},
  volume={41},
  number={9},
  pages={1072--1089},
  year={2006},
  publisher={Elsevier}
}

@inproceedings{skelton1997controllable,
  title={Controllable tensegrity: A new class of smart structures},
  author={Skelton, Robert T and Sultan, Cornel},
  booktitle={Smart Structures and Materials' 97},
  pages={166--177},
  year={1997},
  organization={International Society for Optics and Photonics}
}

@inproceedings{van2005shape,
  title={Shape change of tensegrity structures: design and control},
  author={van de Wijdeven, Jeroen and de Jager, Bram},
  booktitle={American Control Conference, 2005. Proceedings of the 2005},
  pages={2522--2527},
  year={2005},
  organization={IEEE}
}

@article{chen1968anovel,
author = {CHEN, C. F. and SHIEH, L. S.},
title = {A novel approach to linear model simplification},
journal = {International Journal of Control},
volume = {8},
number = {6},
pages = {561-570},
year = {1968},
doi = {10.1080/00207176808905715},

URL = {
        http://www.tandfonline.com/doi/abs/10.1080/00207176808905715

},
eprint = {
        http://www.tandfonline.com/doi/pdf/10.1080/00207176808905715

}
}

@ARTICLE{lamba1974onsuboptimal,
author={Lamba, S.S. and Rao, S.},
journal={Automatic Control, IEEE Transactions on},
title={On suboptimal control via the simplified model of Davison},
year={1974},
month={Aug},
volume={19},
number={4},
pages={448-450},
keywords={Linear systems, time-invariant continuous-time;Suboptimal control;Adaptive control;Bridges;Control systems;Eigenvalues and eigenfunctions;Linear feedback control systems;Linear systems;Optimal control;Regulators;State feedback;Time varying systems},
doi={10.1109/TAC.1974.1100598},
ISSN={0018-9286}
}

@incollection{johansen1995semiempirical,
year={1995},
isbn={978-1-4471-3068-0},
booktitle={Neural Network Engineering in Dynamic Control Systems},
series={Advances in Industrial Control},
editor={Hunt, KennethJ. and Irwin, GeorgeR. and Warwick, Kevin},
doi={10.1007/978-1-4471-3066-6_6},
title={Semi-Empirical Modeling of Non-Linear Dynamic Systems through Identification of Operating Regimes and Local Models},
url={http://dx.doi.org/10.1007/978-1-4471-3066-6_6},
publisher={Springer London},
author={Johansen, TorA. and Foss, BjarneA.},
pages={105-126},
language={English}
}

@ARTICLE{takagi1985fuzzy,
author={Takagi, T. and Sugeno, M.},
journal={Systems, Man and Cybernetics, IEEE Transactions on},
title={Fuzzy identification of systems and its applications to modeling and control},
year={1985},
month={Jan},
volume={SMC-15},
number={1},
pages={116-132},
keywords={fuzzy set theory;identification;process control;system theory;fuzzy identification;fuzzy model;industrial process control;input-output data;modelling;steel-making process;systems identification;water cleaning process;Cognition;Data models;Fuzzy sets;Mathematical model;Parameter estimation;Performance analysis;Vectors},
doi={10.1109/TSMC.1985.6313399},
ISSN={0018-9472}}

@article{skeppstedt1992construction,
author = {SKEPPSTEDT, ANDERS and LJUNG, LENNART and MILLNERT, MILLE},
title = {Construction of composite models from observed data},
journal = {International Journal of Control},
volume = {55},
number = {1},
pages = {141-152},
year = {1992},
doi = {10.1080/00207179208934230},

URL = {
        http://dx.doi.org/10.1080/00207179208934230

},
eprint = {
        http://dx.doi.org/10.1080/00207179208934230

}
}

@article{gu2008control,
title = {Control of nonlinear processes by using linear model predictive control algorithms},
journal = {\{ISA\} Transactions},
volume = {47},
number = {2},
pages = {211 - 216},
year = {2008},
issn = {0019-0578},
doi = {http://dx.doi.org/10.1016/j.isatra.2007.12.002},
url = {http://www.sciencedirect.com/science/article/pii/S0019057807001279},
author = {Bingfeng Gu and Yash P. Gupta},
keywords = {Control of nonlinear processes}
}

@article{lall2002asubspace,
author = {Lall, Sanjay and Marsden, Jerrold E. and Glavaški, Sonja},
title = {A subspace approach to balanced truncation for model reduction of nonlinear control systems},
journal = {International Journal of Robust and Nonlinear Control},
volume = {12},
number = {6},
publisher = {John Wiley & Sons, Ltd.},
issn = {1099-1239},
url = {http://dx.doi.org/10.1002/rnc.657},
doi = {10.1002/rnc.657},
pages = {519--535},
keywords = {balanced truncation, model reduction, Karhunen–Loève expansion, total least-squares, Hankel norm},
year = {2002}
}

@incollection{williams2009multitask,
title = {Multi-task Gaussian Process Learning of Robot Inverse Dynamics},
author = {Christopher Williams and Stefan Klanke and Sethu Vijayakumar and Kian M. Chai},
booktitle = {Advances in Neural Information Processing Systems 21},
editor = {D. Koller and D. Schuurmans and Y. Bengio and L. Bottou},
pages = {265--272},
year = {2009},
publisher = {Curran Associates, Inc.},
url = {http://papers.nips.cc/paper/3385-multi-task-gaussian-process-learning-of-robot-inverse-dynamics.pdf}
}

@INPROCEEDINGS{nguyen-tuong2008local,
author={Duy Nguyen-Tuong and Peters, J.},
booktitle={Intelligent Robots and Systems, 2008. IROS 2008. IEEE/RSJ International Conference on},
title={Local Gaussian process regression for real-time model-based robot control},
year={2008},
month={Sept},
pages={380-385},
keywords={Gaussian processes;computational complexity;regression analysis;robots;support vector machines;computational complexity;linear regression techniques;local Gaussian process regression;locally weighted projection regression;online learning;real-time model-based robot control;support vector regression;Approximation methods;Computational modeling;Data models;Ground penetrating radar;Joints;Predictive models;Robots},
doi={10.1109/IROS.2008.4650850}}

@mastersthesis{calangi2014model-based,
    author    = {Justino Calangi},
    title     = {Model-Based Control System for Packing a 6-Bar Tensegrity Structure},
    school    = {Univesity of California Berkeley},
    year      = {May 2014},
    note     = {In collaboration with the UC Berkeley Emergent Space Technologies Lab}
}}

@article{ziegler1942optimum,
  title={Optimum settings for automatic controllers},
  author={Ziegler, JG and Nichols, NB},
  journal={trans. ASME},
  volume={64},
  number={11},
  year={1942}
}

@article{nowak2002nonlinear,
year={2002},
issn={0278-081X},
journal={Circuits, Systems and Signal Processing},
volume={21},
number={1},
doi={10.1007/BF01211655},
title={Nonlinear system identification},
url={http://dx.doi.org/10.1007/BF01211655},
publisher={Birkhäuser-Verlag},
keywords={Nonlinear systems; identification; Volterra/Wiener systems; neural networks; state-space models},
author={Nowak, RobertD.},
pages={109-122},
language={English}
}

@inproceedings{diftler2011robonaut,
  title={Robonaut 2-the first humanoid robot in space},
  author={Diftler, Myron A and Mehling, JS and Abdallah, Muhammad E and Radford, Nicolaus A and Bridgwater, Lyndon B and Sanders, Adam M and Askew, Roger Scott and Linn, D Marty and Yamokoski, John D and Permenter, FA and others},
  booktitle={Robotics and Automation (ICRA), 2011 IEEE International Conference on},
  pages={2178--2183},
  year={2011},
  organization={IEEE}
}

@inproceedings{diftler2012robonaut,
  title={Robonaut 2—initial activities on-board the ISS},
  author={Diftler, MA and Ahlstrom, TD and Ambrose, RO and Radford, NA and Joyce, CA and De La Pena, N and Parsons, AH and Noblitt, AL},
  booktitle={Aerospace Conference, 2012 IEEE},
  pages={1--12},
  year={2012},
  organization={IEEE}
}

@incollection{qin2000nonlinear,
year={2000},
isbn={978-3-0348-9554-5},
booktitle={Nonlinear Model Predictive Control},
volume={26},
series={Progress in Systems and Control Theory},
editor={Allgöwer, Frank and Zheng, Alex},
doi={10.1007/978-3-0348-8407-5_21},
title={An Overview of Nonlinear Model Predictive Control Applications},
url={http://dx.doi.org/10.1007/978-3-0348-8407-5_21},
publisher={Birkhäuser Basel},
author={Qin, S.Joe and Badgwell, ThomasA.},
pages={369-392},
language={English}
}

@book{allgower2000nonlinear,
  title={Nonlinear model predictive control},
  author={Allg{\"o}wer, Frank and Zheng, Alex},
  volume={26},
  year={2000},
  publisher={Birkh{\"a}user Basel}
}

@inproceedings{raibert2008bigdog,
  title={Bigdog, the rough-terrain quadruped robot},
  author={Raibert, Marc and Blankespoor, Kevin and Nelson, Gabriel and Playter, Rob and others},
  booktitle={Proceedings of the 17th World Congress},
  pages={10823--10825},
  year={2008}
}

@INPROCEEDINGS{iscen2014flop,
author={Iscen, A. and Agogino, A. and SunSpiral, V. and Tumer, K.},
booktitle={Intelligent Robots and Systems (IROS 2014), 2014 IEEE/RSJ International Conference on},
title={Flop and roll: Learning robust goal-directed locomotion for a Tensegrity Robot},
year={2014},
month={Sept},
pages={2236-2243},
keywords={mobile robots;robust control;NASA tensegrity robotics toolkit simulator;NTRT simulator;flop and roll algorithm;nonlinear dynamics;oscillatory nature;robust distributed directional rolling algorithm;robust goal-directed locomotion;sphere-shaped tensegrity robots;Force;Muscles;NASA;Robot kinematics;Robot sensing systems;Robustness},
doi={10.1109/IROS.2014.6942864},}

@article{garcia2007evolution,
  title={The evolution of robotics research},
  author={Garcia, Elena and Jimenez, Mar{\'\i}a A and De Santos, Pablo Gonzalez and Armada, Manuel},
  journal={Robotics \& Automation Magazine, IEEE},
  volume={14},
  number={1},
  pages={90--103},
  year={2007},
  publisher={IEEE},
  doi={10.1109/MRA.2007.339608}
}

@article{lefebvre2005active,
  title={Active compliant motion: a survey},
  author={Lefebvre, Tine and Xiao, Jing and Bruyninckx, Herman and De Gersem, Gudrun},
  journal={Advanced Robotics},
  volume={19},
  number={5},
  pages={479--499},
  year={2005},
  doi={10.1163/156855305323383767},
  publisher={Taylor \& Francis}
}

@article{nsf2014national,
title={National Robotics Initiative: The realization of co-robots acting in direct support of individuals and groups},
author={National Science Foundation USA},
journal={Program Solicitation},
year={2014}
}

@article{selva2012survey,
  title={A survey and assessment of the capabilities of Cubesats for Earth observation},
  author={Selva, Daniel and Krejci, David},
  journal={Acta Astronautica},
  volume={74},
  pages={50--68},
  year={2012},
  doi={10.1016/j.actaastro.2011.12.014},
  publisher={Elsevier}
}

@article{chin2008standardization,
  title={Standardization Promotes Flexibility: A Review of CubeSats’ Success},
  author={Chin, Alexander and Coelho, Roland and Brooks, Lori and Nugent, Ryan and Suari, Jordi Puig},
  journal={Aerospace Engineering},
  volume={805},
  pages={756--5087},
  year={2008}
}

@INPROCEEDINGS{allen2013internally,
author={Allen, R. and Pavone, M. and McQuin, C. and Nesnas, I.A.D. and Castillo-Rogez, J.C. and Nguyen, T.-N. and Hoffman, J.A.},
booktitle={Robotics and Automation (ICRA), 2013 IEEE International Conference on},
title={Internally-actuated rovers for all-access surface mobility: Theory and experimentation},
year={2013},
month={May},
pages={5481-5488},
keywords={aerospace robotics;flywheels;space vehicles;all-access surface mobility;internally-actuated rovers;multifaceted robot;orthogonal flywheels;solar system bodies;spacecraft/rover hybrid;traditional mobility systems;Acceleration;Flywheels;Robots},
doi={10.1109/ICRA.2013.6631363},
ISSN={1050-4729},}

@misc{fuller1962tensile,
  title={Tensile-integrity structures},
  author={Fuller, R Buckminister},
  year={1962},
  month=nov # "~13",
  publisher={Google Patents},
  note={US Patent 3,063,521}
}

@inproceedings{skelton2001introduction,
  title={An introduction to the mechanics of tensegrity structures},
  author={Skelton, Robert E and Adhikari, R and Pinaud, J-P and Chan, Waileung and Helton, JW},
  booktitle={Decision and Control, 2001. Proceedings of the 40th IEEE Conference on},
  volume={5},
  pages={4254--4259},
  year={2001},
  organization={IEEE}
}

@incollection{matson2003cassini,
  title={The Cassini/Huygens mission to the Saturnian system},
  author={Matson, Dennis L and Spilker, Linda J and Lebreton, Jean-Pierre},
  booktitle={The Cassini-Huygens Mission},
  pages={1--58},
  year={2003},
  publisher={Springer}
}

@article{grotzinger2012mars,
  title={Mars Science Laboratory mission and science investigation},
  author={Grotzinger, John P and Crisp, Joy and Vasavada, Ashwin R and Anderson, Robert C and Baker, Charles J and Barry, Robert and Blake, David F and Conrad, Pamela and Edgett, Kenneth S and Ferdowski, Bobak and others},
  journal={Space Science Reviews},
  volume={170},
  number={1-4},
  pages={5--56},
  year={2012},
  doi={10.1007/s11214-012-9892-2},
  publisher={Springer}
}

@article{said2006investigation,
  title={Investigation of ultra violet ({UV}) resistance for high strength fibers},
  author={Said, MA and Dingwall, Brenda and Gupta, A and Seyam, AM and Mock, G and Theyson, T},
  journal={Advances in Space Research},
  volume={37},
  number={11},
  pages={2052--2058},
  year={2006},
  doi={DOI 10.1016/j.asr.2005.04.098},
  publisher={Elsevier}
}

@techreport{fette2004vectran,
  title={Vectran fiber time dependant behavior and additional static loading properties},
  author={Fette, Russell B and Sovinski, Marjorie F},
  year={2004},
  institution={DTIC Document}
}

@MISC{Delrin2014,
  author = "{DuPont Plastics}",
  title = {Delrin Design Information},
  year = {2014}
}
%  url = {http://www2.dupont.com/Plastics/en_US/assets/downloads/design/DELDGe.pdf}
%}

@MISC{Aluminum2024_2014,
  author = "{MatWeb Materials Property Data}",
  title = {Aluminum 2024-T3},
  year = {2014}
}
%  url = "{http://www.matweb.com/search/DataSheet.aspx?MatGUID=57483b4d782940faaf12964a1821fb61&ckck=1}
%}

@MISC{AluminumFriction_2014,
  author = "{The Engineering Toolbox}",
  title = {Friction Coefficients},
  year = {2014}
}
%  url = {http://www.engineeringtoolbox.com/friction-coefficients-d_778.html}
%}

@inbook {rees2009optimal,
title = {Appendix C: Plate Buckling Under Biaxial Compression and Shear},
author = {Rees, David W. A.},
publisher = {John Wiley and Sons, Ltd},
isbn = {9780470749784},
doi = {10.1002/9780470749784.app3},
pages = {537--541},
booktitle = {Mechanics of Optimal Structural Design},
year = {2009}
}
%url = {http://dx.doi.org/10.1002/9780470749784.app3},

@book{dieter2008engineering,
  title={Engineering design},
  author={Dieter, G.E. and Schmidt, L.C.},
  isbn={9780072837032},
  lccn={2007049735},
  series={Engineering Series},
  year={2008},
  publisher={McGraw-Hill Higher Education}
}

@MISC{maxon2014superballmotor,
  author = "{Maxon Motor USA}",
  title = {EC 22 mm, brushless, 100 {Watt} motor datasheet},
  year = {2014}
}

@MISC{maxon2014superballgearhead,
  author = "{Maxon Motor USA}",
  title = {Planetary {Gearhead GP} 22 H {mm}, 2.0–3.4 {Nm} datasheet},
  year = {2014}
}


text:
require ${PN}.inc
require ${P}.inc

PR = "${INC_PR}.3"

EXTRA_OECONF = "--with-installed-glib"

license: MIT

repository: balister/openembedded

license_type: permissive

repo_name: balister/openembedded

branch_name: refs/heads/master

extension: bb


text:
SUMMARY = "A self-extracting archiving tool for Unix systems, in 100% shell script."
DESCRIPTION = "\
    makeself.sh is a small shell script that generates a self-extractable \
    compressed tar archive from a directory. The resulting file appears as \
    a shell script (many of those have a .run suffix), and can be launched as is.\
"
HOMEPAGE = "https://makeself.io/"
LICENSE = "GPL-2.0-only"
LIC_FILES_CHKSUM = "file://COPYING;md5=b234ee4d69f5fce4486a80fdaf4a4263"

SRC_URI = "\
    git://github.com/megastep/${BPN}.git;protocol=https;branch=master \
"

SRCREV = "09488c50c6bdc40aec8e3a9b23a539c5054a634c"

S = "${WORKDIR}/git"

do_configure[noexec] = "1"
do_compile[noexec] = "1"

do_install() {
    install -d ${D}${bindir}
    install -m 0755 ${S}/makeself.sh ${D}${bindir}/
    install -m 0755 ${S}/makeself-header.sh ${D}${bindir}/
}

BBCLASSEXTEND = "native"

repository: openembedded/meta-openembedded

repo_name: openembedded/meta-openembedded

gha_license_id: MIT

gha_language: BitBake


text:
@inproceedings{astudillo21b,
 abstract = {Bayesian optimization (BO) is a sample-efficient approach to optimizing costly-to-evaluate black-box functions. Most BO methods ignore how evaluation costs may vary over the optimization domain. However, these costs can be highly heterogeneous and are often unknown in advance in many practical settings, such as hyperparameter tuning of machine learning algorithms, or physics-based simulation optimization. Moreover, those few existing methods that acknowledge cost heterogeneity do not naturally accommodate a budget constraint on the total evaluation cost. This combination of unknown costs and a budget constraint introduces a new dimension to the exploration-exploitation trade-off, where learning about the cost incurs a cost itself. Existing approaches do not reason about the various trade-offs of this problem in a principled way, leading often to poor performance. We formalize this claim by proving that the expected improvement and the expected improvement per unit of cost, arguably the two most widely used acquisition functions in practice, can be arbitrarily inferior with respect to the optimal non-myopic policy. To overcome the shortcomings of existing approaches,  we propose the budgeted multi-step expected improvement, a non-myopic acquisition function that  generalizes classical expected improvement to the setting of heterogeneous and unknown evaluation costs. We show that our acquisition function outperforms existing BO methods in a variety of synthetic and realistic problems.},
 author = {Astudillo, Raul and Jiang, Daniel R and Balandat, Maximilian and Frazier, Peter I and Bakshy, Eytan},
 booktitle = {Advances in Neural Information Processing Systems},
 month = {December},
 title = {Multi-Step Budgeted Bayesian Optimization with Unknown Evaluation Costs},
 year = {2021}
}

extension: bib


text:
@article{Roimi:2021,
  doi = {10.1093/jamia/ocab005},
  url = {https://doi.org/10.1093/jamia/ocab005},
  year = {2021},
  month = feb,
  publisher = {Oxford University Press ({OUP})},
  volume = {28},
  number = {6},
  pages = {1188--1196},
  author = {Michael Roimi and Rom Gutman and Jonathan Somer and Asaf Ben Arie and Ido Calman and Yaron Bar-Lavie and Udi Gelbshtein and Sigal Liverant-Taub and Arnona Ziv and Danny Eytan and Malka Gorfine and Uri Shalit},
  title = {Development and validation of a machine learning model predicting illness trajectory and hospital utilization of {COVID}-19 patients: A nationwide study},
  journal = {Journal of the American Medical Informatics Association}
}

@article{Rossman:2021,
  doi = {10.1038/s41467-021-22214-z},
  url = {https://doi.org/10.1038/s41467-021-22214-z},
  year = {2021},
  month = mar,
  publisher = {Springer Science and Business Media {LLC}},
  volume = {12},
  number = {1},
  author = {Hagai Rossman and Tomer Meir and Jonathan Somer and Smadar Shilo and Rom Gutman and Asaf Ben Arie and Eran Segal and Uri Shalit and Malka Gorfine},
  title = {Hospital load and increased {COVID}-19 related mortality in Israel},
  journal = {Nature Communications}
}

@article{Ishwaran:2008,
  doi = {10.1214/08-aoas169},
  url = {https://doi.org/10.1214/08-aoas169},
  year = {2008},
  month = sep,
  publisher = {Institute of Mathematical Statistics},
  volume = {2},
  number = {3},
  author = {Hemant Ishwaran and Udaya B. Kogalur and Eugene H. Blackstone and Michael S. Lauer},
  title = {Random survival forests},
  journal = {The Annals of Applied Statistics}
}

@article{Andersen:1991,
  url = {https://www.jstor.org/stable/4616198},
  year = {1991},
  publisher = {JSTOR},
  volume = {18},
  number = {2},
  pages={153--167},
  author={Andersen and Hansen and Keiding},
  title={Non-and semi-parametric estimation of transition probabilities from censored observation of a non-homogeneous Markov process},
  journal = {Scandinavian Journal of Statistics}
}

@article{Andersen:1982,
  doi = {10.1214/aos/1176345976},
  url = {https://www.jstor.org/stable/2240714},
  year = {1982},
  month = dec,
  publisher = {Institute of Mathematical Statistics},
  volume = {10},
  number = {4},
  author = {Andersen and Gill},
  title = {Cox's Regression Model for Counting Processes: A Large Sample Study},
  journal = {The Annals of Statistics}
}

@article{Klein:2006,
  doi = {10.1111/j.1541-0420.2006.00589_9.x},
  url = {https://link.springer.com/book/10.1007/b97377},
  year = {2006},
  publisher = {Springer Science & Business Media.},
  author = {Klein, J. P. and Moeschberger, M. L.},
  title = {Survival analysis: techniques for censored and truncated data},
}

@article{Breslow:1972,
  title={Disussion of regression models and life-tables by cox, dr},
  author={Breslow, N},
  journal={J. Roy. Statist. Assoc., B},
  volume={34},
  pages={216--217},
  year={1972}
}

@article{Pölsterl:2020,
  author  = {Sebastian Pölsterl},
  title   = {scikit-survival: A Library for Time-to-Event Analysis Built on Top of scikit-learn},
  journal = {Journal of Machine Learning Research},
  year    = {2020},
  volume  = {21},
  number  = {212},
  pages   = {1-6},
  url     = {http://jmlr.org/papers/v21/20-729.html}
}

@article{Davidson-Pilon:2019,
  doi = {10.21105/joss.01317},
  url = {https://doi.org/10.21105/joss.01317},
  year = {2019},
  publisher = {The Open Journal},
  volume = {4},
  number = {40},
  pages = {1317},
  author = {Cameron Davidson-Pilon},
  title = {lifelines: survival analysis in Python},
  journal = {Journal of Open Source Software}
}

repository: hrossman/pymsm

repo_name: hrossman/pymsm

branch_name: refs/heads/main

gha_language: Jupyter Notebook


text:
.btn-generico.viaje { color: #fff; background: #80552e; border: 1px solid transparent; }
.btn-generico.viaje:hover, .btn-generico.viaje:focus, .btn-generico.viaje:active { background-color: #fff; border: 1px solid black; color: black; }

.text-realce-viaje { color: #3d2d1b; font-weight: 600; }

.bg-viaje_claro { background: #fadebe; }

#section-viaje b, #section-viaje i, .base-viaje sup, .base-viaje sub, .base-viaje u, .base-viaje del { color: #3d2d1b; }

.section-viaje b, .section-viaje i, .base-viaje sup, .base-viaje sub, .base-viaje u, .base-viaje del { color: #3d2d1b; }

.text-5 { font-size: 5rem; }

.text-1-2 { font-size: 1.2rem; }

.text-4 { font-size: 4rem; }

.bg-levantate-brilla{
    background: rgba(194,69,147,1);
    background: -moz-linear-gradient(left, rgba(194,69,147,1) 0%, rgba(194,69,147,1) 25%, rgba(108,36,93,1) 50%, rgba(22,3,39,1) 75%);
    background: -webkit-gradient(left top, right top, color-stop(0%, rgba(194,69,147,1)), color-stop(25%, rgba(194,69,147,1)), color-stop(50%, rgba(108,36,93,1)), color-stop(75%, rgba(22,3,39,1)));
    background: -webkit-linear-gradient(left, rgba(194,69,147,1) 0%, rgba(194,69,147,1) 25%, rgba(108,36,93,1) 50%, rgba(22,3,39,1) 75%);
    background: -o-linear-gradient(left, rgba(194,69,147,1) 0%, rgba(194,69,147,1) 25%, rgba(108,36,93,1) 50%, rgba(22,3,39,1) 75%);
    background: -ms-linear-gradient(left, rgba(194,69,147,1) 0%, rgba(194,69,147,1) 25%, rgba(108,36,93,1) 50%, rgba(22,3,39,1) 75%);
    background: linear-gradient(to right, rgba(194,69,147,1) 0%, rgba(194,69,147,1) 25%, rgba(108,36,93,1) 50%, rgba(22,3,39,1) 75%);
    filter: progid:DXImageTransform.Microsoft.gradient( startColorstr='#c24593', endColorstr='#160327', GradientType=1 );
}

/*# sourceMappingURL=series.css.map */
.post-box
{box-shadow:0 5px 10px -5px #777;-webkit-box-shadow:0 5px 10px -5px #777;-moz-box-shadow:0 5px 10px -5px #777;border:1px solid #eee;border-bottom:0;margin-bottom:40px;padding:0;position:relative}
.post-box:hover{box-shadow:0 7px 10px -4px #777;-webkit-box-shadow:0 7px 10px -4px #777;-moz-box-shadow:0 7px 10px -4px #777}

@media screen and (max-width: 600px){
    .post-box{margin-bottom:20px}
}
.ribbon{position:absolute;right:-5px;top:-5px;z-index:1;overflow:hidden;width:75px;height:75px;text-align:right}
.ribbon span{
    font-size:10px;font-weight:bold;color:#FFF;text-transform:uppercase;text-align:center;line-height:20px;transform:rotate(45deg);-webkit-transform:rotate(45deg);width:100px;display:block;background:#79A70A;background:linear-gradient(#2ECC71 0%, #26A65B 100%);box-shadow:0 3px 10px -5px #000;position:absolute;top:19px;right:-21px}
.ribbon span::before{content:"";position:absolute;left:0px;top:100%;z-index:-1;border-left:3px solid #26A65B;border-right:3px solid transparent;border-bottom:3px solid transparent;border-top:3px solid #26A65B}
.ribbon span::after{content:"";position:absolute;right:0px;top:100%;z-index:-1;border-left:3px solid transparent;border-right:3px solid #26A65B;border-bottom:3px solid transparent;border-top:3px solid #26A65B}
.post-meta{display:inline-block;background:#26A65B;background:-webkit-linear-gradient(to top, #26A65B, #2ECC71);background:linear-gradient(to top, #26A65B, #2ECC71);padding:10px 25px;color:#fdfdfd;text-align:center;width:8%;font-size:20px}@media screen and (max-width: 800px){.post-meta{padding:12px 15px}}@media screen and (max-width: 600px){.post-meta{padding:5px 20px}}@media screen and (max-width: 480px){.post-meta{padding:10px 10px;width:15%}}.post-title-box{display:inline-block;padding:0;margin-left:10px;width:80%}@media screen and (max-width: 480px){.post-title-box{width:70%}}.post-list{margin:0;padding:0}.post-list a{text-decoration:none}.post-link{color:#6f6f6f;text-shadow:0 0 0.1px;margin:0;font-size:24px;letter-spacing:-1px}@media screen and (max-width: 800px){.post-link{font-size:18px}}@media screen and (max-width: 600px){.post-link{font-size:15px}}@media screen and (max-width: 480px){.post-link{font-size:11px}}p.post-excerpt{margin:0;color:#828282}@media screen and (max-width: 600px){p.post-excerpt{font-size:12px}}@media screen and (max-width: 480px){p.post-excerpt{font-size:10px}}.box{width:200px;height:300px;position:relative;border:1px solid #BBB;background:#EEE}
@media screen and (max-width: 600px){
    .post-metadata{font-size:0.8em}}

.image-element {
    display: -webkit-flex;
    justify-content: center;
    align-items: center;
    padding-left: 0;
    -webkit-justify-content: center;
    -webkit-align-items: center;
}

.image-element img {
    width: 30%;
    height: 30%;
    object-fit: cover;
    object-position: center center;
}
@media (max-width: 991px) {
    .image-element {
        padding-right: 0;
    }

    .image-element img {
        width: 60%;
        height: 60%;
        object-fit: cover;
        object-position: center center;
    }
}
.mbr-section-title {
    font-style: normal;
    line-height: 1.2;
}
.mbr-section-subtitle {
    line-height: 1.3;
}
.mbr-text {
    font-style: normal;
    line-height: 1.7;
}

repository: gerMdz/alameda

repo_name: gerMdz/alameda

gha_language: PHP

extension: css


text:
@techreport{dot_61069_DS1,
 author = {Baroud, Hiba and Dubey, Abhishek and Vazirizade, Sayyed Mohsen and others},
 institution = {Tennessee. Department of Transportation},
 title = {Collaborative Research Project to Coordinate the Data from the CRASH Predictive Analytics Program Between TDOT and TDOSHS},
 year = {2021}
}


text:
@inproceedings{pacheco2019alignment,
  title={Alignment of Player and Non-Player Character Assertiveness Levels},
  author={Pacheco, Ant{\'o}nio C and Martinho, Carlos},
  booktitle={Proceedings of the AAAI Conference on Artificial Intelligence and Interactive Digital Entertainment},
  volume={15},
  pages={181--187},
  year={2019},
  publisher={AAAI},
  address={Georgia Institute of Technology, Atlanta, Georgia, USA}
}

@inproceedings{10.1145/3311350.3347162,
author = {Paradeda, Raul and Ferreira, Maria Jos\'{e} and Oliveira, Raquel and Martinho, Carlos and Paiva, Ana},
title = {The Role of Assertiveness in a Storytelling Game with Persuasive Robotic Non-Player Characters},
year = {2019},
isbn = {9781450366885},
publisher = {Association for Computing Machinery},
address = {New York, NY, USA},
url = {https://doi.org/10.1145/3311350.3347162},
doi = {10.1145/3311350.3347162},
booktitle = {Proceedings of the Annual Symposium on Computer-Human Interaction in Play},
pages = {453–465},
numpages = {13},
keywords = {interactive digital storytelling, assertiveness, persuasion, personality trait, social robotics, non-player character},
location = {Barcelona, Spain},
series = {CHI PLAY ’19}
}

@conference{https://doi.org/10.13140/rg.2.2.29816.70409,
  doi = {10.13140/RG.2.2.29816.70409},
  url = {http://rgdoi.net/10.13140/RG.2.2.29816.70409},
  author = {Calisto,  Francisco Maria and Miraldo,  Pedro and Nunes,  Nuno Jardim and Nascimento,  Jacinto C.},
  language = {en},
  title = {BreastScreening: A Multimodality Diagnostic Assistant},
  booktitle = {LARSyS 2018 Annual Meeting},
  series = {LARSyS AM '18},
  location = {Lisbon, Portugal},
  publisher = {Interactive Technologies Institute},
  year = {2018},
  pages={1--2},
  address={Pavilh\~{a}o do Conhecimento - Centro Ci\^{e}ncia Viva, Largo Jos\'{e} Mariano Gago, 1 Parque das Na\c{c}\~{o}es 1990--073 Lisbon, Portugal}
}

@conference{https://doi.org/10.13140/rg.2.2.25412.68486,
  doi = {10.13140/RG.2.2.25412.68486},
  url = {http://rgdoi.net/10.13140/RG.2.2.25412.68486},
  author = {Calisto,  Francisco Maria and Nunes,  Nuno Jardim and Nascimento,  Jacinto C. and Miraldo,  Pedro},
  language = {en},
  title = {BreastScreening: A Multimodality Diagnostic Assistant},
  booktitle = {National Science Summit 2018},
  series = {NSS '18},
  location = {Lisbon, Portugal},
  publisher = {Funda\c{c}\~{a}o para a Ci\^{e}ncia e Tecnologia},
  year = {2018},
  pages={1--2},
  address={Centro de Congressos de Lisboa, Junqueira}
}

@conference{https://doi.org/10.13140/rg.2.2.33421.59360,
  doi = {10.13140/RG.2.2.33421.59360},
  url = {http://rgdoi.net/10.13140/RG.2.2.33421.59360},
  author = {Calisto,  Francisco Maria and Lencastre,  Hugo and Nunes,  Nuno Jardim and Nascimento,  Jacinto C.},
  language = {en},
  title = {Medical Imaging Diagnosis Assistant: AI-Assisted Radiomics Framework User Validation},
  booktitle = {Keep In Touch 2019},
  series = {KIT '18},
  location = {Lisbon, Portugal},
  publisher = {Instituto Superior T\'{e}cnico},
  year = {2019},
  pages={1--2},
  address={Avenida Rovisco Pais 1, 1049-001 Lisboa - Portugal (EU)}
}

@mastersthesis{calisto2017mimbcdui,
  doi = {10.13140/RG.2.2.15187.02084},
  url = {http://rgdoi.net/10.13140/RG.2.2.15187.02084},
  author = {Francisco Maria Calisto},
  title = {Medical Imaging Multimodality Breast Cancer Diagnosis User Interface},
  school = {Instituto Superior T\'{e}cnico},
  year = 2017,
  address = {Avenida Rovisco Pais 1, 1049-001 Lisboa - Portugal (EU)},
  month = 10,
  note = {A Medical Imaging Tool for a Multimodality use of Breast Cancer Diagnosis on a User Interface.}
}

@inproceedings{10.1145/3132272.3134111,
author = {Calisto, Francisco M. and Ferreira, Alfredo and Nascimento, Jacinto C. and Gon\c{c}alves, Daniel},
title = {Towards Touch-Based Medical Image Diagnosis Annotation},
year = {2017},
isbn = {9781450346917},
publisher = {Association for Computing Machinery},
address = {New York, NY, USA},
url = {https://doi.org/10.1145/3132272.3134111},
doi = {10.1145/3132272.3134111},
booktitle = {Proceedings of the 2017 ACM International Conference on Interactive Surfaces and Spaces},
pages = {390–395},
numpages = {6},
keywords = {Human-Computer Interaction, Medical Visualization, Medical Image Diagnosis, Interaction Design, Touch-Based},
location = {Brighton, United Kingdom},
series = {ISS ’17}
}

@misc{calisto2020breastscreening,
  doi={10.13140/RG.2.2.28548.27523},
  url={https://doi.org/10.13140/RG.2.2.28548.27523},
  title={BreastScreening: On the Use of Multi-Modality in Medical Imaging Diagnosis},
  author={Francisco Maria Calisto and Nuno Jardim Nunes and Jacinto Carlos Nascimento},
  language = {en},
  year={2020},
  eprint={2004.03500},
  archivePrefix={arXiv},
  primaryClass={cs.HC},
  publisher={ResearchGate},
  institution={Instituto Superior T\'{e}cnico}
}

@inproceedings{Inkpen:2019:HBG:3290607.3299002,
 author = {Inkpen, Kori and Chancellor, Stevie and De Choudhury, Munmun and Veale, Michael and Baumer, Eric P. S.},
 title = {Where is the Human?: Bridging the Gap Between AI and HCI},
 booktitle = {Extended Abstracts of the 2019 CHI Conference on Human Factors in Computing Systems},
 series = {CHI EA '19},
 year = {2019},
 isbn = {978-1-4503-5971-9},
 location = {Glasgow, Scotland Uk},
 pages = {W09:1--W09:9},
 articleno = {W09},
 numpages = {9},
 url = {http://doi.acm.org/10.1145/3290607.3299002},
 doi = {10.1145/3290607.3299002},
 acmid = {3299002},
 publisher = {ACM},
 address = {New York, NY, USA},
 keywords = {artificial interlligence, human computer interaction, machine learning},
}

@inproceedings{Kocielnik:2019:YAI:3290605.3300641,
 author = {Kocielnik, Rafal and Amershi, Saleema and Bennett, Paul N.},
 title = {Will You Accept an Imperfect AI?: Exploring Designs for Adjusting End-user Expectations of AI Systems},
 booktitle = {Proceedings of the 2019 CHI Conference on Human Factors in Computing Systems},
 series = {CHI '19},
 year = {2019},
 isbn = {978-1-4503-5970-2},
 location = {Glasgow, Scotland Uk},
 pages = {411:1--411:14},
 articleno = {411},
 numpages = {14},
 url = {http://doi.acm.org/10.1145/3290605.3300641},
 doi = {10.1145/3290605.3300641},
 acmid = {3300641},
 publisher = {ACM},
 address = {New York, NY, USA},
 keywords = {ai infused systems, ai system on-boarding, perception and acceptance of ai, shaping ai expectations},
}

@inproceedings{Oh:2018:ILY:3173574.3174223,
 author = {Oh, Changhoon and Song, Jungwoo and Choi, Jinhan and Kim, Seonghyeon and Lee, Sungwoo and Suh, Bongwon},
 title = {I Lead, You Help but Only with Enough Details: Understanding User Experience of Co-Creation with Artificial Intelligence},
 booktitle = {Proceedings of the 2018 CHI Conference on Human Factors in Computing Systems},
 series = {CHI '18},
 year = {2018},
 isbn = {978-1-4503-5620-6},
 location = {Montreal QC, Canada},
 pages = {649:1--649:13},
 articleno = {649},
 numpages = {13},
 url = {http://doi.acm.org/10.1145/3173574.3174223},
 doi = {10.1145/3173574.3174223},
 acmid = {3174223},
 publisher = {ACM},
 address = {New York, NY, USA},
 keywords = {artificial intelligence, human computer collaboration, human-ai interaction},
}

@article{topol2019high,
  title={High-performance medicine: the convergence of human and artificial intelligence},
  author={Topol, Eric J},
  journal={Nature medicine},
  volume={25},
  number={1},
  pages={44},
  year={2019},
  publisher={Nature Publishing Group}
}

@article{sundaram2018predicting,
  title={Predicting the clinical impact of human mutation with deep neural networks},
  author={Sundaram, Laksshman and Gao, Hong and Padigepati, Samskruthi Reddy and McRae, Jeremy F and Li, Yanjun and Kosmicki, Jack A and Fritzilas, Nondas and Hakenberg, J{\"o}rg and Dutta, Anindita and Shon, John and others},
  journal={Nature genetics},
  volume={50},
  number={8},
  pages={1161},
  year={2018},
  publisher={Nature Publishing Group}
}

@article{bickmore2018patient,
  title={Patient and consumer safety risks when using conversational assistants for medical information: An observational study of Siri, Alexa, and Google Assistant},
  author={Bickmore, Timothy W and Trinh, Ha and Olafsson, Stefan and O'Leary, Teresa K and Asadi, Reza and Rickles, Nathaniel M and Cruz, Ricardo},
  journal={Journal of medical Internet research},
  volume={20},
  number={9},
  pages={e11510},
  year={2018},
  publisher={JMIR Publications Inc., Toronto, Canada}
}

@article{madani2018deep,
  title={Deep echocardiography: data-efficient supervised and semi-supervised deep learning towards automated diagnosis of cardiac disease},
  author={Madani, Ali and Ong, Jia Rui and Tibrewal, Anshul and Mofrad, Mohammad RK},
  journal={npj Digital Medicine},
  volume={1},
  number={1},
  pages={59},
  year={2018},
  publisher={Nature Publishing Group}
}

@article{coudray2018classification,
  title={Classification and mutation prediction from non--small cell lung cancer histopathology images using deep learning},
  author={Coudray, Nicolas and Ocampo, Paolo Santiago and Sakellaropoulos, Theodore and Narula, Navneet and Snuderl, Matija and Feny{\"o}, David and Moreira, Andre L and Razavian, Narges and Tsirigos, Aristotelis},
  journal={Nature medicine},
  volume={24},
  number={10},
  pages={1559},
  year={2018},
  publisher={Nature Publishing Group}
}

@inproceedings{ahmad2018death,
  title={Death vs. Data Science: Predicting End of Life},
  author={Ahmad, Muhammad A and Eckert, Carly and McKelvey, Greg and Zolfagar, Kiyana and Zahid, Anam and Teredesai, Ankur},
  booktitle={Thirty-Second AAAI Conference on Artificial Intelligence},
  year={2018},
  publisher={AAAI},
  address={Hilton New Orleans Riverside, New Orleans, Louisiana, USA},
  pages={7719--7726},
  numpages={8}
}

@article{hoff2015trust,
  title={Trust in automation: Integrating empirical evidence on factors that influence trust},
  author={Hoff, Kevin Anthony and Bashir, Masooda},
  journal={Human Factors},
  volume={57},
  number={3},
  pages={407--434},
  year={2015},
  publisher={Sage Publications Sage CA: Los Angeles, CA}
}

@incollection{benrimoh2018aifred,
  title={Aifred Health, a Deep Learning Powered Clinical Decision Support System for Mental Health},
  author={Benrimoh, David and Fratila, Robert and Israel, Sonia and Perlman, Kelly and Mirchi, Nykan and Desai, Sneha and Rosenfeld, Ariel and Knappe, Sabrina and Behrmann, Jason and Rollins, Colleen and others},
  booktitle={The NIPS'17 Competition: Building Intelligent Systems},
  pages={251--287},
  year={2018},
  publisher={Springer},
  address={Long Beach Convention Center, Long Beach}
}

@inproceedings{sonntag2016persuasive,
  title={Persuasive AI Technologies for Healthcare Systems},
  author={Sonntag, Daniel},
  booktitle={2016 AAAI Fall Symposium Series},
  year={2016},
  publisher={AAAI},
  address={Westin Arlington Gateway, Arlington, Virginia, USA},
  pages={165--168},
  numpages={4}
}

@Inbook{Miao2019,
author="Miao, Shun
and Liao, Rui",
title="Agent-Based Methods for Medical Image Registration",
bookTitle="Deep Learning and Convolutional Neural Networks for Medical Imaging and Clinical Informatics",
year="2019",
publisher="Springer International Publishing",
address="Cham",
pages="323--345",
abstract="Medical imaging registration is a critical step in a wide spectrum of medical applications from diagnosis to therapy and has been an extensively studied research field. Prior to the popularity of deep learningDeep learning, image registrationImage registration was commonly performed by optimizing an image matching metric as a cost function in search for the optimal registration. However, the optimization task is known to be challenging due to (1) the non-convex nature of the matching metric over the registration parameter space and (2) the lack of effective approaches for robust optimization. With the latest advance in deep learningDeep learning and artificial intelligence, the field of medical image registrationImage registration had a major paradigm shift, whereby learning-based image registrationImage registration methods are developed to employ deep neural networks to analyze images in order to estimate plausible registrations. Among the latest advances in learning-based registration methods, agent-based methods have been shown to be effective in both 3-D/3-D and 2-D/3-D registrations with significant robustness advantage over conventional optimization-based methods. In this chapter, we give an overview of agent-based methods for medical image registrationImage registration and its two applications on rigid-body 3-D/3-D and 2-D/3-D registrations.",
isbn="978-3-030-13969-8",
doi="10.1007/978-3-030-13969-8_16",
url="https://doi.org/10.1007/978-3-030-13969-8_16"
}

@article{ghosh2019artificial,
  title={Artificial Intelligence Using Open Source BI-RADS Data Exemplifying Potential Future Use},
  author={Ghosh, Adarsh},
  journal={Journal of the American College of Radiology},
  volume={16},
  number={1},
  pages={64--72},
  year={2019},
  publisher={Elsevier}
}

@inproceedings{Igarashi:2016:IVS:2984511.2984537,
 author={Igarashi, Takeo and Shono, Naoyuki and Kin, Taichi and Saito, Toki},
 title={{Interactive Volume Segmentation with Threshold Field Painting}},
 booktitle={Annual Symposium on User Interface Software and Technology (UIST)},
 year={2016},
 pages={403--413},
 doi={10.1145/2984511.2984537},
 publisher={ACM},
 address={New York, NY, USA},
}

@inproceedings{Ocegueda-Hernandez:2016:CMN:2876456.2879485,
 author={Ocegueda-Hern\'{a}ndez, Vladimir and Mendizabal-Ruiz, Gerardo},
 title={{Computational Methods for the Natural and Intuitive Visualization of Volumetric Medical Data}},
 booktitle={Int'l Conf. Intelligent User Interfaces (IUI)},
 year={2016},
 pages={54--57},
 doi={10.1145/2876456.2879485},
 publisher={ACM},
 address={New York, NY, USA},
}

@inproceedings{Sousa:2017:VVR:3025453.3025566,
 author={Sousa, Maur\'{\i}cio and Mendes, Daniel and Paulo, Soraia and Matela, Nuno and Jorge, Joaquim and Lopes, Daniel Sim\~{o}es},
 title={{VRRRRoom: Virtual Reality for Radiologists in the Reading Room}},
 booktitle={Conf. Human Factors in Computing Systems (CHI)},
 year={2017},
 location={Denver, Colorado, USA},
 pages={4057--4062},
 doi={10.1145/3025453.3025566},
 publisher={ACM},
 address={New York, NY, USA},
}

@article{faraji2019radiologic,
  title={Radiologic Modalities and Response Assessment Schemes for Clinical and Preclinical Oncology Imaging},
  author={Faraji, Farshid and Gaba, Ron C},
  journal={Frontiers in Oncology},
  volume={9},
  year={2019},
  publisher={Frontiers Media SA},
  pages={1--12},
  numpages={12}
}

@inproceedings{seifabadi2019correlation,
  title={Correlation of ultrasound tomography to MRI and pathology for the detection of prostate cancer},
  author={Seifabadi, Reza and Cheng, Alexis and Malik, Bilal and Kishimoto, Shun and Wiskin, James and Munasinghe, Jeeva and Negussie, Ayele H and Bakhutashvili, Ivane and Krishna, Murali C and Choyke, Peter and others},
  booktitle={Medical Imaging 2019: Ultrasonic Imaging and Tomography},
  volume={10955},
  pages={109550C},
  year={2019},
  organization={International Society for Optics and Photonics}
}

@article{Lopes:2017:UHC:3143820.3144118,
 author = {Lopes, Daniel Simes and Parreira, Pedro Duarte de Figueiredo and Paulo, Soraia Figueiredo and Nunes, Vitor and Rego, Paulo Amaral and Neves, Manuel Cassiano and Rodrigues, Pedro Silva and Jorge, Joaquim Armando},
 title = {On the Utility of 3D Hand Cursors to Explore Medical Volume Datasets with a Touchless Interface},
 journal = {J. of Biomedical Informatics},
 issue_date = {August 2017},
 volume = {72},
 number = {C},
 month = aug,
 year = {2017},
 issn = {1532-0464},
 pages = {140--149},
 numpages = {10},
 url = {https://doi.org/10.1016/j.jbi.2017.07.009},
 doi = {10.1016/j.jbi.2017.07.009},
 acmid = {3144118},
 publisher = {Elsevier Science},
 address = {San Diego, USA},
 keywords = {2Dtwo-dimensional, 3D hand cursor, 3Dthree-dimensional, Bi-manual gestures, CTcomputed tomography, DICOMdigital imaging and communications in medicine, GUIgraphical user interface, LANlocal wireless network, MRImagnetic resonance imaging, Medical volume data, Mmean, SDstandard deviation, Touchless interface, USBuniversal serial bus, User study, VEVoxel Explorer, VolVolview, WIMPwindows-icons-menus-pointers},
}

@inproceedings{lopes2018interaction,
  title={Interaction techniques for immersive ct colonography: A professional assessment},
  author={Lopes, Daniel Simoes and Medeiros, Daniel and Paulo, Soraia Figueiredo and Borges, Pedro Brasil and Nunes, Vitor and Mascarenhas, Vasco and Veiga, Marcos and Jorge, Joaquim Armando},
  booktitle={International Conference on Medical Image Computing and Computer-Assisted Intervention},
  pages={629--637},
  year={2018},
  organization={Springer}
}

@inproceedings{Dove:2017:UDI:3025453.3025739,
 author = {Dove, Graham and Halskov, Kim and Forlizzi, Jodi and Zimmerman, John},
 title = {UX Design Innovation: Challenges for Working with Machine Learning As a Design Material},
 booktitle = {Proceedings of the 2017 CHI Conference on Human Factors in Computing Systems},
 series = {CHI '17},
 year = {2017},
 isbn = {978-1-4503-4655-9},
 location = {Denver, Colorado, USA},
 pages = {278--288},
 numpages = {11},
 url = {http://doi.acm.org/10.1145/3025453.3025739},
 doi = {10.1145/3025453.3025739},
 acmid = {3025739},
 publisher = {ACM},
 address = {New York, NY, USA},
 keywords = {design material, interaction design, machine learning, ux practice},
}

@article{boughey2016identification,
  title={Identification and resection of the clipped node decreases the false negative rate of sentinel lymph node surgery in patients presenting with node positive breast cancer (T0-T4, N1-2) who receive neoadjuvant chemotherapy--results from ACOSOG Z1071 (Alliance)},
  author={Boughey, Judy C and Ballman, Karla V and Le-Petross, Huong T and McCall, Linda M and Mittendorf, Elizabeth A and Ahrendt, Gretchen M and Wilke, Lee G and Taback, Bret and Feliberti, Eric C and Hunt, Kelly K},
  journal={Annals of surgery},
  volume={263},
  number={4},
  pages={802},
  year={2016},
  publisher={NIH Public Access}
}

@article{dialani2015role,
  title={Role of imaging in neoadjuvant therapy for breast cancer},
  author={Dialani, Vandana and Chadashvili, Tamuna and Slanetz, Priscilla J},
  journal={Annals of surgical oncology},
  volume={22},
  number={5},
  pages={1416--1424},
  year={2015},
  publisher={Springer}
}

@article{seref2019performance,
  title={Performance of Na{\"\i}ve and Complement Na{\"\i}ve Bayes Algorithms Based on Accuracy, Precision and Recall Performance Evaluation Criterions},
  author={Seref, Berna and Bostanci, Erkan},
  journal={International Journal of Computing},
  volume={8},
  number={5},
  pages={75--92},
  year={2019}
}

@inproceedings{10.1145/3290605.3300233,
author = {Amershi, Saleema and Weld, Dan and Vorvoreanu, Mihaela and Fourney, Adam and Nushi, Besmira and Collisson, Penny and Suh, Jina and Iqbal, Shamsi and Bennett, Paul N. and Inkpen, Kori and Teevan, Jaime and Kikin-Gil, Ruth and Horvitz, Eric},
title = {Guidelines for Human-AI Interaction},
year = {2019},
isbn = {9781450359702},
publisher = {Association for Computing Machinery},
address = {New York, NY, USA},
url = {https://doi.org/10.1145/3290605.3300233},
doi = {10.1145/3290605.3300233},
booktitle = {Proceedings of the 2019 CHI Conference on Human Factors in Computing Systems},
pages = {1–13},
numpages = {13},
keywords = {design guidelines, human-ai interaction, ai-infused systems},
location = {Glasgow, Scotland Uk},
series = {CHI ’19}
}

@article{waite2017tired,
  title={Tired in the reading room: the influence of fatigue in radiology},
  author={Waite, Stephen and Kolla, Srinivas and Jeudy, Jean and Legasto, Alan and Macknik, Stephen L and Martinez-Conde, Susana and Krupinski, Elizabeth A and Reede, Deborah L},
  journal={Journal of the American College of Radiology},
  volume={14},
  number={2},
  pages={191--197},
  year={2017},
  publisher={Elsevier}
}

@article{chatelain2018evaluation,
  title={Evaluation of Gaze Tracking Calibration for Longitudinal Biomedical Imaging Studies},
  author={Chatelain, Pierre and Sharma, Harshita and Drukker, Lior and Papageorghiou, Aris T and Noble, J Alison},
  journal={IEEE transactions on cybernetics},
  volume={50},
  number={99},
  pages={1--11},
  year={2018},
  publisher={IEEE}
}

@article{miglioretti2007radiologist,
  title={Radiologist characteristics associated with interpretive performance of diagnostic mammography},
  author={Miglioretti, Diana L and Smith-Bindman, Rebecca and Abraham, Linn and Brenner, R James and Carney, Patricia A and Bowles, Erin J Aiello and Buist, Diana SM and Elmore, Joann G},
  journal={Journal of the National Cancer Institute},
  volume={99},
  number={24},
  pages={1854--1863},
  year={2007},
  publisher={Oxford University Press}
}

@inproceedings{Sultanum:2018:MTP:3173574.3173996,
 author={Sultanum, Nicole and Brudno, Michael and Wigdor, Daniel and Chevalier, Fanny},
 title={{More Text Please! Understanding and Supporting the Use of Visualization for Clinical Text Overview}},
 booktitle={Conf. Human Factors in Computing Systems (CHI)},
 year={2018},
 pages={1--13},
 volume={422},
 doi={10.1145/3173574.3173996},
 publisher={ACM},
 address={New York, NY, USA},
}

@inproceedings{aghaei2018association,
  title={{Association between background parenchymal enhancement of breast MRI and BIRADS rating change in the subsequent screening}},
  author={Aghaei, Faranak and Mirniaharikandehei, Seyedehnafiseh and Hollingsworth, Alan B and Stoug, Rebecca G and Pearce, Melanie and Liu, Hong and Zheng, Bin},
  booktitle={Medical Imaging 2018: Imaging Informatics for Healthcare, Research, and Applications},
  volume={10579},
  pages={1--8},
  year={2018},
  publisher={SPIE},
  address={Houston, Texas, United States}
}

@inproceedings{10.1145/3025453.3025873,
author = {Wilde, Danielle and Vallg\r{a}rda, Anna and Tomico, Oscar},
title = {Embodied Design Ideation Methods: Analysing the Power of Estrangement},
year = {2017},
isbn = {9781450346559},
publisher = {Association for Computing Machinery},
address = {New York, NY, USA},
url = {https://doi.org/10.1145/3025453.3025873},
doi = {10.1145/3025453.3025873},
booktitle = {Proceedings of the 2017 CHI Conference on Human Factors in Computing Systems},
pages = {5158–5170},
numpages = {13},
keywords = {embodiment, disruption, design research, design methods, ideation, estrangement},
location = {Denver, Colorado, USA},
series = {CHI ’17}
}

@inproceedings{chen2019learning,
  title={Learning Active Contour Models for Medical Image Segmentation},
  author={Chen, Xu and Williams, Bryan M and Vallabhaneni, Srinivasa R and Czanner, Gabriela and Williams, Rachel and Zheng, Yalin},
  booktitle={Proceedings of the IEEE Conference on Computer Vision and Pattern Recognition},
  pages={11632--11640},
  year={2019},
  publisher={IEEE},
  address={Long Beach, CA, USA}
}

@article{urban2017lesiontracker,
  title={{LesionTracker: Extensible open-source zero-footprint web viewer for cancer imaging research and clinical trials}},
  author={Urban, Trinity and Ziegler, Erik and Lewis, Rob and Hafey, Chris and Sadow, Cheryl and Van den Abbeele, Annick D and Harris, Gordon J},
  journal={Cancer Research},
  volume={77},
  number={21},
  pages={119--122},
  year={2017},
  publisher={AACR}
}

@book{10.5555/3002437,
author = {Farrell, Eve},
title = {Nodejs Winner},
year = {2016},
isbn = {152333830X},
publisher = {CreateSpace Independent Publishing Platform},
address = {North Charleston, SC, USA}
}

@article{drnasin2017javascript,
  title={JavaScript access to DICOM network and objects in web browser},
  author={Drnasin, Ivan and Grgi{\'c}, Mislav and Gogi{\'c}, Goran},
  journal={Journal of digital imaging},
  volume={30},
  number={5},
  pages={537--546},
  year={2017},
  publisher={Springer}
}

@article{depeursinge2011mobile,
  title={Mobile medical visual information retrieval},
  author={Depeursinge, Adrien and Duc, Samuel and Eggel, Ivan and Muller, Henning},
  journal={IEEE Transactions on information technology in biomedicine},
  volume={16},
  number={1},
  pages={53--61},
  year={2011},
  publisher={IEEE}
}

@inproceedings{10.1117/12.2285952,
author = {G. Gustin and B. Macq and D. Gruson and S. Kieffer},
title = {{Empowerment of diabetic patients through mHealth technologies and education: development of a pilot self-management application}},
volume = {10572},
booktitle = {13th International Conference on Medical Information Processing and Analysis},
editor = {Eduardo Romero and Natasha Lepore and Jorge Brieva and Juan David García},
organization = {International Society for Optics and Photonics},
publisher = {SPIE},
pages = {167 -- 177},
keywords = {Diabetes management, Mobile health, E-health, Functional insulin therapy, Flexible insulin therapy, Bolus caculator, Patient education, Patient empowerment},
year = {2017},
doi = {10.1117/12.2285952},
URL = {https://doi.org/10.1117/12.2285952},
address = {San Andres Island, Colombia}
}

@inproceedings{zhang2015dicom,
  title={DICOM index tracker enterprise: advanced system for enterprise-wide quality assurance and patient safety monitoring},
  author={Zhang, Min and Pavlicek, William and Panda, Anshuman and Langer, Steve G and Morin, Richard and Fetterly, Kenneth A and Paden, Robert and Hanson, James and Wu, Lin-Wei and Wu, Teresa},
  booktitle={Medical Imaging 2015: PACS and Imaging Informatics: Next Generation and Innovations},
  volume={9418},
  pages={94180L},
  year={2015},
  organization={International Society for Optics and Photonics}
}

@article{Jodogne2018,
  author={Jodogne, S{\'e}bastien},
  title={{The Orthanc Ecosystem for Medical Imaging}},
  journal={Journal of Digital Imaging},
  year={2018},
  volume={31},
  number={3},
  pages={341--352},
  doi={10.1007/s10278-018-0082-y},
  publisher={Springer}
}

@article{schoorman2016perspective,
  title={Perspective: Empowerment in veterinary clinics: the role of trust in delegation},
  author={Schoorman, F David and Mayer, Roger C and Davis, James H},
  journal={Journal of Trust Research},
  volume={6},
  number={1},
  pages={91--95},
  year={2016},
  publisher={Taylor \& Francis}
}

@article{esteva2019guide,
  title={A guide to deep learning in healthcare},
  author={Esteva, Andre and Robicquet, Alexandre and Ramsundar, Bharath and Kuleshov, Volodymyr and DePristo, Mark and Chou, Katherine and Cui, Claire and Corrado, Greg and Thrun, Sebastian and Dean, Jeff},
  journal={Nature medicine},
  volume={25},
  number={1},
  pages={24},
  year={2019},
  publisher={Nature Publishing Group}
}

@InProceedings{10.1007/978-3-030-22871-2_67,
author="Meacham, Sofia
and Isaac, Georgia
and Nauck, Detlef
and Virginas, Botond",
editor="Arai, Kohei
and Bhatia, Rahul
and Kapoor, Supriya",
title="Towards Explainable AI: Design and Development for Explanation of Machine Learning Predictions for a Patient Readmittance Medical Application",
booktitle="Intelligent Computing",
year="2019",
publisher="Springer International Publishing",
address="Cham",
pages="939--955",
abstract="The need for explainability of AI algorithms has been identified in the literature for some time now. However, recently became even more important due to new data protection act rules (GDPR 2018) and due to the requirements for wider applicability of AI to several application areas. BT's autonomics team has recognized this through several sources and identified the vitality of AI algorithms explainability to ensure their adoption and commercialization. In this paper, we designed and developed a system providing explanations for a prediction of patient readmittance using machine learning. The requirements and the evaluation were set by BT through their projects with real-customers in the medical domain. A logistic regression machine learning algorithm was implemented with explainability ``hooks'' embedded in its code and the corresponding interfaces to the users of the system were implemented through a web interface. Python-based technologies were utilized for the implementation of the algorithm (Scikit-learn) and the web interface (web2py), and the system was evaluated through thorough testing and feedback. Initial trade-off analysis of such an approach that presents the overhead introduced by adding explainability versus the benefits was performed. Lastly, conclusions and future work are presented, considering experimentation with more algorithms and application of software engineering methods such as abstraction to the aid of explainable AI, leading further along to ``explainability by design''.",
isbn="978-3-030-22871-2"
}

@article{lecun2015deep,
  title={Deep learning},
  author={LeCun, Yann and Bengio, Yoshua and Hinton, Geoffrey},
  journal={nature},
  volume={521},
  number={7553},
  pages={436},
  year={2015},
  publisher={Nature Publishing Group}
}

@article{esteva2017dermatologist,
  title={Dermatologist-level classification of skin cancer with deep neural networks},
  author={Esteva, Andre and Kuprel, Brett and Novoa, Roberto A and Ko, Justin and Swetter, Susan M and Blau, Helen M and Thrun, Sebastian},
  journal={Nature},
  volume={542},
  number={7639},
  pages={115},
  year={2017},
  publisher={Nature Publishing Group}
}

@INPROCEEDINGS{8759179,  author={D. O. {Medley} and C. {Santiago} and J. C. {Nascimento}},  booktitle={2019 IEEE 16th International Symposium on Biomedical Imaging (ISBI 2019)},   title={Segmenting The Left Ventricle In Cardiac In Cardiac MRI: From Handcrafted To Deep Region Based Descriptors},   year={2019},  volume={},  number={},  pages={644-648},
publisher={IEEE},
address={Venice, Italy}
}

@article{MAICAS2019101562,
title = "Pre and post-hoc diagnosis and interpretation of malignancy from breast DCE-MRI",
journal = "Medical Image Analysis",
volume = "58",
pages = "101562",
year = "2019",
issn = "1361-8415",
doi = "https://doi.org/10.1016/j.media.2019.101562",
url = "http://www.sciencedirect.com/science/article/pii/S1361841518306893",
author = "Gabriel Maicas and Andrew P. Bradley and Jacinto C. Nascimento and Ian Reid and Gustavo Carneiro",
keywords = "Magnetic resonance imaging, Breast screening, Meta-learning, Few-shot learning, Weakly supervised learning, Strongly supervised learning, Model interpretation, Lesion detection, Deep reinforcement learning",
abstract = "We propose a new method for breast cancer screening from DCE-MRI based on a post-hoc approach that is trained using weakly annotated data (i.e., labels are available only at the image level without any lesion delineation). Our proposed post-hoc method automatically diagnosis the whole volume and, for positive cases, it localizes the malignant lesions that led to such diagnosis. Conversely, traditional approaches follow a pre-hoc approach that initially localises suspicious areas that are subsequently classified to establish the breast malignancy – this approach is trained using strongly annotated data (i.e., it needs a delineation and classification of all lesions in an image). We also aim to establish the advantages and disadvantages of both approaches when applied to breast screening from DCE-MRI. Relying on experiments on a breast DCE-MRI dataset that contains scans of 117 patients, our results show that the post-hoc method is more accurate for diagnosing the whole volume per patient, achieving an AUC of 0.91, while the pre-hoc method achieves an AUC of 0.81. However, the performance for localising the malignant lesions remains challenging for the post-hoc method due to the weakly labelled dataset employed during training."
}

@article{cole2017predicting,
  title={Predicting brain age with deep learning from raw imaging data results in a reliable and heritable biomarker},
  author={Cole, James H and Poudel, Rudra PK and Tsagkrasoulis, Dimosthenis and Caan, Matthan WA and Steves, Claire and Spector, Tim D and Montana, Giovanni},
  journal={NeuroImage},
  volume={163},
  pages={115--124},
  year={2017},
  publisher={Elsevier}
}

@inproceedings{gonzalez2018deep,
  title={Deep learning for biomarker regression: application to osteoporosis and emphysema on chest CT scans},
  author={Gonz{\'a}lez, Germ{\'a}n and Washko, George R and Est{\'e}par, Ra{\'u}l San Jos{\'e}},
  booktitle={Medical Imaging 2018: Image Processing},
  volume={10574},
  pages={105741H},
  year={2018},
  organization={International Society for Optics and Photonics},
  publisher={SPIE Medical Imaging},
  address={Houston, Texas, United States}
}

@article{wang2019deep,
  title={Deep learning provides a new computed tomography-based prognostic biomarker for recurrence prediction in high-grade serous ovarian cancer},
  author={Wang, Shuo and Liu, Zhenyu and Rong, Yu and Zhou, Bin and Bai, Yan and Wei, Wei and Wang, Meiyun and Guo, Yingkun and Tian, Jie},
  journal={Radiotherapy and Oncology},
  volume={132},
  pages={171--177},
  year={2019},
  publisher={Elsevier}
}

@article{burr2018analysis,
  title={An Analysis of the Interaction Between Intelligent Software Agents and Human Users},
  author={Burr, Christopher and Cristianini, Nello and Ladyman, James},
  journal={Minds and machines},
  volume={28},
  number={4},
  pages={735--774},
  year={2018},
  publisher={Springer}
}

@article{johnson2016face,
  title={Face-to-face interaction with pedagogical agents, twenty years later},
  author={Johnson, W Lewis and Lester, James C},
  journal={International Journal of Artificial Intelligence in Education},
  volume={26},
  number={1},
  pages={25--36},
  year={2016},
  publisher={Springer}
}

@article{mou2017media,
  title={The media inequality: Comparing the initial human-human and human-AI social interactions},
  author={Mou, Yi and Xu, Kun},
  journal={Computers in Human Behavior},
  volume={72},
  pages={432--440},
  year={2017},
  publisher={Elsevier}
}

@article{miller2019intrinsically,
  title={The intrinsically linked future for human and Artificial Intelligence interaction},
  author={Miller, Anthony},
  journal={Journal of Big Data},
  volume={6},
  number={1},
  pages={38},
  year={2019},
  publisher={Springer}
}

@inproceedings{chattopadhyay2017evaluating,
  title={Evaluating visual conversational agents via cooperative human-ai games},
  author={Chattopadhyay, Prithvijit and Yadav, Deshraj and Prabhu, Viraj and Chandrasekaran, Arjun and Das, Abhishek and Lee, Stefan and Batra, Dhruv and Parikh, Devi},
  booktitle={Fifth AAAI Conference on Human Computation and Crowdsourcing},
  year={2017},
  publisher={AAAI},
  address={Québec City, Québec, Canada},
  pages={2--10},
  numpages={9}
}

@article{azuaje2019artificial,
  title={Artificial intelligence for precision oncology: beyond patient stratification},
  author={Azuaje, Francisco},
  journal={NPJ precision oncology},
  volume={3},
  number={1},
  pages={6},
  year={2019},
  publisher={Nature Publishing Group}
}

@article{chin2018clinical,
  title={Clinical judgement in the era of big data and predictive analytics},
  author={Chin-Yee, Benjamin and Upshur, Ross},
  journal={Journal of evaluation in clinical practice},
  volume={24},
  number={3},
  pages={638--645},
  year={2018},
  publisher={Wiley Online Library}
}

@article{lau2018dataset,
  title={A dataset of clinically generated visual questions and answers about radiology images},
  author={Lau, Jason J and Gayen, Soumya and Abacha, Asma Ben and Demner-Fushman, Dina},
  journal={Scientific data},
  volume={5},
  pages={180251},
  year={2018},
  publisher={Nature Publishing Group}
}

@article{price2018big,
  title={Big data and black-box medical algorithms},
  author={Price, W Nicholson},
  journal={Science translational medicine},
  volume={10},
  number={471},
  pages={eaao5333},
  year={2018},
  publisher={American Association for the Advancement of Science}
}

@inproceedings{10.1145/604045.604056,
author = {Fails, Jerry Alan and Olsen, Dan R.},
title = {Interactive Machine Learning},
year = {2003},
isbn = {1581135866},
publisher = {Association for Computing Machinery},
address = {New York, NY, USA},
url = {https://doi.org/10.1145/604045.604056},
doi = {10.1145/604045.604056},
booktitle = {Proceedings of the 8th International Conference on Intelligent User Interfaces},
pages = {39–45},
numpages = {7},
keywords = {image processing, perceptive user interfaces, classification, interaction, machine learning},
location = {Miami, Florida, USA},
series = {IUI ’03}
}

@article{holzinger2016interactive,
  title={Interactive machine learning for health informatics: when do we need the human-in-the-loop?},
  author={Holzinger, Andreas},
  journal={Brain Informatics},
  volume={3},
  number={2},
  pages={119--131},
  year={2016},
  publisher={Springer}
}

@inproceedings{aha2017ai,
  title={The AI rebellion: Changing the narrative},
  author={Aha, David W and Coman, Alexandra},
  booktitle={Thirty-First AAAI Conference on Artificial Intelligence},
  year={2017},
  publisher={AAAI},
  address={San Francisco, California, USA},
  pages={4826--4830},
  numpages={5}
}

@article{mckinney2020international,
  title={International evaluation of an AI system for breast cancer screening},
  author={McKinney, Scott Mayer and Sieniek, Marcin and Godbole, Varun and Godwin, Jonathan and Antropova, Natasha and Ashrafian, Hutan and Back, Trevor and Chesus, Mary and Corrado, Greg C and Darzi, Ara and others},
  journal={Nature},
  volume={577},
  number={7788},
  pages={89--94},
  year={2020},
  publisher={Nature Publishing Group}
}

repository: mida-project/ates-reports

repo_name: mida-project/ates-reports


text:
@article{Larovere_2003,
  doi = {10.1258/000456303766477039},
  url = {https://doi.org/10.1258\%2F000456303766477039},
  year = 2003,
  month = {jul},
  publisher = {{SAGE} Publications},
  volume = {40},
  number = {4},
  pages = {388--393},
  author = {L. E. Larovere and R. D. de Kremer and L. H. J. Lambooy and R. A. De Abreu},
  title = {Genetic polymorphism of thiopurine S-methyltransferase in Argentina},
  journal = {Annals of Clinical Biochemistry}
}

repository: larmcr/px

repo_name: larmcr/px


text:
@inproceedings{Mueller2016,
 abstract = {Having lung cancer is associated with accessibility issues because people afflicted with lung cancer tend to be older and less familiar with technology, and have low education levels and low health literacy. Fear, embarrassment and stigmatization also play a role. This makes it difficult for people to access the information they need to understand and manage their illness, particularly in the time before the diagnosis. We can mitigate these disadvantages and bridge the accessibility gap by ensuring people at risk for lung cancer are informed about symptoms and when to seek medical advice. The Web is uniquely placed to fulfill this role. We therefore developed an online lung cancer symptom appraisal tool tailored towards people with low education levels and health literacy and based on psychological theory to target barriers like fear and embarrassment. At present we are conducting a feasibility study to assess whether it is possible to reach the high risk population and encourage early help-seeking. So far, 97 users have participated, 97.9% of which report symptoms and risk factors that indicate they should seek medical help. 34% report education levels below school leaving qualification. Our tool led to a significantly higher intention to seek medical help than the same information without theory-based components (p = 0.01). Our initial analyses suggest this is a suitable approach to widening health education to excluded groups. Copyright is held by the owner/author(s).},
 author = {Mueller, J. and Davies, A. and Harper, S. and Jay, C. and Todd, C.},
 booktitle = {W4A 2016 - 13th Web for All Conference},
 doi = {10.1145/2899475.2899495},
 isbn = {9781450341387},
 keywords = {Feasibility,Health education,Lung cancer,Online health information,Patient empowerment,Symptom appraisal},
 title = {Widening access to online health education for lung cancer: A feasibility study},
 year = {2016}
}

repository: sharpic/academic-kickstart

repo_name: sharpic/academic-kickstart


text:
.homeworld-highlight {
    color: yellow;
}

body {
    color: #ffffff;
}

/* Don't make the color of text input white, though. */
input,
textarea,
select,
option {
    color: black;
    font-weight: normal;
}

.ui.form .grouped.fields > label {
    color: white;
}
.ui.checkbox label,
.ui.checkbox + label {
    color: white;
}
.ui.form .field > label {
    color: white;
}

/* Fix incoming ships position. */
#notify_c {
    position: absolute;
    right: 15px;
    top: 100px;
    z-index: 2000;
}

/* Fix labels on react-tabs tabs. */
.react-tabs [role='tab'][aria-selected='true'] {
    color: black;
}

/* Fix tooltips hiding behind things. */
.__react_component_tooltip {
    z-index: 2147483647 !important;
    opacity: 1 !important;
}

/* Disabled buttons block pointer events (eg 'hover' for tooltips). We don't want that. */
.ui.button.disabled {
    pointer-events: all !important;
}

/* Planet list items should have pointy cursors. ;) */
a.item {
    cursor: pointer;
}

repository: communityus/ka-web

repo_name: communityus/ka-web

gha_license_id: NOASSERTION


text:
.name_input{
	line-height: 40px;
	border-radius: 10px;
	outline: none;
	border: 0 ;
}
.name_save{
	margin-top:20%;
}
.zh_save{
	outline: none;
	border: 0;
}
.zh_btn{
	z-index: 2;
	margin-left: -5px;
	margin-top: 4px;
}

.zh_save a:hover,.zh_save a:link,.zh_save a:visited,.zh_save a:active{
	color: white;
	text-decoration: none;
}
.left_nav a:hover,.left_nav a:link,.left_nav a:visited,.left_nav a:active{
	color: white;
	text-decoration: none;
}


text:
# Find the Qwt 6.x includes and library, either the version linked to Qt3 or the version linked to Qt4
#
# On Windows it makes these assumptions:
#    - the Qwt DLL is where the other DLLs for Qt are (QT_DIR\bin) or in the path
#    - the Qwt .h files are in QT_DIR\include\Qwt or in the path
#    - the Qwt .lib is where the other LIBs for Qt are (QT_DIR\lib) or in the path
#
# Qwt6_INCLUDE_DIR - where to find qwt.h if Qwt
# Qwt6_LIBRARY - The Qwt6 library linked against Qt4 (if it exists)
# Qwt6_FOUND - Set to TRUE if Qwt6 was found (linked either to Qt3 or Qt4)

# Copyright (c) 2007, Pau Garcia i Quiles, <pgquiles@elpauer.org>
#
# Redistribution and use is allowed according to the terms of the BSD license.
# For details see the accompanying COPYING-CMAKE-SCRIPTS file.

# Condition is "(A OR B) AND C", CMake does not support parentheses but it evaluates left to right
IF(Qwt6_LIBRARY AND Qwt6_INCLUDE_DIR)
    SET(Qwt6_FIND_QUIETLY TRUE)
ENDIF(Qwt6_LIBRARY AND Qwt6_INCLUDE_DIR)

IF(NOT QT4_FOUND)
  FIND_PACKAGE( Qt4 REQUIRED QUIET )
ENDIF(NOT QT4_FOUND)

IF( QT4_FOUND )
  # Is Qwt6 installed? Look for header files
  FIND_PATH( Qwt6_INCLUDE_DIR qwt.h
               PATHS ${QT_INCLUDE_DIR} /usr/local/qwt6/include /usr/include/qwt6 ${QWT_DIR}/include ${QWT_DIR}/src
               PATH_SUFFIXES qwt qwt6 qwt-qt4 qwt6-qt4 include qwt/include qwt6/include qwt-qt4/include qwt6-qt4/include ENV PATH)

  # Find Qwt version
  IF( Qwt6_INCLUDE_DIR )
    FILE( READ ${Qwt6_INCLUDE_DIR}/qwt_global.h QWT_GLOBAL_H )
    STRING( REGEX MATCH "#define *QWT_VERSION *(0x06*)" QWT_IS_VERSION_6 ${QWT_GLOBAL_H})

    IF( QWT_IS_VERSION_6 )
      STRING(REGEX REPLACE ".*#define[\\t\\ ]+QWT_VERSION_STR[\\t\\ ]+\"([0-9]+\\.[0-9]+\\.[0-9]+)\".*" "\\1" Qwt_VERSION "${QWT_GLOBAL_H}")

      # Find Qwt6 library linked to Qt4
      IF (UNIX)
        # General purpose method
        FIND_LIBRARY( Qwt6_Qt4_TENTATIVE_LIBRARY NAMES qwt6-qt4 qwt-qt4 qwt6 qwt PATHS /usr/local/qwt/lib /usr/local/lib /usr/lib )
        IF( UNIX AND NOT CYGWIN AND NOT APPLE)
          IF( Qwt6_Qt4_TENTATIVE_LIBRARY )
            #MESSAGE("Qwt6_Qt4_TENTATIVE_LIBRARY = ${Qwt6_Qt4_TENTATIVE_LIBRARY}")
            EXECUTE_PROCESS( COMMAND "ldd" ${Qwt6_Qt4_TENTATIVE_LIBRARY} OUTPUT_VARIABLE Qwt_Qt4_LIBRARIES_LINKED_TO )
            STRING( REGEX MATCH "QtCore" Qwt6_IS_LINKED_TO_Qt4 ${Qwt_Qt4_LIBRARIES_LINKED_TO})
            IF( Qwt6_IS_LINKED_TO_Qt4 )
              SET( Qwt6_LIBRARY ${Qwt6_Qt4_TENTATIVE_LIBRARY} )
              SET( Qwt6_FOUND TRUE )
              IF (NOT Qwt6_FIND_QUIETLY)
                MESSAGE( STATUS "Found Qwt: ${Qwt6_Qt4_LIBRARY}" )
              ENDIF (NOT Qwt6_FIND_QUIETLY)
            ENDIF( Qwt6_IS_LINKED_TO_Qt4 )
          ENDIF( Qwt6_Qt4_TENTATIVE_LIBRARY )
        ELSE( UNIX AND NOT CYGWIN AND NOT APPLE)
        # Assumes qwt.dll is in the Qt dir
          SET( Qwt6_LIBRARY ${Qwt6_Qt4_TENTATIVE_LIBRARY} )
          SET( Qwt6_FOUND TRUE )
          IF (NOT Qwt6_FIND_QUIETLY)
            MESSAGE( STATUS "Found Qwt version ${Qwt_VERSION} linked to Qt4" )
          ENDIF (NOT Qwt6_FIND_QUIETLY)
        ENDIF( UNIX AND NOT CYGWIN AND NOT APPLE)

      ELSE (UNIX)
        IF (MSVC)
          # Ad-hoc windows method for MSVC
          # At this time assumes Qt4 version
          FIND_LIBRARY(QWT6_LIBRARY_RELEASE
            NAMES qwt.lib
            PATHS ${QWT_DIR}/lib)
          FIND_LIBRARY(QWT6_LIBRARY_DEBUG
            NAMES qwtd.lib
            PATHS ${QWT_DIR}/lib)
          win32_tune_libs_names (QWT6)

          SET (Qwt6_LIBRARY ${QWT6_LIBRARIES})

          IF (QWT6_LIBRARIES)
            SET( Qwt6_FOUND TRUE )
            IF (NOT Qwt6_FIND_QUIETLY)
              MESSAGE( STATUS "Found Qwt version ${Qwt_VERSION} linked to Qt4" )
            ENDIF (NOT Qwt6_FIND_QUIETLY)
          ENDIF (QWT6_LIBRARIES)
        ELSE (MSVC)
          FIND_LIBRARY(QWT6_LIBRARY
            NAMES libqwt.a
            PATHS ${QWT_DIR}/lib)

          IF (QWT6_LIBRARIES)
            SET( Qwt6_FOUND TRUE )
            IF (NOT Qwt6_FIND_QUIETLY)
              MESSAGE( STATUS "Found Qwt version ${Qwt_VERSION} linked to Qt4" )
            ENDIF (NOT Qwt6_FIND_QUIETLY)
          ENDIF (QWT6_LIBRARIES)
        ENDIF (MSVC)
      ENDIF (UNIX)

    ENDIF( QWT_IS_VERSION_6 )

    MARK_AS_ADVANCED( Qwt6_INCLUDE_DIR Qwt6_LIBRARY )
  ENDIF( Qwt6_INCLUDE_DIR )

     IF (NOT Qwt6_FOUND AND Qwt6_FIND_REQUIRED)
          MESSAGE(FATAL_ERROR "Could not find Qwt 6.x")
     ENDIF (NOT Qwt6_FOUND AND Qwt6_FIND_REQUIRED)

ENDIF( QT4_FOUND )

repository: MPogoda/afc-coursework

repo_name: MPogoda/afc-coursework

extension: cmake


text:
@article{Yang2018,
author = {Yang, Yuguang and Bevan, Michael A},
doi = {10.1021/acsnano.8b05371},
file = {:E$\backslash$:/Dropbox/researchPapers2019/colloids/optimal navigation of self-propelled colloids.pdf:pdf},
journal = {ACS Nano},
keywords = {1,3 such self-,active colloids,bacteria and sperm,fabricate synthetic self-propelled particles,feedback control,fi rst passage time,fractal mazes,have been made to,markov decision process,microscopic swimmers,nspired by the natural,recent e ff orts,such as},
title = {{Optimal Navigation of Self-Propelled Colloids}},
year = {2018}
}
@article{Edwards2015,
author = {Edwards, Tara D and Yang, Yuguang and Everett, W Neil and Bevan, Michael A},
doi = {10.1038/srep13612},
file = {:E$\backslash$:/Dropbox/researchPapers2019/colloids/Reconfgurable multi-scale colloidal assembly on excluded volume patterns.pdf:pdf},
journal = {Scientific Reports},
pages = {1--11},
publisher = {Nature Publishing Group},
title = {{Reconfigurable multi-scale colloidal assembly on excluded volume patterns}},
url = {http://dx.doi.org/10.1038/srep13612},
year = {2015}
}
@article{Han2012,
author = {Han, Lulu and Mao, Zhengwei and Wuliyasu, He and Wu, Jindan and Gong, Xiao and Yang, Yuguang and Gao, Changyou},
file = {:E$\backslash$:/Dropbox/researchPapers2019/colloids/Modulating the Structure and Properties of Poly.pdf:pdf},
journal = {Langmuir},
pages = {193--199},
title = {{Modulating the Structure and Properties of Poly(sodium 4-styrenesulfonate)/Poly(diallyldimethylammonium chloride) Multilayers with Concentrated Salt Solutions}},
year = {2012}
}
@article{Edwards2014,
abstract = {The ability to assemble nano- and micro- sized colloidal components into highly ordered configurations is often cited as the basis for developing advanced materials. However, the dynamics of stochastic grain boundary formation and motion have not been quantified, which limits the ability to control and anneal polycrystallinity in colloidal based materials. Here we use optical microscopy, Brownian Dynamic simulations, and a new dynamic analysis to study grain boundary motion in quasi-2D colloidal bicrystals formed within inhomogeneous AC electric fields. We introduce "low-dimensional" models using reaction coordinates for condensation and global order that capture first passage times between critical configurations at each applied voltage. The resulting models reveal that equal sized domains at a maximum misorientation angle show relaxation dominated by friction limited grain boundary diffusion; and in contrast, asymmetrically sized domains with less misorientation display much faster grain boundary migration due to significant thermodynamic driving forces. By quantifying such dynamics vs. compression (voltage), kinetic bottlenecks associated with slow grain boundary relaxation are understood, which can be used to guide the temporal assembly of defect-free single domain colloidal crystals.},
author = {Edwards, Tara D. and Yang, Yuguang and Beltran-Villegas, Daniel J. and Bevan, Michael A.},
doi = {10.1038/srep06132},
file = {:E$\backslash$:/Dropbox/researchPapers2019/colloids/Colloidal crystal grain boundary formation and motion.pdf:pdf},
issn = {20452322},
journal = {Scientific Reports},
pages = {1--8},
title = {{Colloidal crystal grain boundary formation and motion}},
volume = {4},
year = {2014}
}
@article{Tang2014,
abstract = {We propose a Markov decision based dynamic programming method to manipulate the self-assembly of a quadrupole colloidal system for grain-boundary-free two-dimensional crystals. To construct the optimal control policy, we developed a Markov chain model, based on information extracted from a Langevin dynamics simulation model, which originated from a more complicated Brownian dynamics model. An infinite-horizon Markov decision process is defined, and the optimal control policy is solved with dynamic programming using policy iteration. Both the Markov chain Monte Carlo and the Langevin dynamics simulation results demonstrate that the control strategy is able to significantly accelerate the crystallization of a SiO2 colloidal self-assembly process for a grain-boundary-free, highly ordered crystal. Future work will focus on implementation of the control policy on the Brownian dynamics simulation and the experiments. {\textcopyright} 2014 American Automatic Control Council.},
author = {Tang, Xun and Yang, Yuguang and Bevan, Michael A. and Grover, Martha A.},
doi = {10.1109/ACC.2014.6858853},
file = {:E$\backslash$:/Dropbox/researchPapers2019/colloids/Grain Boundary Control in Colloidal Self-Assembly with Dynamic Programming.pdf:pdf},
isbn = {9781479932726},
issn = {07431619},
journal = {Proceedings of the American Control Conference},
keywords = {Control applications,Markov processes,Optimal control},
pages = {1120--1125},
title = {{Grain boundary control in colloidal self-assembly with dynamic programming}},
year = {2014}
}
@article{Meng2017,
abstract = {We report chemical antagonism between photodynamic agents and chemotherapeutics and provide a solution to turn antagonism into synergism. We report a photochemical reaction-induced antagonism between the photodynamic agent (PS) and anti-cancer drugs during combined therapy. The annihilation of singlet oxygen and alkene-containing drugs into inactive drug hydroperoxides is responsible for the antagonism, and results in decreased efficacy against several cancer cell lines. Experimental and simulation results reveal that the annihilation abates with increasing distance between the PS and drugs via confining the PS and drugs into separated vehicles. As a result, antagonism can be switched to synergism in treating both drug sensitive and resistant cancer cells. },
author = {Meng, Qingshuo and Meng, Jia and Ran, Wei and Su, Jinghan and Yang, Yuguang and Zhang, Pengcheng and Li, Yaping},
doi = {10.1039/c7cc07465d},
file = {:E$\backslash$:/Dropbox/researchPapers2019/colloids/Chemical antagonism between photodynamic.pdf:pdf},
issn = {1364548X},
journal = {Chemical Communications},
number = {92},
pages = {12438--12441},
publisher = {Royal Society of Chemistry},
title = {{Chemical antagonism between photodynamic agents and chemotherapeutics: Mechanism and avoidance}},
volume = {53},
year = {2017}
}
@article{Torres-DIaz2018,
abstract = {We report an analytical model for energy landscapes of ellipsoidal particles in non-uniform high-frequency AC electric fields to identify all possible 3D positions and orientations. We report a closed-form analytical model for energy landscapes of ellipsoidal particles in non-uniform high-frequency AC electric fields to identify all possible particle positions and orientations. Three-dimensional equilibrium positions and orientations of prolate ( r x = r y {\textless} r z ), oblate ( r x = r z {\textgreater} r y ), and scalene ( r x ≠ r y ≠ r z ) ellipsoids are reported vs. field frequency and amplitude, which are determined from energy landscape minima. For ellipsoids within non-uniform electric fields between co-planar parallel electrodes, the number of configurations of position and orientation is 6 for prolate, 5 for oblate, and 9 for scalene ellipsoids. In addition, for coplanar electrodes, conditions are identified when particles can be treated using a quasi-2D analysis in the plane of their most probable elevation near an underlying surface. The reported expressions are valid for time-averaged interactions of ellipsoid particles in arbitrary AC electric field configurations, such that our results are applicable to electromagnetic tweezers interacting with particles having an appropriate material property contrast with the medium in the frequency range of interest. },
author = {Torres-D{\'{I}}az, Isaac and Rupp, Bradley and Yang, Yuguang and Bevan, Michael A.},
doi = {10.1039/c7sm02287e},
file = {:E$\backslash$:/Dropbox/researchPapers2019/colloids/Energy landscapes for ellipsoids in non-uniform.pdf:pdf},
issn = {17446848},
journal = {Soft Matter},
number = {6},
pages = {934--944},
title = {{Energy landscapes for ellipsoids in non-uniform AC electric fields}},
volume = {14},
year = {2018}
}
@article{Yang2015,
author = {Yang, Yuguang and Edwards, Tara D and Bevan, Michael A},
doi = {10.1016/j.jcis.2014.12.002},
file = {:E$\backslash$:/Dropbox/researchPapers2019/colloids/Modeling depletion mediated colloidal assembly on topographical.pdf:pdf},
issn = {0021-9797},
journal = {Journal of Colloid And Interface Science},
keywords = {patterned excluded volume,reconfigurable colloidal assembly,tunable depletion attraction},
pages = {270--278},
publisher = {Elsevier Inc.},
title = {{Modeling depletion mediated colloidal assembly on topographical patterns}},
url = {http://dx.doi.org/10.1016/j.jcis.2014.12.002},
volume = {449},
year = {2015}
}
@article{Yang2016,
abstract = {{\textcopyright} 2016 Author(s).Here we construct a low-dimensional Smoluchowski model for electric field mediated colloidal crystallization using Brownian dynamic simulations, which were previously matched to experiments. Diffusion mapping is used to infer dimensionality and confirm the use of two order parameters, one for degree of condensation and one for global crystallinity. Free energy and diffusivity landscapes are obtained as the coefficients of a low-dimensional Smoluchowski equation to capture the thermodynamics and kinetics of microstructure evolution. The resulting low-dimensional model quantitatively captures the dynamics of different assembly pathways between fluid, polycrystal, and single crystals states, in agreement with the full N-dimensional data as characterized by first passage time distributions. Numerical solution of the low-dimensional Smoluchowski equation reveals statistical properties of the dynamic evolution of states vs. applied field amplitude and system size. The low-dimensional Smoluchowski equation and associated landscapes calculated here can serve as models for predictive control of electric field mediated assembly of colloidal ensembles into two-dimensional crystalline objects.},
author = {Yang, Yuguang and Thyagarajan, Raghuram and Ford, David M. and Bevan, Michael A.},
doi = {10.1063/1.4951698},
file = {:E$\backslash$:/Dropbox/researchPapers2019/colloids/Dynamic colloidal assembly pathways via low dimensional models.pdf:pdf},
issn = {00219606},
journal = {Journal of Chemical Physics},
number = {20},
title = {{Dynamic colloidal assembly pathways via low dimensional models}},
volume = {144},
year = {2016}
}
@article{Bevan2015,
abstract = {A computational study is presented in which real-time manipulation of the interaction potential between particles in a colloidal system is used to control their assembly into a close-packed crystalline object. The basic model used throughout the study is a high-fidelity representation of a real experimental system in which 32 colloidal silica particles are suspended in aqueous solution with polymer hydrogel providing a temperature-tunable attractive force between the particles. Diffusion mapping is used to determine a set of coarse variables that provide an appropriate low-dimensional representation of this system at four discrete values of the attraction strength. In this case the diffusion mapping process identified two dimensions; one correlates well with the radius of gyration of the entire set of particles and the other correlates well with the average distance between distinct clusters of particles. Two different stochastic models are then built in the two-dimensional (2D) space of these variables, using data from a large number of short Brownian dynamics simulations of the full 32-particle system. The first 2D model is based on a Smoluchowski framework and is used to characterize the overall equilibrium and diffusive properties of the system. The second 2D model is based on a transition rate matrix and is used for process control. A control policy based on an infinite-horizon Markov decision process is developed using the four different attraction strengths as the input variables. The resulting policy is non-trivial; rather than simply selecting the strongest level of attraction, some mix of weak and strong attractions generally provides the optimal approach to the target close-packed state. This study, while focused on the particular mechanism of tunable depletion attraction, suggests a general strategy that could be adapted to different mechanisms of actuating colloidal assembly.},
author = {Bevan, Michael A. and Ford, David M. and Grover, Martha A. and Shapiro, Benjamin and Maroudas, Dimitrios and Yang, Yuguang and Thyagarajan, Raghuram and Tang, Xun and Sehgal, Ray M.},
doi = {10.1016/j.jprocont.2014.11.011},
file = {:E$\backslash$:/Dropbox/researchPapers2019/colloids/Controlling assembly of colloidal particles into structured objects.pdf:pdf},
isbn = {4135770134},
issn = {09591524},
journal = {Journal of Process Control},
keywords = {Colloidal particles,Diffusion map,Markov decision processes,Self-assembly,Smoluchowski equation},
pages = {64--75},
publisher = {Elsevier Ltd},
title = {{Controlling assembly of colloidal particles into structured objects: Basic strategy and a case study}},
url = {http://dx.doi.org/10.1016/j.jprocont.2014.11.011},
volume = {27},
year = {2015}
}
@article{Online2019,
author = {Online, View Article and Liu, Yan and Yang, Yuguang and Li, Bo and Feng, Xi-qiao},
doi = {10.1039/c9sm00159j},
file = {:E$\backslash$:/Dropbox/researchPapers2019/colloids/Collective oscillation in dense suspension of self-propelled particles.pdf:pdf},
journal = {Soft Matter},
pages = {2999--3007},
title = {{Collective oscillation in dense suspension of self-propelled chiral rods}},
year = {2019}
}
@article{Chen2017,
abstract = {High-dimensional time-series data from a wide variety of domains, such as neuroscience, are being generated every day. Fitting statistical models to such data, to enable parameter estimation and time-series prediction, is an important computational primitive. Existing methods, however, are unable to cope with the high-dimensional nature of these data, due to both computational and statistical reasons. We mitigate both kinds of issues by proposing an M-estimator for Reduced-rank System IDentification (MR. SID). A combination of low-rank approximations, ℓ1 and ℓ2 penalties, and some numerical linear algebra tricks, yields an estimator that is computationally efficient and numerically stable. Simulations and real data examples demonstrate the usefulness of this approach in a variety of problems. In particular, we demonstrate that MR. SID can accurately estimate spatial filters, connectivity graphs, and time-courses from native resolution functional magnetic resonance imaging data. MR. SID therefore enables big time-series data to be analyzed using standard methods, readying the field for further generalizations including nonlinear and non-Gaussian state-space models.},
author = {Chen, Shaojie and Liu, Kai and Yang, Yuguang and Xu, Yuting and Lee, Seonjoo and Lindquist, Martin and Caffo, Brian S. and Vogelstein, Joshua T.},
doi = {10.1016/j.patrec.2016.12.012},
file = {:E$\backslash$:/Dropbox/researchPapers2019/colloids/An M-estimator for reduced-rank system identification.pdf:pdf},
issn = {01678655},
journal = {Pattern Recognition Letters},
keywords = {High dimension,Image processing,Parameter estimation,State-space model,Time series analysis},
pages = {76--81},
publisher = {Elsevier B.V.},
title = {{An M-estimator for reduced-rank system identification}},
url = {http://dx.doi.org/10.1016/j.patrec.2016.12.012},
volume = {86},
year = {2017}
}
@article{Yang2017,
author = {Yang, Yuguang and Bevan, Michael A and Yang, Yuguang and Bevan, Michael A},
doi = {10.1063/1.4995949},
file = {:E$\backslash$:/Dropbox/researchPapers2019/colloids/Interfacial colloidal rod dynamics Coefficients, simulations,.pdf:pdf},
title = {{Interfacial colloidal rod dynamics : Coefficients , simulations , and analysis}},
volume = {054902},
year = {2017}
}
@article{Di2017,
author = {Di, Rod and Bitter, Julie L and Yang, Yuguang and Duncan, Gregg and Fairbrother, Howard and Bevan, Michael A},
doi = {10.1021/acs.langmuir.7b01704},
file = {:E$\backslash$:/Dropbox/researchPapers2019/colloids/Interfacial and Confined Colloidal Rod Diffusion.pdf:pdf},
journal = {Langmuir},
title = {{Interfacial and Confined Colloidal Rod Diffusion}},
year = {2017}
}
@article{Tang2016,
author = {Tang, Xun and Rupp, Bradley and Yang, Yuguang and Edwards, Tara D and Grover, Martha A and Bevan, Michael A},
doi = {10.1021/acsnano.6b02400},
file = {:E$\backslash$:/Dropbox/researchPapers2019/colloids/Optimal Feedback Controlled Assembly of perfect crystals.pdf:pdf},
journal = {ACS Nano},
keywords = {colloidal assembly,con fi gurations could,enable metamaterials with exotic,energy landscapes,low dimensional models,markov decision process,microparticle compo-,nents into perfectly ordered,properties that are,ssembling colloidal nano- and,stochastic ensemble control},
title = {{Optimal Feedback Controlled Assembly of Perfect Crystals}},
year = {2016}
}

repository: yangyutu/MyAcademicPageGithub

repo_name: yangyutu/MyAcademicPageGithub


text:
body
{
	background: #ffb6c1;
	font-family: Tahoma, Arial, sans-serif;
	color: #ffffff;
}

.header img
{
	display:block;
	width:400px;
	margin-left:auto;
	margin-right:auto;
}
.header a {
	color: #ffffff;
	font-size: 20px;
	float: right;
	padding: 5px;
}
.archive
{
	width:960px;
	margin-left:auto;
	margin-right:auto;
}
.post-title a
{
	font-size:40px;
	color:#ffffff;
}
.post-title
{
	font-size:35px;
	color:#ffffff;
}

.article-author
{
	font-size:20px;
	width:80%;
	float:left;
	font-style: italic;
}

.article-created-data
{
	text-align:right;
	font-size:20px;
	font-style: italic;
}

.article a
{
	color:#ffffff;
	text-align:right;
	margin-left:25%;
	font-size:15pt;
}

.article .post-title
{
	margin-top:10%;
}

.fold-button
{
	text-decoration:underline;
	font-size: 20;
}
.one-post.folded .article-info, .one-post.folded .article-text{
/* данный стиль применится только для элементов класса
.article-author, у которых родитель с классом one-post
имеет также класс folded */
display: none;
}
.one-post-shadow
{
position: absolute;
top: 0;
left: 0;
height: 100%;
width: 100%;
background: black;
z-index: -1; /* отодвигает элемент на задний план */
opacity: 0;

}


text:
:root {
    --blue-color: #00B7FF;
    --border-color:  #cdc7c2;
}

* {
    padding:0;
    margin:0;
    font-size: 16px;
}

h2 {
    text-align: center;
    font-size: 2rem;
    margin-bottom: 10px;
}

label {
    color: var(--blue-color);
}

body {
    padding: 50px;
    font: 14px "Lucida Grande", Helvetica, Arial, sans-serif;
}

form  {
    padding:5px;
    margin-left: auto;
    margin-right: auto;
    display: flex;
    flex-direction: column;
    width: 500px;
}

form input[type=submit] {

    padding: 5px;
    border: 1px solid #cdc7c2;
    margin-top: 15px;
    border-radius:5px;
    margin-left: auto;
    margin-right: auto;
}

form input[type=submit]:hover {
    background-color: #00B7FF;

    color: white;
}

input[type=text], textarea{
    max-width: 500px;
    border: 1px solid var(--border-color);
    padding: 0.4rem;
    margin:5px;
    border-radius: 3px;
}

@media (max-width:600px){
    form {
        width: 100%;
    }
}

repository: xxCaramel/Message-Board

repo_name: xxCaramel/Message-Board