Chen Yanover  Chen Yanover photo         

contact information

Research Staff Member
Haifa Research Lab, Haifa, Israel



Factorial HMMs with Collapsed Gibbs Sampling for Optimizing Long-term HIV Therapy
Amit Gruber, Chen Yanover, Tal El-Hay, Anders Sonnerborg, Vanni Borghi, Francesca Incardona, Yaara Goldschmidt
International Conference on Artificial Intelligence and Statistics (AISTATS), pp. 317--326, 2018

Benchmarking Framework for Performance-Evaluation of Causal Inference Analysis
Shimoni, Yishai and Yanover, Chen and Karavani, Ehud and Goldschmnidt, Yaara
arXiv preprint arXiv:1802.05046, 2018


Estimating the effects of second-line therapy for type 2 diabetes mellitus: retrospective cohort study
Gottlieb, Assaf and Yanover, Chen and Cahan, Amos and Goldschmidt, Yaara
BMJ Open Diabetes Research and Care 5(1), e000435, BMJ Specialist Journals, 2017

Fast and Efficient Feature Engineering for Multi-Cohort Analysis of EHR Data.
Informatics for Health: Connected Citizen-Led Wellness and Population Health235, 181, IOS Press, 2017

Changes in vaginal community state types reflect major shifts in the microbiome
Brooks, J Paul and Buck, Gregory A and Chen, Guanhua and Diao, Liyang and Edwards, David J and Fettweis, Jennifer M and Huzurbazar, Snehalata and Rakitin, Alexander and Satten, Glen A and Smirnova, Ekaterina and others
Microbial ecology in health and disease 28(1), 1303265, Taylor & Francis, 2017


Paradoxical Hypersusceptibility of Drug-Resistant M. tuberculosis to beta-Lactam Antibiotics
Keira A Cohen, Tal El-Hay, Kelly L Wyres, Omer Weissbrod, Vanisha Munsamy, Chen Yanover, Ranit Aharonov, Oded Shaham, Thomas C Conway, Yaara Goldschmidt, others
EBioMedicine9, 170-179, Elsevier, 2016


Genetic determinants of immunogenicity to factor IX during the treatment of haemophilia B
S. Saini, N. Hamasaki-Katagiri, G. S. Pandey, C. Yanover, C. Guelcher, V. L. Simhadri, S. Dandekar, M. F. Guerrera, C. Kimchi-Sarfaty, Z. E. Sauna
Haemophilia 21(2), 210--218, 2015

The intron-22-inverted F8 locus permits factor VIII synthesis: explanation for low inhibitor risk and a role for pharmacogenomics
Zuben E. Sauna, Jay N. Lozier, Carol K. Kasper, Chen Yanover, Timothy Nichols, Tom E. Howard
Blood125, 223--228, American Society of Hematology, 2015


Integrated Multisystem Analysis in a Mental Health and Criminal Justice Ecosystem
Erin Falconer, Tal El-Hay, Dimitris Alevras, John Docherty, Chen Yanover, Alan Kalton, Yaara Goldschmidt, Michal Rosen-Zvi
AMIA Annual Symposium Proceedings, pp. 526, 2014

Redundancy-weighting for better inference of protein structural features
Chen Yanover, Natalia Vanetik, Michael Levitt, Rachel Kolodny, Chen Keasar
Bioinformatics, btu242, Oxford Univ Press, 2014


Endogenous factor VIII synthesis from the intron 22-inverted F8 locus may modulate the immunogenicity of replacement therapy for hemophilia A
Gouri Shankar Pandey, Chen Yanover, Lisa M Miller-Jenkins, Susan Garfield, Shelley A Cole, Joanne E Curran, Eric K Moses, Natalia Rydz, Vijaya Simhadri, Chava Kimchi-Sarfaty, others
Nature medicine 19(10), 1318--1324, Nature Publishing Group, 2013

Building better drugs: developing and regulating engineered therapeutic proteins
Chava Kimchi-Sarfaty, Tal Schiller, Nobuko Hamasaki-Katagiri, Mansoor A Khan, Chen Yanover, Zuben E Sauna
Trends in pharmacological sciences 34(10), 534--548, Elsevier, 2013


Prediction of low energy protein side chain configurations using Markov random fields
Chen Yanover, Menachem Fromer
Bayesian Methods in Structural Bioinformatics, Springer-Verlag, 2012

Observations regarding the immunogenicity of BDD-rFVIII derived from a mechanistic personalized medicine perspective
Zuben E. Sauna, Afshin Ameri, Benjamin Kim, Chen Yanover, Kevin R. Viel, Raja Rajalingam, Shelley A. Cole, Tom E. Howard
Journal of Thrombosis and Haemostasis 10(9), 1961--1965, Blackwell Publishing Ltd, 2012


Optimizing energy functions for protein--protein interface design
OZ Sharabi, Chen Yanover, Ayelet Dekel, Julia M Shifman
Journal of computational chemistry 32(1), 23--32, Wiley Online Library, 2011

Machine learning competition in immunology--Prediction of HLA class I binding peptides
Guang Lan Zhang, Hifzur Rahman Ansari, Phil Bradley, Gavin C Cawley, Tomer Hertz, Xihao Hu, Nebojsa Jojic, Yohan Kim, Oliver Kohlbacher, Ole Lund, others
Journal of immunological methods 374(1), 1--4, Elsevier, 2011

Extensive protein and DNA backbone sampling improves structure-based specificity prediction for C2H2 zinc fingers
Chen Yanover, Philip Bradley
Nucleic acids research 39(11), 4564--4576, Oxford Univ Press, 2011

HLA mismatches and hematopoietic cell transplantation: structural simulations assess the impact of changes in peptide binding specificity on transplant outcome
Chen Yanover, Effie W. Petersdorf, Mari Malkki, Ted Gooley, Stephen Spellman, Andrea Velardi, Peter Bardy, Alejandro Madrigal, Jean-Denis Bignon, Philip Bradley
Immunome Research7, 2:4, 2011

Pharmacogenetics and the immunogenicity of protein therapeutics
Chen Yanover, Nisha Jain, Glenn Pierce, Tom E Howard, Zuben E Sauna
Nature biotechnology 29(10), 870--873, 2011

Large-scale characterization of peptide-MHC binding landscapes with structural simulations
Chen Yanover, Philip Bradley
Proceedings of the National Academy of Sciences of the United States of America 108(17), 6981--6986, 2011

Haemophilia Management: Time to Get Personal?
Tom E. Howard, Chen Yanover, Johnny Mahlangu, Amanda Krause, Kevin R. Viel, Carol K. Kasper, Kathleen P. Pratt
Haemophilia 17(5), 721--728, 2011


How do amino acid mismatches affect the outcome of hematopoietic cell transplants? A structural perspective
Chen Yanover, Mari Malkki, Ted Gooley, Effie Petersdorf, Stephen Spellman, Andrea Velardi, Peter Bardy, Alejandro Madrigal, Philip Bradley
Proceedings of the Immunoinformatics and Computational Immunology Workshop, ACM International Conference on Bioinformatics and Computational Biology, pp. 627--633, ACM, 2010

Inferring PDZ domain multi-mutant binding preferences from single-mutant data
Elena Zaslavsky, Philip Bradley, Chen Yanover
PLoS One 5(9), e12787, 2010

SPRINT: side-chain prediction inference toolbox for multistate protein design
Menachem Fromer, Chen Yanover, Amir Harel, Ori Shachar, Yair Weiss, Michal Linial
Bioinformatics 26(19), 2466--7, 2010

Design of multispecific protein sequences using probabilistic graphical modeling
Menachem Fromer, Chen Yanover, Michal Linial
Proteins: Structure, Function, and Bioinformatics 78(3), 530--547, 2010


Accurate prediction for atomic-level protein design and its application in diversifying the near-optimal sequence space
Menachem Fromer, Chen Yanover
Proteins: Structure, Function, and Bioinformatics 75(3), 682--705, Wiley Online Library, 2009


Minimizing and learning energy functions for side-chain prediction
Chen Yanover, Ora Schueler-Furman, Yair Weiss
Journal of Computational Biology 15(7), 899--911, 2008

A computational framework to empower probabilistic protein design
Menachem Fromer, Chen Yanover
Bioinformatics 24(13), i214--222, 2008


Dead-end elimination for multistate protein design
Chen Yanover, Menachem Fromer, Julia M Shifman
Journal of computational chemistry 28(13), 2122--2129, Wiley Online Library, 2007

MAP estimation, linear programming and belief propagation with convex free energies
Yair Weiss, Chen Yanover, Talya Meltzer
The 23rd Conference on Uncertainty in Artificial Intelligence, 2007

Identifying HLA supertypes by learning distance functions
Tomer Hertz, Chen Yanover
Bioinformatics 23(2), e148--155, 2007


Linear Programming Relaxations and Belief Propagation: An Empirical Study
Chen Yanover, Talya Meltzer, Yair Weiss
The Journal of Machine Learning Research7, 1887--1907, JMLR. org, 2006


Globally optimal solutions for energy minimization in stereo vision using reweighted belief propagation
T. Meltzer, C. Yanover, Y. Weiss
Proceedings of the Tenth IEEE International Conference on Computer Vision, pp. 428--435, IEEE Computer Society, 2005

Predicting protein-peptide binding affinity by learning peptide-peptide distance functions
C. Yanover, T. Hertz
The Ninth Annual International Conference on Research in Computational Molecular Biology, pp. 456--471, Springer, 2005


Finding the M most probable configurations using loopy belief propagation
Chen Yanover, Yair Weiss
Advances in neural information processing systems16, 289, 2004


Approximate Inference and Protein-Folding
Chen Yanover, Yair Weiss
Advances in Neural Information Processing Systems 15, pp. 1457--1464, MIT Press, 2003


Computer analysis of the entire budding yeast genome for putative targets of the GCN4 transcription factor
Oren Schuldiner, Chen Yanover, Nissim. Benvenisty
Current Genetics 33(1), 16--20, Springer, 1998