Aaron R Colak
Aaron R Colak
Machine Learning Scientist @ Citadel
Verified email at cs.toronto.edu - Homepage
Title
Cited by
Cited by
Year
The evolutionary landscape of alternative splicing in vertebrate species
NL Barbosa-Morais, M Irimia, Q Pan, HY Xiong, S Gueroussov, LJ Lee, ...
Science 338 (6114), 1587-1593, 2012
7382012
Tissue-specific alternative splicing remodels protein-protein interaction networks
JD Ellis*, M Barrios-Rodiles*, R Çolak*, M Irimia, TH Kim, JA Calarco, ...
Molecular Cell 46 (6), 884-892, 2012
3232012
Mining Cohesive Patterns from Graphs with Feature Vectors.
F Moser, R Colak, A Rafiey, M Ester
SIAM Conference on Data Mining 9, 593-604, 2009
1782009
Patikaweb: a Web interface for analyzing biological pathways through advanced querying and visualization
U Dogrusoz, EZ Erson, E Giral, E Demir, O Babur, A Cetintas, R Colak
Bioinformatics 22 (3), 374-375, 2006
702006
Inferring cancer subnetwork markers using density-constrained biclustering
P Dao*, R Colak*, R Salari, F Moser, E Davicioni, A Schönhuth, M Ester
Bioinformatics 26 (18), i625-i631, 2010
622010
Combining Structural Modeling with Ensemble Machine Learning to Accurately Predict Protein Fold Stability and Binding Affinity Effects upon Mutation
N Berliner*, J Teyra*, R Çolak*, SG Lopez, PM Kim
PloS one 9 (9), e107353, 2014
552014
Distinct Types of Disorder in the Human Proteome: Functional Implications for Alternative Splicing
R Colak*, TH Kim*, M Michaut, M Sun, M Irimia, J Bellay, CL Myers, ...
PLoS Comput Biol, 2013
522013
Dense graphlet statistics of protein interaction and random networks
R Colak*, F Hormozdiari*, F Moser*, A Schonhuth*, J Holman, M Ester, ...
Pacific Symposium on Biocomputing 14, 178-189, 2009
352009
Module discovery by exhaustive search for densely connected, co-expressed regions in biomolecular interaction networks
R Colak*, F Moser, JSC Chu, A Schönhuth, N Chen, M Ester
PloS one 5 (10), e13348, 2010
312010
ELASPIC web-server: proteome-wide structure-based prediction of mutation effects on protein stability and binding affinity
DK Witvliet, A Strokach, AF Giraldo-Forero, J Teyra, R Colak, PM Kim
Bioinformatics 32 (10), 1589-1591, 2016
292016
Semi-supervised Learning Predicts Approximately One Third of the Alternative Splicing Isoforms as Functional Proteins
Y Hao*, R Colak*, J Teyra*, C Corbi-Verge, A Ignatchenko, H Hahne, ...
Cell Reports, 2015
282015
Improving Hospital Mortality Prediction with Medical Named Entities and Multimodal Learning
M Jin, MT Bahadori, A Colak, P Bhatia, B Celikkaya, R Bhakta, ...
Machine Learning for Health (ML4H) Workshop at NeurIPS 2018, 2018
182018
An omics perspective of protein disorder
J Bellay, M Michaut, TH Kim, S Han, R Colak, CL Myers, PM Kim
Molecular BioSystems 8 (1), 185-193, 2012
122012
PATIKAmad: Putting microarray data into pathway context
O Babur, R Colak, E Demir, U Dogrusoz
Proteomics 8 (11), 2196-2198, 2008
92008
JBASE: joint Bayesian analysis of subphenotypes and epistasis
R Colak, TH Kim, H Kazan, Y Oh, M Cruz, A Valladares-Salgado, ...
Bioinformatics 32 (2), 203-210, 2016
72016
Towards finding the complete modulome: density constrained biclustering
R Colak
School of Computing Science-Simon Fraser University, 2008
52008
End-to-end Joint Entity Extraction and Negation Detection for Clinical Text
P Bhatia, B Celikkaya, M Khalilia, A Colak
(AAAI) 2019 Workshop on Health Intelligence, 2019
32019
Implementing recommendation algorithms in a large-scale biomedical science knowledge base
J Perrie, Y Hao, Z Hayat, R Colak, K Lyons, S Vembu, S Molyneux
arXiv preprint arXiv:1710.08579, 2017
12017
PATIKA: An informatics infrastructure for cellular networks
Ç Aksay, A Ayaz, Ö Babur, C Bilgin, A Çetintaş, A Çivril, R Çolak, G Çözen, ...
Proceedings 12th ISMB/3. ECCB 2004, 2004
12004
Novel Machine Learning Models for Identification, Characterization and Prioritization of Phenotype-Genotype Associations
R Colak
PhD Thesis, 2015
2015
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Articles 1–20