A computational approach for identifying pseudogenes in the ENCODE regions

by Zheng, Deyou, Gerstein, Mark B
Published 2006

Publishing perishing? Towards tomorrow's information architecture

by Seringhaus, Michael R, Gerstein, Mark B
Published 2007

FlexOracle: predicting flexible hinges by identification of stable domains

by Flores, Samuel C, Gerstein, Mark B
Published 2007

Predicting protein ligand binding motions with the conformation explorer

by Flores, Samuel C, Gerstein, Mark B
Published 2011

Understanding genome structural variations

by Abyzov, Alexej, Li, Shantao, Gerstein, Mark B.
Published 2015

An efficient pseudomedian filter for tiling microrrays

by Royce, Thomas E, Carriero, Nicholas J, Gerstein, Mark B
Published 2007

Toward a universal microarray: prediction of gene expression through nearest-neighbor probe sequence identification

by Royce, Thomas E., Rozowsky, Joel S., Gerstein, Mark B.
Published 2007

Genome-wide analysis of chromatin features identifies histone modification sensitive and insensitive yeast transcription factors

by Cheng, Chao, Shou, Chong, Yip, Kevin Y, Gerstein, Mark B
Published 2011

The CRIT framework for identifying cross patterns in systems biology and application to chemogenomics

by Gianoulis, Tara A, Agarwal, Ashish, Snyder, Michael, Gerstein, Mark B
Published 2011

Analysis of genomic variation in non-coding elements using population-scale sequencing data from the 1000 Genomes Project

by Mu, Xinmeng Jasmine, Lu, Zhi John, Kong, Yong, Lam, Hugo Y. K., Gerstein, Mark B.
Published 2011

The real cost of sequencing: higher than you think!

by Sboner, Andrea, Mu, Xinmeng Jasmine, Greenbaum, Dov, Auerbach, Raymond K, Gerstein, Mark B
Published 2011

LinkHub: a Semantic Web system that facilitates cross-database queries and information retrieval in proteomics

by Smith, Andrew K, Cheung, Kei-Hoi, Yip, Kevin Y, Schultz, Martin, Gerstein, Mark B
Published 2007

Hinge Atlas: relating protein sequence to sites of structural flexibility

by Flores, Samuel C, Lu, Long J, Yang, Julie, Carriero, Nicholas, Gerstein, Mark B
Published 2007

Loregic: A Method to Characterize the Cooperative Logic of Regulatory Factors

by Wang, Daifeng, Yan, Koon-Kiu, Sisu, Cristina, Cheng, Chao, Rozowsky, Joel, Meyerson, William, Gerstein, Mark B.
Published 2015

Assessment of whole genome amplification-induced bias through high-throughput, massively parallel whole genome sequencing

by Pinard, Robert, de Winter, Alex, Sarkis, Gary J, Gerstein, Mark B, Tartaro, Karrie R, Plant, Ramona N, Egholm, Michael, Rothberg, Jonathan M, Leamon, John H
Published 2006

VarSim: a high-fidelity simulation and validation framework for high-throughput genome sequencing with cancer applications

by Mu, John C., Mohiyuddin, Marghoob, Li, Jian, Bani Asadi, Narges, Gerstein, Mark B., Abyzov, Alexej, Wong, Wing H., Lam, Hugo Y.K.
Published 2015

MetaSV: an accurate and integrative structural-variant caller for next generation sequencing

by Mohiyuddin, Marghoob, Mu, John C., Li, Jian, Bani Asadi, Narges, Gerstein, Mark B., Abyzov, Alexej, Wong, Wing H., Lam, Hugo Y.K.
Published 2015

Leveraging long read sequencing from a single individual to provide a comprehensive resource for benchmarking variant calling methods

by Mu, John C., Tootoonchi Afshar, Pegah, Mohiyuddin, Marghoob, Chen, Xi, Li, Jian, Bani Asadi, Narges, Gerstein, Mark B., Wong, Wing H., Lam, Hugo Y. K.
Published 2015

FusionSeq: a modular framework for finding gene fusions by analyzing paired-end RNA-sequencing data

by Sboner, Andrea, Habegger, Lukas, Pflueger, Dorothee, Terry, Stephane, Chen, David Z, Rozowsky, Joel S, Tewari, Ashutosh K, Kitabayashi, Naoki, Moss, Benjamin J, Chee, Mark S, Demichelis, Francesca, Rubin, Mark A, Gerstein, Mark B
Published 2010

Genomic Analysis of the Hydrocarbon-Producing, Cellulolytic, Endophytic Fungus Ascocoryne sarcoides

by Gianoulis, Tara A., Griffin, Meghan A., Spakowicz, Daniel J., Dunican, Brian F., Alpha, Cambria J., Sboner, Andrea, Sismour, A. Michael, Kodira, Chinnappa, Egholm, Michael, Church, George M., Gerstein, Mark B., Strobel, Scott A.
Published 2012