[6] L Avery and S Wasserman. Ordering gene function: the interpretation of (2008)
Alfred V. Aho, M. R. Garey, Tatsuya Akutsu, Satoru Kuhara, Osamu Maruyama, Satoru Miyano Identification, ...
of gene regulatory networks by strategic gene disruptions and gene
Adam A. Margolin, Teresa Palomero, Pavel Sumazin, Andrea Califano, Adolfo Ferrando, Gustavo A. Stolovitzky
ChIP-on-chip has emerged as a powerful tool to dissect the complex network of regulatory interactions between transcription factors and their targets. However, most ChIP-on-chip analysis methods use...
ChIP-on-chip significance analysis reveals ubiquitous transcription factor binding (2007)
Margolin, Adam A, Palomero, Teresa, Ferrando, Adolfo A, Califano, Andrea, Stolovitzky, Gustavo
No abstract available.
Margolin, Adam A, Nemenman, Ilya, Basso, Katia, Wiggins, Chris, Stolovitzky, Gustavo, Favera, Riccardo, ...
Abstract Background Elucidating gene regulatory networks is crucial for understanding normal cell physiology and complex pathologic phenotypes. Existing computational methods for the genome-wide...
Margolin, Adam A., Greshock, Joel, Naylor, Tara L., Mosse, Yael, Maris, John M., Bignell, Graham, ...
Summary: This synopsis provides an overview of array-based comparative genomic hybridization data display, abstraction and analysis using CGHAnalyzer, a software suite, designed specifically for this...
Margolin, Adam A., Greshock, Joel, Naylor, Tara L., Mosse, Yael, Maris, John M., Bignell, Graham, ...
Summary: This synopsis provides an overview of array-based comparative genomic hybridization (aCGH) data display, abstraction and analysis using CGHAnalyzer, a software suite, designed specifically...
On The Reconstruction of Interaction Networks with Applications to Transcriptional Regulation (2004)
Margolin, Adam A., Nemenman, Ilya, Wiggins, Chris, Stolovitzky, Gustavo, Califano, Andrea
A novel information-theoretic method for reconstruction of interaction networks is introduced. We prove that the method is exact for some class of networks. Performance tests on large synthetic...
Margolin, Adam A., Nemenman, Ilya, Basso, Katia, Klein, Ulf, Wiggins, Chris, Stolovitzky, Gustavo, ...
Background: Elucidating gene regulatory networks is crucial for understanding normal cell physiology and complex pathologic phenotypes. Existing computational methods for the genome-wide ``reverse...
Margolin, Adam A, Nemenman, Ilya, Basso, Katia, Wiggins, Chris, Stolovitzky, Gustavo, Favera, Riccardo Dalla, ...
CTNNB1 Mutations and Overexpression of Wnt/β-Catenin Target Genes in WT1-Mutant Wilms’ Tumors
Li, Chi-Ming, Kim, Connie E., Margolin, Adam A., Guo, Meirong, Zhu, Jimmy, Mason, Jacqueline M., ...
Gain-of-function mutations in exon 3 of β-catenin (CTNNB1) are specific for Wilms’ tumors that have lost WT1, but 50% of WT1-mutant cases lack such “hot spot” mutations. To ask whether...
Margolin, Adam A., Palomero, Teresa, Sumazin, Pavel, Califano, Andrea, Ferrando, Adolfo A., Stolovitzky, Gustavo
ChIP-on-chip has emerged as a powerful tool to dissect the complex network of regulatory interactions between transcription factors and their targets. However, most ChIP-on-chip analysis methods use...
Identifying the proteins to which small-molecule probes and drugs bind in cells
Ong, Shao-En, Schenone, Monica, Margolin, Adam A., Li, Xiaoyu, Do, Kathy, Doud, Mary K., ...
Most small-molecule probes and drugs alter cell circuitry by interacting with 1 or more proteins. A complete understanding of the interacting proteins and their associated protein complexes, whether...