Microarray experiments and analysis [microarray]
- Assessing the need for sequence-based normalization in tiling microarray experiments.
- TE Royce, JS Rozowsky, MB Gerstein (2007) Bioinformatics 23: 988-97.
- Global analysis of protein phosphorylation in yeast.
- J Ptacek, G Devgan, G Michaud, H Zhu, X Zhu, J Fasolo, H Guo, G Jona, A Breitkreutz, R Sopko, RR McCartney, MC Schmidt, N Rachidi, SJ Lee, AS Mah, L Meng, MJ Stark, DF Stern, C De Virgilio, M Tyers, B Andrews, M Gerstein, B Schweitzer, PF Predki, M Snyder (2005) Nature 438: 679-84.
- Global changes in STAT target selection and transcription regulation upon interferon treatments.
- SE Hartman, P Bertone, AK Nath, TE Royce, M Gerstein, S Weissman, M Snyder (2005) Genes Dev 19: 2953-68.
- DNA replication-timing analysis of human chromosome 22 at high resolution and different developmental states.
- EJ White, O Emanuelsson, D Scalzo, T Royce, S Kosak, EJ Oakeley, S Weissman, M Gerstein, M Groudine, M Snyder, D Schubeler (2004) Proc Natl Acad Sci U S A 101: 17771-6.
- Fast optimal genome tiling with applications to microarray design and homology search.
- P Berman, P Bertone, B Dasgupta, M Gerstein, MY Kao, M Snyder (2004) J Comput Biol 11: 766-85.
- Regulation of gene expression by a metabolic enzyme.
- DA Hall, H Zhu, X Zhu, T Royce, M Gerstein, M Snyder (2004) Science 306: 482-4.
- Major molecular differences between mammalian sexes are involved in drug metabolism and renal function.
- JL Rinn, JS Rozowsky, IJ Laurenzi, PH Petersen, K Zou, W Zhong, M Gerstein, M Snyder (2004) Dev Cell 6: 791-800.
- CREB binds to multiple loci on human chromosome 22.
- G Euskirchen, TE Royce, P Bertone, R Martone, JL Rinn, FK Nelson, F Sayward, NM Luscombe, P Miller, M Gerstein, S Weissman, M Snyder (2004) Mol Cell Biol 24: 3804-14.
- A genome-wide analysis of blue-light regulation of Arabidopsis transcription factor gene expression during seedling development.
- Y Jiao, H Yang, L Ma, N Sun, H Yu, T Liu, Y Gao, H Gu, Z Chen, M Wada, M Gerstein, H Zhao, LJ Qu, XW Deng (2003) Plant Physiol 133: 1480-93.
- A Bayesian networks approach for predicting protein-protein interactions from genomic data.
- R Jansen, H Yu, D Greenbaum, Y Kluger, NJ Krogan, S Chung, A Emili, M Snyder, JF Greenblatt, M Gerstein (2003) Science 302: 449-53.
- Prediction of regulatory networks: genome-wide identification of transcription factor targets from gene expression data.
- J Qian, J Lin, NM Luscombe, H Yu, M Gerstein (2003) Bioinformatics 19: 1917-26.
- Distribution of NF-kappaB-binding sites across human chromosome 22.
- R Martone, G Euskirchen, P Bertone, S Hartman, TE Royce, NM Luscombe, JL Rinn, FK Nelson, P Miller, M Gerstein, S Weissman, M Snyder (2003) Proc Natl Acad Sci U S A 100: 12247-52.
- ExpressYourself: A modular platform for processing and visualizing microarray data.
- NM Luscombe, TE Royce, P Bertone, N Echols, CE Horak, JT Chang, M Snyder, M Gerstein (2003) Nucleic Acids Res 31: 3477-82.
- Spectral biclustering of microarray data: coclustering genes and conditions.
- Y Kluger, R Basri, JT Chang, M Gerstein (2003) Genome Res 13: 703-16.
- The transcriptional activity of human Chromosome 22.
- JL Rinn, G Euskirchen, P Bertone, R Martone, NM Luscombe, S Hartman, PM Harrison, FK Nelson, P Miller, M Gerstein, S Weissman, M Snyder (2003) Genes Dev 17: 529-40.
- Fast optimal genome tiling with applications to microarray design and homology search.
-
P Berman, P Bertone, B DasGupta, M Gerstein, M-Y Kao, M Snyder. (2002) Proceedings of the 2nd International Workshop on Algorithms in Bioinformatics. Springer-Verlag LNCS 2452: 419-433
.
- Complex transcriptional circuitry at the G1/S transition in Saccharomyces cerevisiae.
- CE Horak, NM Luscombe, J Qian, P Bertone, S Piccirrillo, M Gerstein, M Snyder (2002) Genes Dev 16: 3017-33.
- YMD: a microarray database for large-scale gene expression analysis.
- KH Cheung, K White, J Hager, M Gerstein, V Reinke, K Nelson, P Masiar, R Srivastava, Y Li, J Li, H Zhao, J Li, DB Allison, M Snyder, P Miller, K Williams (2002) Proc AMIA Symp 140-4.
- Genomic and proteomic analysis of the myeloid differentiation program: global analysis of gene expression during induced differentiation in the MPRO cell line.
- Z Lian, Y Kluger, DS Greenbaum, D Tuck, M Gerstein, N Berliner, SM Weissman, PE Newburger (2002) Blood 100: 3209-20.
- GATA-1 binding sites mapped in the beta-globin locus by using mammalian chIp-chip analysis.
- CE Horak, MC Mahajan, NM Luscombe, M Gerstein, SM Weissman, M Snyder (2002) Proc Natl Acad Sci U S A 99: 2924-9.
- Global analysis of protein activities using proteome chips.
- H Zhu, M Bilgin, R Bangham, D Hall, A Casamayor, P Bertone, N Lan, R Jansen, S Bidlingmaier, T Houfek, T Mitchell, P Miller, RA Dean, M Gerstein, M Snyder (2001) Science 293: 2101-5.
- Genomic and proteomic analysis of the myeloid differentiation program.
- Z Lian, L Wang, S Yamaga, W Bonds, Y Beazer-Barclay, Y Kluger, M Gerstein, PE Newburger, N Berliner, SM Weissman (2001) Blood 98: 513-24.
Return to front page
