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Regulatory element detection using correlation with expression HJ Bussemaker, H Li, ED Siggia Nature genetics 27 (2), 167-174, 2001 | 954 | 2001 |
Comparative genome sequencing of Drosophila pseudoobscura: chromosomal, gene, and cis-element evolution S Richards, Y Liu, BR Bettencourt, P Hradecky, S Letovsky, R Nielsen, ... Genome research 15 (1), 1-18, 2005 | 594 | 2005 |
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Genomic binding by the Drosophila Myc, Max, Mad/Mnt transcription factor network A Orian, B van Steensel, J Delrow, HJ Bussemaker, L Li, T Sawado, ... Genes & development 17 (9), 1101-1114, 2003 | 479 | 2003 |
The human transcriptome map reveals extremes in gene density, intron length, GC content, and repeat pattern for domains of highly and weakly expressed genes R Versteeg, BDC van Schaik, MF van Batenburg, M Roos, R Monajemi, ... Genome Research 13 (9), 1998-2004, 2003 | 442 | 2003 |
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A gene expression map for the euchromatic genome of Drosophila melanogaster V Stolc, Z Gauhar, C Mason, G Halasz, MF van Batenburg, SA Rifkin, ... Science 306 (5696), 655-660, 2004 | 378 | 2004 |
Building a dictionary for genomes: identification of presumptive regulatory sites by statistical analysis HJ Bussemaker, H Li, ED Siggia Proceedings of the National Academy of Sciences 97 (18), 10096-10100, 2000 | 339 | 2000 |
PQM-1 complements DAF-16 as a key transcriptional regulator of DAF-2-mediated development and longevity RG Tepper, J Ashraf, R Kaletsky, G Kleemann, CT Murphy, ... Cell 154 (3), 676-690, 2013 | 338 | 2013 |
Defining transcriptional networks through integrative modeling of mRNA expression and transcription factor binding data F Gao, BC Foat, HJ Bussemaker BMC bioinformatics 5 (1), 31, 2004 | 330 | 2004 |
Statistical mechanical modeling of genome-wide transcription factor occupancy data by MatrixREDUCE BC Foat, AV Morozov, HJ Bussemaker Bioinformatics 22 (14), e141-e149, 2006 | 325 | 2006 |
Identification of genes expressed in C. elegans touch receptor neurons Y Zhang, C Ma, T Delohery, B Nasipak, BC Foat, A Bounoutas, ... Nature 418 (6895), 331-335, 2002 | 297 | 2002 |
DSSR: an integrated software tool for dissecting the spatial structure of RNA XJ Lu, HJ Bussemaker, WK Olson Nucleic acids research 43 (21), e142-e142, 2015 | 287 | 2015 |
Quantitative modeling of transcription factor binding specificities using DNA shape T Zhou, N Shen, L Yang, N Abe, J Horton, RS Mann, HJ Bussemaker, ... Proceedings of the National Academy of Sciences 112 (15), 4654-4659, 2015 | 261 | 2015 |
T-profiler: scoring the activity of predefined groups of genes using gene expression data A Boorsma, BC Foat, D Vis, F Klis, HJ Bussemaker Nucleic acids research 33 (suppl 2), W592-W595, 2005 | 243 | 2005 |
Hotspots of transcription factor colocalization in the genome of Drosophila melanogaster C Moorman, LV Sun, J Wang, E de Wit, W Talhout, LD Ward, F Greil, ... Proceedings of the National Academy of Sciences 103 (32), 12027-12032, 2006 | 234 | 2006 |
Probing DNA shape and methylation state on a genomic scale with DNase I A Lazarovici, T Zhou, A Shafer, AC Dantas Machado, TR Riley, ... Proceedings of the National Academy of Sciences 110 (16), 6376-6381, 2013 | 205 | 2013 |
Distinct HP1 and Su (var) 3-9 complexes bind to sets of developmentally coexpressed genes depending on chromosomal location F Greil, I van der Kraan, J Delrow, JF Smothers, E de Wit, HJ Bussemaker, ... Genes & development 17 (22), 2825-2838, 2003 | 205 | 2003 |
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