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Boosting with stumps for predicting transcription start sites
Xiaoyue Zhao, Zhenyu Xuan, Michael Q Zhang
Genome Biol. 2007; 8(2): R17. Published online 2007 February 2. doi: 10.1186/gb-2007-8-2-r17
PMCID:
PMC1852414
Abstract Full Text PDF–380K Supplementary Material
 Is Cited by the Following 10 Articles in this Archive:
Histone modification profiles are predictive for tissue/cell-type specific expression of both protein-coding and microRNA genes
Zhihua Zhang, Michael Q Zhang
BMC Bioinformatics. 2011; 12: 155. Published online 2011 May 14. doi: 10.1186/1471-2105-12-155
PMCID:
PMC3120700
Abstract Full Text PDF–781K Supplementary Material
Ab initio identification of transcription start sites in the Rhesus macaque genome by histone modification and RNA-Seq
Yi Liu, Dali Han, Yixing Han, Zheng Yan, Bin Xie, Jing Li, Nan Qiao, Haiyang Hu, Philipp Khaitovich, Yuan Gao, Jing-Dong J. Han
Nucleic Acids Res. 2011 March; 39(4): 1408–1418. Published online 2010 October 14. doi: 10.1093/nar/gkq956
PMCID:
PMC3045608
Abstract Full Text PDF–448K Supplementary Material
A domesticated transposon mediates the effects of a single-nucleotide polymorphism responsible for enhanced muscle growth
Falk Butter, Dennis Kappei, Frank Buchholz, Michiel Vermeulen, Matthias Mann
EMBO Rep. 2010 April; 11(4): 305–311. Published online 2010 February 5. doi: 10.1038/embor.2010.6
PMCID:
PMC2854606
Abstract Full Text PDF–918K Supplementary Material
Features of Mammalian microRNA Promoters Emerge from Polymerase II Chromatin Immunoprecipitation Data
David L. Corcoran, Kusum V. Pandit, Ben Gordon, Arindam Bhattacharjee, Naftali Kaminski, Panayiotis V. Benos
PLoS ONE. 2009; 4(4): e5279. Published online 2009 April 23. doi: 10.1371/journal.pone.0005279
PMCID:
PMC2668758
Abstract Full Text PDF–258K
A transcription factor affinity-based code for mammalian transcription initiation
Molly Megraw, Fernando Pereira, Shane T. Jensen, Uwe Ohler, Artemis G. Hatzigeorgiou
Genome Res. 2009 April; 19(4): 644–656. doi: 10.1101/gr.085449.108
PMCID:
PMC2665783
Abstract Full Text PDF–1.1M
High-resolution human core-promoter prediction with CoreBoost_HM
Xiaowo Wang, Zhenyu Xuan, Xiaoyue Zhao, Yanda Li, Michael Q. Zhang
Genome Res. 2009 February; 19(2): 266–275. doi: 10.1101/gr.081638.108
PMCID:
PMC2652208
Abstract Full Text PDF–1.8M
Human Pol II promoter recognition based on primary sequences and free energy of dinucleotides
Jian-Yi Yang, Yu Zhou, Zu-Guo Yu, Vo Anh, Li-Qian Zhou
BMC Bioinformatics. 2008; 9: 113. Published online 2008 February 24. doi: 10.1186/1471-2105-9-113
PMCID:
PMC2292139
Abstract Full Text PDF–522K
A code for transcription initiation in mammalian genomes
Martin C. Frith, Eivind Valen, Anders Krogh, Yoshihide Hayashizaki, Piero Carninci, Albin Sandelin
Genome Res. 2008 January; 18(1): 1–12. doi: 10.1101/gr.6831208
PMCID:
PMC2134772
Abstract Full Text PDF–740K
MetaProm: a neural network based meta-predictor for alternative human promoter prediction
Junwen Wang, Lyle H Ungar, Hung Tseng, Sridhar Hannenhalli
BMC Genomics. 2007; 8: 374. Published online 2007 October 17. doi: 10.1186/1471-2164-8-374
PMCID:
PMC2194789
Abstract Full Text PDF–656K Supplementary Material
Computational analyses of eukaryotic promoters
Michael Q Zhang
BMC Bioinformatics. 2007; 8(Suppl 6): S3. Published online 2007 September 27. doi: 10.1186/1471-2105-8-S6-S3
PMCID:
PMC1995544
Abstract Full Text PDF–268K
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