GeneProf: analysis of high-throughput sequencing experiments

被引:57
作者
Halbritter, Florian [1 ]
Vaidya, Harsh J. [1 ]
Tomlinson, Simon R. [1 ]
机构
[1] Univ Edinburgh, Inst Stem Cell Res, Ctr Regenerat Med, Sch Biol Sci, Edinburgh, Midlothian, Scotland
基金
英国医学研究理事会;
关键词
EMBRYONIC STEM-CELLS;
D O I
10.1038/nmeth.1809
中图分类号
Q5 [生物化学];
学科分类号
071010 ; 081704 ;
摘要
引用
收藏
页码:7 / 8
页数:2
相关论文
共 8 条
[1]   Integration of external signaling pathways with the core transcriptional network in embryonic stem cells [J].
Chen, Xi ;
Xu, Han ;
Yuan, Ping ;
Fang, Fang ;
Huss, Mikael ;
Vega, Vinsensius B. ;
Wong, Eleanor ;
Orlov, Yuriy L. ;
Zhang, Weiwei ;
Jiang, Jianming ;
Loh, Yuin-Han ;
Yeo, Hock Chuan ;
Yeo, Zhen Xuan ;
Narang, Vipin ;
Govindarajan, Kunde Ramamoorthy ;
Leong, Bernard ;
Shahab, Atif ;
Ruan, Yijun ;
Bourque, Guillaume ;
Sung, Wing-Kin ;
Clarke, Neil D. ;
Wei, Chia-Lin ;
Ng, Huck-Hui .
CELL, 2008, 133 (06) :1106-1117
[2]   Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences [J].
Goecks, Jeremy ;
Nekrutenko, Anton ;
Taylor, James .
GENOME BIOLOGY, 2010, 11 (08)
[3]   Ab initio reconstruction of cell type-specific transcriptomes in mouse reveals the conserved multi-exonic structure of lincRNAs [J].
Guttman, Mitchell ;
Garber, Manuel ;
Levin, Joshua Z. ;
Donaghey, Julie ;
Robinson, James ;
Adiconis, Xian ;
Fan, Lin ;
Koziol, Magdalena J. ;
Gnirke, Andreas ;
Nusbaum, Chad ;
Rinn, John L. ;
Lander, Eric S. ;
Regev, Aviv .
NATURE BIOTECHNOLOGY, 2010, 28 (05) :503-U166
[4]   Taverna: a tool for building and running workflows of services [J].
Hull, Duncan ;
Wolstencroft, Katy ;
Stevens, Robert ;
Goble, Carole ;
Pocock, Mathew R. ;
Li, Peter ;
Oinn, Tom .
NUCLEIC ACIDS RESEARCH, 2006, 34 :W729-W732
[5]   Repeatability of published microarray gene expression analyses [J].
Ioannidis, John P. A. ;
Allison, David B. ;
Ball, Catherine A. ;
Coulibaly, Issa ;
Cui, Xiangqin ;
Culhane, Aedin C. ;
Falchi, Mario ;
Furlanello, Cesare ;
Game, Laurence ;
Jurman, Giuseppe ;
Mangion, Jon ;
Mehta, Tapan ;
Nitzberg, Michael ;
Page, Grier P. ;
Petretto, Enrico ;
van Noort, Vera .
NATURE GENETICS, 2009, 41 (02) :149-155
[6]   The $1,000 genome, the $100,000 analysis? [J].
Mardis, Elaine R. .
GENOME MEDICINE, 2010, 2
[7]   Connecting microRNA genes to the core transcriptional regulatory circuitry of embryonic stem cells [J].
Marson, Alexander ;
Levine, Stuart S. ;
Cole, Megan F. ;
Frampton, Garrett M. ;
Brambrink, Tobias ;
Johnstone, Sarah ;
Guenther, Matthew G. ;
Johnston, Wendy K. ;
Wernig, Marius ;
Newman, Jamie ;
Calabrese, J. Mauro ;
Dennis, Lucas M. ;
Volkert, Thomas L. ;
Gupta, Sumeet ;
Love, Jennifer ;
Hannett, Nancy ;
Sharp, Phillip A. ;
Bartel, David P. ;
Jaenisch, Rudolf ;
Young, Richard A. .
CELL, 2008, 134 (03) :521-533
[8]   Sharing Detailed Research Data Is Associated with Increased Citation Rate [J].
Piwowar, Heather A. ;
Day, Roger S. ;
Fridsma, Douglas B. .
PLOS ONE, 2007, 2 (03)