Literature DB >> 16844712

OrderedList--a bioconductor package for detecting similarity in ordered gene lists.

Claudio Lottaz1, Xinan Yang, Stefanie Scheid, Rainer Spang.   

Abstract

UNLABELLED: OrderedList is a Bioconductor compliant package for meta-analysis based on ordered gene lists like those resulting from differential gene expression analysis. Our package quantifies the similarity between gene lists. The significance of the similarity score is estimated from random scores computed on perturbed data. OrderedList illustrates list similarity in intuitive plots and determines the score-driving genes for further analysis. AVAILABILITY: http://www.bioconductor.org CONTACT: claudio.lottaz@molgen.mpg.de SUPPLEMENTARY INFORMATION: Please visit our webpage on http://compdiag.molgen.mpg.de/software.

Mesh：

Year:  2006        PMID： 16844712     DOI： 10.1093/bioinformatics/btl385

Source DB:  PubMed          Journal:  Bioinformatics        ISSN： 1367-4803            Impact factor:   6.937


  36 in total

1.  Finding genetic overlaps among diseases based on ranked gene lists.

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4.  Aerobic glycolysis in the human brain is associated with development and neotenous gene expression.

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5.  Early tissue responses in psoriasis to the antitumour necrosis factor-α biologic etanercept suggest reduced interleukin-17 receptor expression and signalling.

Authors:  A Johnston; A M Guzman; W R Swindell; F Wang; S Kang; J E Gudjonsson
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6.  Interpreting personal transcriptomes: personalized mechanism-scale profiling of RNA-seq data.

Authors:  Alan Perez-Rathke; Haiquan Li; Yves A Lussier
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7.  Comparison of gene expression profiles between human and mouse monocyte subsets.

Authors:  Molly A Ingersoll; Rainer Spanbroek; Claudio Lottaz; Emmanuel L Gautier; Marion Frankenberger; Reinhard Hoffmann; Roland Lang; Muzlifah Haniffa; Matthew Collin; Frank Tacke; Andreas J R Habenicht; Loems Ziegler-Heitbrock; Gwendalyn J Randolph
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8.  Mechanism-anchored profiling derived from epigenetic networks predicts outcome in acute lymphoblastic leukemia.

Authors:  Xinan Yang; Yong Huang; James L Chen; Jianming Xie; Xiao Sun; Yves A Lussier
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9.  Network modeling identifies molecular functions targeted by miR-204 to suppress head and neck tumor metastasis.

Authors:  Younghee Lee; Xinan Yang; Yong Huang; Hanli Fan; Qingbei Zhang; Youngfei Wu; Jianrong Li; Rifat Hasina; Chao Cheng; Mark W Lingen; Mark B Gerstein; Ralph R Weichselbaum; H Rosie Xing; Yves A Lussier
Journal:  PLoS Comput Biol       Date:  2010-04-01       Impact factor: 4.475

10.  Genes and gene expression modules associated with caloric restriction and aging in the laboratory mouse.

Authors:  William R Swindell
Journal:  BMC Genomics       Date:  2009-12-07       Impact factor: 3.969
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