Literature DB >> 17463032

Libaffy: software for processing Affymetrix GeneChip data.

Steven A Eschrich1, Andrew M Hoerter.   

Abstract

SUMMARY: Affymetrix GeneChip microarrays are increasingly used in gene expression studies and in greater number. A software library was developed that supports Affymetrix file formats and implements two popular summary algorithms (MAS5.0 and RMA). The library is modular in design for integration into larger systems and processing pipelines. Additionally, a graphical interface (GENE) was developed to allow end-user access to the functionality within the library. AVAILABILITY: libaffy is free to use under the GNU GPL license. The source code and Windows binaries can be freely accessed from the website http://src.moffitt.usf.edu/libaffy. Additional API documentation and user manual are available.

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Year:  2007        PMID： 17463032     DOI： 10.1093/bioinformatics/btm127

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


  9 in total

1.  D-MaPs - DNA-microarray projects: Web-based software for multi-platform microarray analysis.

Authors:  Marcelo F Carazzolle; Taís S Herig; Ana C Deckmann; Gonçalo A G Pereira
Journal:  Genet Mol Biol       Date:  2009-09-01       Impact factor: 1.771

2.  Identifying novel glioma associated pathways based on systems biology level meta-analysis.

Authors:  Yangfan Hu; Jinquan Li; Wenying Yan; Jiajia Chen; Yin Li; Guang Hu; Bairong Shen
Journal:  BMC Syst Biol       Date:  2013-12-17

3.  In silico prediction of protein-protein interactions in human macrophages.

Authors:  Oussema Souiai; Fatma Guerfali; Slimane Ben Miled; Christine Brun; Alia Benkahla
Journal:  BMC Res Notes       Date:  2014-03-17

4.  Iterative rank-order normalization of gene expression microarray data.

Authors:  Eric A Welsh; Steven A Eschrich; Anders E Berglund; David A Fenstermacher
Journal:  BMC Bioinformatics       Date:  2013-05-07       Impact factor: 3.169

5.  Transcriptome architecture across tissues in the pig.

Authors:  André L J Ferraz; Ana Ojeda; Manel López-Béjar; Lana T Fernandes; Anna Castelló; Josep M Folch; Miguel Pérez-Enciso
Journal:  BMC Genomics       Date:  2008-04-16       Impact factor: 3.969

6.  Expression of integrin alpha 10 is transcriptionally activated by pRb in mouse osteoblasts and is downregulated in multiple solid tumors.

Authors:  B E Engel; E Welsh; M F Emmons; P G Santiago-Cardona; W D Cress
Journal:  Cell Death Dis       Date:  2013-11-28       Impact factor: 8.469

7.  A Pilot Proteogenomic Study with Data Integration Identifies MCT1 and GLUT1 as Prognostic Markers in Lung Adenocarcinoma.

Authors:  Paul A Stewart; Katja Parapatics; Eric A Welsh; André C Müller; Haoyun Cao; Bin Fang; John M Koomen; Steven A Eschrich; Keiryn L Bennett; Eric B Haura
Journal:  PLoS One       Date:  2015-11-05       Impact factor: 3.240

8.  Activity-Based Proteomics Reveals Heterogeneous Kinome and ATP-Binding Proteome Responses to MEK Inhibition in KRAS Mutant Lung Cancer.

Authors:  Jae-Young Kim; Paul A Stewart; Adam L Borne; Bin Fang; Eric A Welsh; Yian Ann Chen; Steven A Eschrich; John M Koomen; Eric B Haura
Journal:  Proteomes       Date:  2016-04-27

9.  Identification of genes and signaling pathways associated with the pathogenesis of juvenile spondyloarthritis.

Authors:  Zhe Wang; Yudi Han; Zhaoqing Zhang; Cunfeng Jia; Qiang Zhao; Wei Song; Tao Chen; Yifan Zhang; Xiuhui Wang
Journal:  Mol Med Rep       Date:  2018-06-06       Impact factor: 2.952
  9 in total

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