Pathway level analysis by augmenting activities of transcription factor target genes

Cited 1 time in webofscience Cited 0 time in scopus
  • Hit : 314
  • Download : 0
Many approaches to discovering significant pathways in gene expression profiles have been developed to facilitate biological interpretation and hypothesis generation. In this work, the authors propose a pathway identification scheme integrating the activity of pathway member genes with that of target genes of transcription factors (TFs) in the same pathway by the weighted Z-method. The authors evaluated the integrative scoring scheme in gene expression profiles of essential thrombocythemia patients with JAK2V617F mutation status, primary breast tumour samples with the status of metastasis occurrence, two independent lung cancer expression profiles with their prognosis, and found that our approach identified cancer-type-specific pathways better than gene set enrichment analysis (GSEA) and Tian's method using the original pathways [pathways that have TFs from database] and the extended pathways (including target genes of TFs of the original pathways). The success of our scheme implicates that adding information of transcriptional regulation is better way of utilising mRNA measurements for estimating differential activities of pathways from gene expression profiles more exactly.
Publisher
INST ENGINEERING TECHNOLOGY-IET
Issue Date
2009-11
Language
English
Article Type
Article; Proceedings Paper
Keywords

ENDOTHELIAL GROWTH-FACTOR; BREAST-CANCER METASTASIS; CELL LUNG-CANCER; EXPRESSION PROFILES; SURVIVAL; ADENOCARCINOMA; ERYTHROPOIETIN; CARCINOMAS; MICROARRAY; TOOLS

Citation

IET SYSTEMS BIOLOGY, v.3, no.6, pp.534 - 542

ISSN
1751-8849
DOI
10.1049/iet-syb.2008.0183
URI
http://hdl.handle.net/10203/95987
Appears in Collection
BiS-Journal Papers(저널논문)
Files in This Item
There are no files associated with this item.
This item is cited by other documents in WoS
⊙ Detail Information in WoSⓡ Click to see webofscience_button
⊙ Cited 1 items in WoS Click to see citing articles in records_button

qr_code

  • mendeley

    citeulike


rss_1.0 rss_2.0 atom_1.0