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Literature DB >> 18436575

The TRANSFAC project as an example of framework technology that supports the analysis of genomic regulation.

Abstract

Since its beginning as a data collection more than 20 years ago, the TRANSFAC project underwent an evolution to become the basis for a complex platform for the description and analysis of gene regulatory events and networks. In the following, I describe what the original concepts were, what their present status is and how they may be expected to contribute to future system biology approaches.

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Year: 2008 PMID： 18436575 DOI： 10.1093/bib/bbn016

Source DB: PubMed Journal: Brief Bioinform ISSN： 1467-5463 Impact factor: 11.622

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Cited

197 in total

1. Genetic variation of the transthyretin gene in wild-type transthyretin amyloidosis (ATTRwt).

Authors: Jacquelyn L Sikora; Mark W Logue; Gloria G Chan; Brian H Spencer; Tatiana B Prokaeva; Clinton T Baldwin; David C Seldin; Lawreen H Connors
Journal: Hum Genet Date: 2014-11-04 Impact factor: 4.132

2. Mutation screening of melatonin-related genes in patients with autism spectrum disorders.

Authors: Lina Jonsson; Elin Ljunggren; Anna Bremer; Christin Pedersen; Mikael Landén; Kent Thuresson; Maibritt Giacobini; Jonas Melke
Journal: BMC Med Genomics Date: 2010-04-08 Impact factor: 3.063

3. TIPR: transcription initiation pattern recognition on a genome scale.

Authors: Taj Morton; Weng-Keen Wong; Molly Megraw
Journal: Bioinformatics Date: 2015-08-08 Impact factor: 6.937

Review 4. Small Genetic Circuits and MicroRNAs: Big Players in Polymerase II Transcriptional Control in Plants.

Authors: Molly Megraw; Jason S Cumbie; Maria G Ivanchenko; Sergei A Filichkin
Journal: Plant Cell Date: 2016-02-11 Impact factor: 11.277

5. Mycoplasma hyorhinis reduces sensitivity of human lung carcinoma cells to Nutlin-3 and promotes their malignant phenotype.

Authors: Uljana A Boyarskikh; Alexandra S Shadrina; Mariya A Smetanina; Yakov A Tsepilov; Igor P Oscorbin; Vadim V Kozlov; Alexander E Kel; Maxim L Filipenko
Journal: J Cancer Res Clin Oncol Date: 2018-05-08 Impact factor: 4.553

6. Proteomics and pathway analysis identifies JNK signaling as critical for high linear energy transfer radiation-induced apoptosis in non-small lung cancer cells.

Authors: Sara Ståhl; Eva Fung; Christopher Adams; Johan Lengqvist; Birgitta Mörk; Bo Stenerlöw; Rolf Lewensohn; Janne Lehtiö; Roman Zubarev; Kristina Viktorsson
Journal: Mol Cell Proteomics Date: 2009-01-23 Impact factor: 5.911

The TRANSFAC project as an example of framework technology that supports the analysis of genomic regulation.

1. Genetic variation of the transthyretin gene in wild-type transthyretin amyloidosis (ATTRwt).

2. Mutation screening of melatonin-related genes in patients with autism spectrum disorders.

3. TIPR: transcription initiation pattern recognition on a genome scale.

Review 4. Small Genetic Circuits and MicroRNAs: Big Players in Polymerase II Transcriptional Control in Plants.

5. Mycoplasma hyorhinis reduces sensitivity of human lung carcinoma cells to Nutlin-3 and promotes their malignant phenotype.

6. Proteomics and pathway analysis identifies JNK signaling as critical for high linear energy transfer radiation-induced apoptosis in non-small lung cancer cells.

7. Evolution of a tissue-specific silencer underlies divergence in the expression of pax2 and pax8 paralogues.

8. GATA-3 augmentation down-regulates Connexin43 in Helicobacter pylori associated gastric carcinogenesis.

Review 9. Visualization of multiple alignments, phylogenies and gene family evolution.

10. coMOTIF: a mixture framework for identifying transcription factor and a coregulator motif in ChIP-seq data.