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Items: 1 to 20 of 103

1.

PTM-Switchboard--a database of posttranslational modifications of transcription factors, the mediating enzymes and target genes.

Everett L, Vo A, Hannenhalli S.

Nucleic Acids Res. 2009 Jan;37(Database issue):D66-71. doi: 10.1093/nar/gkn731. Epub 2008 Oct 15.

2.

Regulating the regulators: modulators of transcription factor activity.

Everett L, Hansen M, Hannenhalli S.

Methods Mol Biol. 2010;674:297-312. doi: 10.1007/978-1-60761-854-6_19.

PMID:
20827600
3.

Multiple MAPK cascades regulate the transcription of IME1, the master transcriptional activator of meiosis in Saccharomyces cerevisiae.

Kahana-Edwin S, Stark M, Kassir Y.

PLoS One. 2013 Nov 13;8(11):e78920. doi: 10.1371/journal.pone.0078920. eCollection 2013.

4.

Curated collection of yeast transcription factor DNA binding specificity data reveals novel structural and gene regulatory insights.

Gordân R, Murphy KF, McCord RP, Zhu C, Vedenko A, Bulyk ML.

Genome Biol. 2011 Dec 21;12(12):R125. doi: 10.1186/gb-2011-12-12-r125.

5.

The YEASTRACT database: an upgraded information system for the analysis of gene and genomic transcription regulation in Saccharomyces cerevisiae.

Teixeira MC, Monteiro PT, Guerreiro JF, Gonçalves JP, Mira NP, dos Santos SC, Cabrito TR, Palma M, Costa C, Francisco AP, Madeira SC, Oliveira AL, Freitas AT, Sá-Correia I.

Nucleic Acids Res. 2014 Jan;42(Database issue):D161-6. doi: 10.1093/nar/gkt1015. Epub 2013 Oct 28.

6.

Inferring condition-specific modulation of transcription factor activity in yeast through regulon-based analysis of genomewide expression.

Boorsma A, Lu XJ, Zakrzewska A, Klis FM, Bussemaker HJ.

PLoS One. 2008 Sep 3;3(9):e3112. doi: 10.1371/journal.pone.0003112.

7.

The YEASTRACT database: a tool for the analysis of transcription regulatory associations in Saccharomyces cerevisiae.

Teixeira MC, Monteiro P, Jain P, Tenreiro S, Fernandes AR, Mira NP, Alenquer M, Freitas AT, Oliveira AL, Sá-Correia I.

Nucleic Acids Res. 2006 Jan 1;34(Database issue):D446-51.

8.

TF-centered downstream gene set enrichment analysis: Inference of causal regulators by integrating TF-DNA interactions and protein post-translational modifications information.

Liu Q, Tan Y, Huang T, Ding G, Tu Z, Liu L, Li Y, Dai H, Xie L.

BMC Bioinformatics. 2010 Dec 14;11 Suppl 11:S5. doi: 10.1186/1471-2105-11-S11-S5.

9.

YEASTRACT: providing a programmatic access to curated transcriptional regulatory associations in Saccharomyces cerevisiae through a web services interface.

Abdulrehman D, Monteiro PT, Teixeira MC, Mira NP, Lourenço AB, dos Santos SC, Cabrito TR, Francisco AP, Madeira SC, Aires RS, Oliveira AL, Sá-Correia I, Freitas AT.

Nucleic Acids Res. 2011 Jan;39(Database issue):D136-40. doi: 10.1093/nar/gkq964. Epub 2010 Oct 23.

10.

Protein modifications in transcription elongation.

Fuchs SM, Laribee RN, Strahl BD.

Biochim Biophys Acta. 2009 Jan;1789(1):26-36. doi: 10.1016/j.bbagrm.2008.07.008. Epub 2008 Jul 30. Review.

11.

CoopTFD: a repository for predicted yeast cooperative transcription factor pairs.

Wu WS, Lai FJ, Tu BW, Chang DT.

Database (Oxford). 2016 May 30;2016. pii: baw092. doi: 10.1093/database/baw092. Print 2016.

12.
13.

YTRP: a repository for yeast transcriptional regulatory pathways.

Yang TH, Wang CC, Wang YC, Wu WS.

Database (Oxford). 2014 Mar 7;2014:bau014. doi: 10.1093/database/bau014. Print 2014.

14.

Activated signal transduction kinases frequently occupy target genes.

Pokholok DK, Zeitlinger J, Hannett NM, Reynolds DB, Young RA.

Science. 2006 Jul 28;313(5786):533-6.

15.

Identifying cooperative transcription factors in yeast using multiple data sources.

Lai FJ, Jhu MH, Chiu CC, Huang YM, Wu WS.

BMC Syst Biol. 2014;8 Suppl 5:S2. doi: 10.1186/1752-0509-8-S5-S2. Epub 2014 Dec 12.

16.

Checkpoint kinases regulate a global network of transcription factors in response to DNA damage.

Jaehnig EJ, Kuo D, Hombauer H, Ideker TG, Kolodner RD.

Cell Rep. 2013 Jul 11;4(1):174-88. doi: 10.1016/j.celrep.2013.05.041. Epub 2013 Jun 27.

17.

Ste11p MEKK signals through HOG, mating, calcineurin and PKC pathways to regulate the FKS2 gene.

Wang X, Sheff MA, Simpson DM, Elion EA.

BMC Mol Biol. 2011 Nov 24;12:51. doi: 10.1186/1471-2199-12-51.

18.

Yeast cell cycle transcription factors identification by variable selection criteria.

Wang H, Wang YH, Wu WS.

Gene. 2011 Oct 10;485(2):172-6. doi: 10.1016/j.gene.2011.06.001. Epub 2011 Jun 16.

PMID:
21703335
19.

Yeast Mpk1 mitogen-activated protein kinase activates transcription through Swi4/Swi6 by a noncatalytic mechanism that requires upstream signal.

Kim KY, Truman AW, Levin DE.

Mol Cell Biol. 2008 Apr;28(8):2579-89. doi: 10.1128/MCB.01795-07. Epub 2008 Feb 11.

20.

Coordinate control of gene expression noise and interchromosomal interactions in a MAP kinase pathway.

McCullagh E, Seshan A, El-Samad H, Madhani HD.

Nat Cell Biol. 2010 Oct;12(10):954-62. doi: 10.1038/ncb2097. Epub 2010 Sep 19.

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