druvus's tf [84 articles] Export

Recent papers added to druvus's library classified by the tag tf. You can also see everyone's tf.

	Origin and Diversification of Basic-Helix-Loop-Helix Proteins in Plants [My Copy] Mol Biol Evol (25 November 2009), msp288. by Nuno Pires, Liam Dolan posted to tf populus by druvus on 2009-11-27 09:59:53 as
	mimiRNA: a microRNA expression profiler and classification resource designed to identify functional correlations between microRNAs and their targets [My Copy] Bioinformatics (17 November 2009), btp649. by William Ritchie, Stephane Flamant, John E. J. Rasko posted to tf expression correlation by druvus on 2009-11-23 13:01:28 as along with 3 people and 1 group natstreet heliopais frohike microRNA
	LegumeTFDB: An integrative database of Glycine max, Lotus japonicus and Medicago truncatula transcription factors [My Copy] Bioinformatics (17 November 2009), btp645. by Keiichi Mochida, Takuhiro Yoshida, Tetsuya Sakurai, Kazuko Yamaguchi-Shinozaki, Kazuo Shinozaki, Lam-Son P. Tran posted to tf database by druvus on 2009-11-23 13:01:07 as
	Assigning roles to protein mentions: The case of transcription factors [My Copy] Journal of Biomedical Informatics, Vol. 42, No. 5. (10 October 2009), pp. 887-894. by Hui Yang, John Keane, Casey M. Bergman, Goran Nenadic posted to tf by druvus on 2009-10-23 08:43:18 as along with 3 people and 1 group operon dullhunk henk-cul dbmi-nlp
	Using RSAT to scan genome sequences for transcription factor binding sites and cis-regulatory modules. [My Copy] Nature protocols, Vol. 3, No. 10. (18 September 2008), pp. 1578-1588. by Jean-Valery V. Turatsinze, Morgane Thomas-Chollier, Matthieu Defrance, Jacques van Helden posted to tf motif genome cis by druvus on 2009-10-12 17:01:52 as along with 7 people and 1 group kshameer isimpson heliopais fhsantanna polivares idonaldson natstreet BergmanLab
	Characterization of WRKY co-regulatory networks in rice and Arabidopsis [My Copy] BMC Plant Biology, Vol. 9, No. 1. (2009), 120. by Stefano Berri, Pamela Abbruscato, Odile F. Rampant, et al.Ana Brasileiro, Irene Fumasoni, Kouji Satoh, Shoshi Kikuchi, Luca Mizzi, Piero Morandini, Mario Pe, Pietro Piffanelli posted to tf rice plant network arabidopsis by druvus on 2009-09-23 10:57:45 as along with 1 person natstreet
	A comprehensive classification and evolutionary analysis of plant homeobox genes [My Copy] Mol Biol Evol (4 September 2009), msp201. by Krishanu Mukherjee, Luciano Brocchieri, Thomas R. Burglin posted to tf plant phylogeny by druvus on 2009-09-07 10:10:54 as
	Insights from genomic profiling of transcription factors [My Copy] Nature Reviews Genetics, Vol. 10, No. 9. (11 August 2009), pp. 605-616. by Peggy J. Farnham posted to tf review microarray by druvus on 2009-09-01 09:02:47 as along with 17 people and 2 groups heliopais inesdesantiago fenghezi nklee samanthacooper fpattyn frohike stubrown qayub megraw TRHvidsten mkiyer ericrpaquet ilyashl jbhiatt idonaldson danmaclean Journal picks Chinnaiyan Lab
	Developmental roles of 21 Drosophila transcription factors are determined by quantitative differences in binding to an overlapping set of thousands of genomic regions [My Copy] Genome Biology, Vol. 10, No. 7. (23 July 2009), R80. by Stewart MacArthur, Xiao Y. Li, Jingyi Li, et al.James Brown, Hou C. Chu, Lucy Zeng, Brandi Grondona, Aaron Hechmer, Lisa Simirenko, Soile Keranen, David Knowles, Mark Stapleton, Peter Bickel, Mark Biggin, Michael Eisen posted to drosophila genome tf by druvus on 2009-07-23 11:28:01 as along with 11 people and 2 groups venancio aalibes fenghezi idonaldson daveGerrard megraw scjparker maximilianh djkt isimpson Stew BergmanLab Bioinformatics - CRUK
	Pscan: finding over-represented transcription factor binding site motifs in sequences from co-regulated or co-expressed genes [My Copy] Nucl. Acids Res., Vol. 37, No. suppl_2. (1 July 2009), pp. W247-252. by Federico Zambelli, Graziano Pesole, Giulio Pavesi posted to software tf by druvus on 2009-07-23 09:40:38 as along with 5 people natstreet idonaldson nklee nuin isimpson
	A phylogenomic analysis of bacterial helix–turn–helix transcription factors [My Copy] FEMS Microbiology Reviews, Vol. 33, No. 2. (March 2009), pp. 411-429. by Catarina L. Santos, Fernando Tavares, Jean Thioulouse, Philippe Normand posted to bacteria evolution tf by druvus on 2009-07-21 13:34:08 as
	Measuring Transcription Factor-Binding Site Turnover: A Maximum Likelihood Approach Using Phylogenies [My Copy] Genome Biol Evol, Vol. 2009, No. 0. (22 June 2009), pp. 85-98. by Wolfgang Otto, Peter F. Stadler, Francesc Lopez-Giraldez, Jeffrey P. Townsend, Vincent J. Lynch, Gunter P. Wagner posted to likelihood tf by druvus on 2009-07-20 13:23:00 as along with 2 people natstreet djkt
	Analyzing miRNA co-expression networks to explore TF-miRNA regulation. [My Copy] BMC bioinformatics, Vol. 10, No. 1. (2009), 163. by Sanghamitra Bandyopadhyay, Malay Bhattacharyya posted to co-regulated mirna network tf by druvus on 2009-05-28 13:35:18 as along with 9 people and 1 group guhjy imina daforerog TRHvidsten SaraNasser natstreet lwaldron erel10 ealloza Bioinformatics
	Asap: A Framework for Over-Representation Statistics for Transcription Factor Binding Sites [My Copy] PLoS ONE, Vol. 3, No. 2. (20 February 2008), e1623. by Troels T. Marstrand, Jes Frellsen, Ida Moltke, et al.Martin Thiim, Eivind Valen, Dorota Retelska, Anders Krogh posted to open_source software statistics tf by druvus on 2009-03-30 11:24:21 as along with 3 people nklee natstreet heliopais
	Engineering transcription factors with novel DNA-binding specificity using comparative genomics. [My Copy] Nucleic acids research (5 March 2009) by Tasha A A. Desai, Dmitry A A. Rodionov, Mikhail S S. Gelfand, Eric J J. Alm, Christopher V V. Rao posted to comperative_genomics synthetic_biology tf by druvus on 2009-03-30 09:13:10 as along with 1 person GustavoLacerda
	Regulation by transcription factors in bacteria: beyond description. [My Copy] FEMS microbiology reviews, Vol. 33, No. 1. (January 2009), pp. 133-151. by Enrique Balleza, Lucia N. López-Bojorquez, Agustino Martínez-Antonio, et al.Osbaldo Resendis-Antonio, Irma Lozada-Chávez, Yalbi I. Balderas-Martínez, Sergio Encarnación, Julio Collado-Vides posted to bacteria synthetic_biology tf by druvus on 2009-03-30 09:09:27 as along with 1 person JeremyZucker
	A census of human transcription factors: function, expression and evolution [My Copy] Nat Rev Genet, Vol. 10, No. 4. (April 2009), pp. 252-263. by Juan M. Vaquerizas, Sarah K. Kummerfeld, Sarah A. Teichmann, Nicholas M. Luscombe posted to evolution expression human review tf by druvus on 2009-03-23 08:47:52 as along with 11 people marti PabloMarin absterga engelhardt lwaldron cassj daforerog nuin oannes megraw idonaldson
	Alignment and Prediction of cis-Regulatory Modules Based on a Probabilistic Model of Evolution [My Copy] PLoS Comput Biol, Vol. 5, No. 3. (13 March 2009), e1000299. by Xin He, Xu Ling, Saurabh Sinha posted to alignment cis evolution predictions tf by druvus on 2009-03-13 11:59:05 as along with 9 people roys megraw lusk TRHvidsten kieran101 nuin djkt mhamada maximilianh
	COTRASIF: conservation-aided transcription-factor-binding site finder [My Copy] Nucl. Acids Res., Vol. 37, No. 7. (1 April 2009), e49. by Bogdan Tokovenko, Rostyslav Golda, Oleksiy Protas, Maria Obolenskaya, Anna El'skaya posted to motif predictions tf by druvus on 2009-03-13 09:00:33 as along with 3 people and 1 group avilella nuin idonaldson Ensembl Compara citations
	TFCat: the curated catalog of mouse and human transcription factors. [My Copy] Genome biology, Vol. 10, No. 3. (2009) by Debra L. Fulton, Saravanan Sundararajan, Gwenael Badis, et al.Timothy R. Hughes, Wyeth W. Wasserman, Jared C. Roach, Rob Sladek posted to human mouse tf by druvus on 2009-03-13 08:05:51 as along with 7 people and 1 group maximilianh megraw natstreet idonaldson bmajoros dolchan cisevol BergmanLab
	A genome-wide survey of HD-Zip genes in rice and analysis of drought-responsive family members. [My Copy] Plant molecular biology, Vol. 66, No. 1-2. (1 January 2008), pp. 87-103. by Adamantia Agalou, Sigit Purwantomo, Elin Overnäs, et al.Henrik Johannesson, Xiaoyi Zhu, Amy Estiati, Rolf J. de Kam, Peter Engström, Inez H. Slamet-Loedin, Zhen Zhu, Mei Wang, Lizhong Xiong, Annemarie H. Meijer, Pieter B. Ouwerkerk posted to family rice stress tf by druvus on 2009-03-04 09:48:10 as along with 1 person agustinarce
	Overexpression analysis of plant transcription factors [My Copy] Current Opinion in Plant Biology, Vol. 6, No. 5. (October 2003), pp. 430-440. by J. Zhang posted to expression plant tf by druvus on 2009-03-04 09:45:38 as
	Choose your partners: dimerization in eukaryotic transcription factors. [My Copy] Trends in biochemical sciences, Vol. 33, No. 5. (May 2008), pp. 220-229. by Grigoris D. Amoutzias, David L. Robertson, Yves Van de Peer, Stephen G. Oliver posted to eukaryote network tf by druvus on 2009-03-04 09:36:12 as along with 1 person guhjy
	Origin and diversification of the basic helix-loop-helix gene family in metazoans: insights from comparative genomics [My Copy] BMC Evolutionary Biology, Vol. 7 (02 March 2007), 33. by Elena Simionato, Valerie Ledent, Gemma Richards, et al.Morgane Thomas-Chollier, Pierre Kerner, David Coornaert, Bernard M. Degnan, Michel Vervoort posted to family phylogeny tf by druvus on 2009-03-04 09:33:53 as along with 3 people and 1 group cwbrown syoung11 zwang EisenLab
	Characterization of a set of phytochrome-interacting factor-like bHLH proteins in Oryza sativa. [My Copy] Bioscience, biotechnology, and biochemistry, Vol. 71, No. 5. (May 2007), pp. 1183-1191. by Y. Nakamura, T. Kato, T. Yamashino, M. Murakami, T. Mizuno posted to family plant tf by druvus on 2009-03-04 09:32:17 as
	Phylogenetic and expression analysis of the basic helix-loop-helix transcription factor gene family: genomic approach to cellular differentiation [My Copy] Differentiation, Vol. 76, No. 9. (November 2008), pp. 1006-1022. by Stevens, D. Jeffrey, Roalson, H. Eric, Skinner, K. Michael posted to family phylogeny tf by druvus on 2009-03-04 09:25:38 as
	The basic helix-loop-helix transcription factor family in plants: a genome-wide study of protein structure and functional diversity. [My Copy] Mol Biol Evol, Vol. 20, No. 5. (May 2003), pp. 735-747. by M. A. Heim, M. Jakoby, M. Werber, C. Martin, B. Weisshaar, P. C. Bailey posted to family phylogeny plant tf by druvus on 2009-03-04 09:17:30 as along with 1 person braingrind
	Update on the Basic Helix-Loop-Helix Transcription Factor Gene Family in Arabidopsis thaliana [My Copy] Plant Cell, Vol. 15, No. 11. (1 November 2003), pp. 2497-2502. by Paul C. Bailey, Cathie Martin, Gabriela Toledo-Ortiz, et al.Peter H. Quail, Enamul Huq, Marc A. Heim, Marc Jakoby, Martin Werber, Bernd Weisshaar posted to arabidopsis family phylogeny tf by druvus on 2009-03-04 09:16:05 as
	Genome-wide analysis of CCCH zinc finger family in Arabidopsis and rice [My Copy] BMC Genomics, Vol. 9 (27 January 2008), 44. by Dong Wang, Yinghui Guo, Changai Wu, Guodong Yang, Yingying Li, Chengchao Zheng posted to arabidopsis plant rice tf by druvus on 2009-03-04 09:15:35 as along with 1 person udivi
	Genome-Wide Analysis of Basic/Helix-Loop-Helix Transcription Factor Family in Rice and Arabidopsis [My Copy] Plant Physiol., Vol. 141, No. 4. (1 August 2006), pp. 1167-1184. by Xiaoxing Li, Xuepeng Duan, Haixiong Jiang, et al.Yujin Sun, Yuanping Tang, Zheng Yuan, Jingkang Guo, Wanqi Liang, Liang Chen, Jingyuan Yin, Hong Ma, Jian Wang, Dabing Zhang posted to arabidopsis phylogeny plant rice tf by druvus on 2009-03-04 09:13:07 as
	The Arabidopsis Basic/Helix-Loop-Helix Transcription Factor Family [My Copy] Plant Cell, Vol. 15, No. 8. (1 August 2003), pp. 1749-1770. by Gabriela Toledo-Ortiz, Enamul Huq, Peter H. Quail posted to arabidopsis phylogeny tf by druvus on 2009-03-04 09:11:55 as
	Genome-wide comparative phylogenetic analysis of the rice and Arabidopsis Dof gene families [My Copy] BMC Evolutionary Biology, Vol. 3, No. 1. (2003) by Diego Lijavetzky, Pilar Carbonero, Jesus V. Carbajosa posted to arabidopsis plant rice tf by druvus on 2009-03-04 09:09:09 as
	A high quality draft consensus sequence of the genome of a heterozygous grapevine variety. [My Copy] PLoS ONE, Vol. 2, No. 12. (2007) by R. Velasco, A. Zharkikh, M. Troggio, et al.D. A. Cartwright, A. Cestaro, D. Pruss, M. Pindo, L. M. Fitzgerald, S. Vezzulli, J. Reid, G. Malacarne, D. Iliev, G. Coppola, B. Wardell, D. Micheletti, T. Macalma, M. Facci, J. T. Mitchell, M. Perazzolli, G. Eldredge, P. Gatto, R. Oyzerski, M. Moretto, N. Gutin, M. Stefanini, Y. Chen, C. Segala, C. Davenport, L. Demattè, A. Mraz, J. Battilana, K. Stormo, F. Costa, Q. Tao, A. Si-Ammour, T. Harkins, A. Lackey, C. Perbost, B. Taillon, A. Stella, V. Solovyev, J. A. Fawcett, L. Sterck, K. Vandepoele, S. M. Grando, S. Toppo, C. Moser, J. Lanchbury, R. Bogden, M. Skolnick, V. Sgaramella, S. K. Bhatnagar, P. Fontana, A. Gutin, Y. Van de Peer, F. Salamini, R. Viola posted to genome grape tf by druvus on 2009-02-19 14:41:41 as along with 2 people semrich natstreet
	Genome-wide identification of potential plant E2F target genes. [My Copy] Plant Physiol, Vol. 139, No. 1. (September 2005), pp. 316-328. by K. Vandepoele, K. Vlieghe, K. Florquin, et al.L. Hennig, G. T. Beemster, W. Gruissem, Y. Van de Peer, D. Inzé, L. De Veylder posted to genome plant tf by druvus on 2009-02-19 14:33:18 as along with 1 person and 1 group kengg Plantandetc
	The Role of bZIP Transcription Factors in Green Plant Evolution: Adaptive Features Emerging from Four Founder Genes [My Copy] PLoS ONE, Vol. 3, No. 8. (2008), e2944. by Luiz G. Corrêa, Diego M. Riaño-Pachón, Carlos G. Schrago, Vicentini, Bernd Mueller-Roeber, Michel Vincentz posted to evolution plant tf by druvus on 2009-02-13 10:14:34 as along with 3 people and 2 groups HEIRS venura renatomilani HEIRS - Environmental Illness Research HEIRS Agriculture and Food Production
	Extracting regulatory sites from the upstream region of yeast genes by computational analysis of oligonucleotide frequencies1 [My Copy] Journal of Molecular Biology, Vol. 281, No. 5. (04 September 1998), pp. 827-842. by J. van Helden, B. André, J. Collado-Vides posted to target tf by druvus on 2009-02-10 13:37:48 as along with 6 people Dulce wowalz dquest johncumbers smiddha ale
	Structure and evolution of gene regulatory networks in microbial genomes. [My Copy] Research in microbiology, Vol. 158, No. 10. (December 2007), pp. 787-794. by S. C. Janga, J. Collado-Vides posted to bacteria genomics network tf by druvus on 2009-01-26 08:55:39 as along with 1 person and 1 group gcarbajosa TNT
	Evaluation of phylogenetic footprint discovery for predicting bacterial cis-regulatory elements and revealing their evolution [My Copy] BMC Bioinformatics, Vol. 9 (23 January 2008), 37. by Rekin's Janky, Jacques van Helden posted to bacteria evolution predictions tf by druvus on 2009-01-26 08:53:36 as along with 2 people and 1 group cisevol xili03 cis-regulatory-evolution
	The entire organization of transcription units on the Bacillus subtilis genome [My Copy] BMC Genomics, Vol. 8 (28 June 2007), 197. by Hirokazu Kobayashi, Joe Akitomi, Nobuyuki Fujii, et al.Kazuo Kobayashi, Md A. Amin, Ken Kurokawa, Naotake Ogasawara, Shigehiko Kanaya posted to bacillus genome tf by druvus on 2009-01-26 08:51:51 as along with 2 people Cortel hpaces
	Identification and analysis of DNA-binding transcription factors in Bacillus subtilisand other Firmicutes- a genomic approach [My Copy] BMC Genomics, Vol. 7 (13 June 2006), 147. by Samadhi Moreno-Campuzano, Sarath C. Janga, Ernesto Perez-Rueda posted to bacillus tf by druvus on 2009-01-26 08:47:41 as along with 1 person Winzer
	Genome-Wide Survey of Transcription Factors in Prokaryotes Reveals Many Bacteria-Specific Families Not Found in Archaea [My Copy] DNA Res, Vol. 12, No. 5. (1 January 2005), pp. 269-280. by Yoshiaki Minezaki, Keiichi Homma, Ken Nishikawa posted to bacteria tf by druvus on 2009-01-26 08:43:46 as
	A new family of transcription factors [My Copy] Development, Vol. 135, No. 18. (15 September 2008), pp. 3093-3101. by Yoko Yamada, Hong Y. Wang, Masashi Fukuzawa, Geoffrey J. Barton, Jeffrey G. Williams posted to plant tf by druvus on 2009-01-26 08:38:30 as along with 1 person icq242500260
	Identification of novel conserved peptide uORF homology groups in Arabidopsis and rice reveals ancient eukaryotic origin of select groups and preferential association with transcription factor-encoding genes [My Copy] BMC Biology, Vol. 5 (30 July 2007), 32. by Celine A. Hayden, Richard A. Jorgensen posted to arabidopsis plant rice tf uorf by druvus on 2009-01-14 08:47:59 as along with 1 person yoonk
	Ranked prediction of p53 targets using hidden variable dynamic modeling [My Copy] Genome Biology, Vol. 7, No. 3. (2006) by Martino Barenco, Daniela Tomescu, Daniel Brewer, Robin Callard, Jaroslav Stark, Michael Hubank posted to binding gene network predictions tf by druvus on 2009-01-12 14:08:03 as along with 1 person johncumbers
	rHVDM: an R package to predict the activity and targets of a transcription factor. [My Copy] Bioinformatics (Oxford, England), Vol. 25, No. 3. (1 February 2009), pp. 419-420. by M. Barenco, E. Papouli, S. Shah, D. Brewer, C. J. Miller, M. Hubank posted to predictions r target tf by druvus on 2009-01-12 13:58:19 as along with 6 people frohike jfr natstreet renatomilani nuin guhjy
	A new systematic computational approach to predicting target genes of transcription factors [My Copy] Nucl. Acids Res. (18 June 2007), gkm454. by Xinbin Dai, Ji He, Xuechun Zhao posted to algorithm target tf by druvus on 2008-12-19 16:56:41 as along with 3 people lptolik GustavoLacerda cabbagezs
	Genome-wide analysis of heat shock transcription factor families in rice and Arabidopsis. [My Copy] Journal of genetics and genomics = Yi chuan xue bao, Vol. 35, No. 2. (February 2008), pp. 105-118. by J. Guo, J. Wu, Q. Ji, et al.C. Wang, L. Luo, Y. Yuan, Y. Wang, J. Wang posted to arabidopsis rice stress tf by druvus on 2008-12-19 16:53:00 as
	The TRANSFAC project as an example of framework technology that supports the analysis of genomic regulation. [My Copy] Briefings in bioinformatics (24 April 2008) by Edgar Wingender posted to tf transfac by druvus on 2008-12-19 16:51:08 as along with 1 person reyez
	Evolutionary complexity of MADS complexes. [My Copy] Current opinion in plant biology, Vol. 10, No. 1. (February 2007), pp. 32-38. by A. S. Rijpkema, T. Gerats, M. Vandenbussche posted to evolution tf by druvus on 2008-12-19 16:18:48 as
	Genome-wide analysis of the MADS-box gene family in Populus trichocarpa. [My Copy] Gene, Vol. 378 (15 August 2006), pp. 84-94. by C. H. Leseberg, A. Li, H. Kang, M. Duvall, L. Mao posted to populus tf by druvus on 2008-12-19 16:10:37 as

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integration	1
intermine	1
intron	1
iron_limitation	1
isolation	1
its	1
java	1
knowledge_management	1
linear_models	1
lrt	1
malaria	1
matlab	1
mcl	1
mediawiki	1
membrane	1
metal	1
methods	1
methylation	1
microbial_communities	1
microscope	1
mir-396	1
moby	1
mod	1
modules	1
mosquito	1
mosquitoes	1
mrna	1
mutation_rate	1
novicida	1
nucleotide	1
oligo	1
opls	1
orthology	1
parser	1
pce	1
peptide	1
pfam	1
phy	1
pine	1
pinus	1
probabilistic	1
protease	1
proteat	1
proteom	1
provenance	1
psbs	1
pseudomonas	1
real_time_pcr	1
refseq	1
rflp	1
ribosome	1
rosids	1
rrecombination	1
ruby	1
scientometrics	1
script	1
seldi	1
senescence	1
sequenceing	1
snv	1
soap	1
sql	1
statistic	1
sunflower	1
symfony	1
tantem	1
ticks	1
transfac	1
transposition	1
tularensis	1
vaccine	1
validation	1
viewer	1
visualsisation	1
wgcna	1
wheat	1
wolbachia	1

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