siebert's library 87 articles Export

	High-resolution DNA binding specificity analysis of yeast transcription factors [My Copy] Genome research, Vol. 19, No. 4. (21 April 2009), pp. 556-566. by Cong Zhu, Kelsey Byers, Rachel Mccord, et al.Zhenwei Shi, Michael Berger, Daniel Newburger, Katrina Saulrieta, Zachary Smith, Mita Shah, Mathangi Radhakrishnan, Anthony Philippakis, Yanhui Hu, Federico De Masi, Marcin Pacek, Andreas Rolfs, Tvs Murthy, Joshua Labaer, Martha L. L. Bulyk posted to co-regulation dna_binding_specificity experimental pbm s_cerevisiae tfbs transcription transcription_regulation by siebert on 2009-05-20 16:31:56 as along with 9 people matted austin_mcdonald dolchan rpatward xwbcn absterga djkt kristallreiner aalibes
	Diversity and complexity in DNA recognition by transcription factors [My Copy] Science, Vol. 324, No. 5935. (26 June 2009), pp. 1720-1723. by Gwenael Badis, Michael F. Berger, Anthony A. Philippakis, et al.Shaheynoor Talukder, Andrew R. Gehrke, Savina A. Jaeger, Esther T. Chan, Genita Metzler, Anastasia Vedenko, Xiaoyu Chen, Hanna Kuznetsov, Chi-Fong Wang, David Coburn, Daniel E. Newburger, Quaid Morris, Timothy R. Hughes, Martha L. Bulyk posted to dna_binding_specificity experimental mouse pbm tfbs transcription transcription_regulation by siebert on 2009-05-20 11:55:56 as along with 22 people and 1 group nklee sconlan isimpson jbhiatt daforerog absterga mingzhi galka8_diploma fenghezi TRHvidsten ilyashl cambray rpatward tibbitts dpollard JustinCrocker burak aalibes dipenps roys emptyhb tmmurali RockmanLab
	Modeling dependencies in protein-DNA binding sites [My Copy] In RECOMB '03: Proceedings of the seventh annual international conference on Research in computational molecular biology (2003), pp. 28-37. by Yoseph Barash, Gal Elidan, Nir Friedman, Tommy Kaplan posted to bayesian_networks mixture_model pwm tfbs transcription transcription_regulation by siebert on 2009-05-14 14:45:39 as along with 1 person dquest
	Gene expression divergence in yeast is coupled to evolution of DNA-encoded nucleosome organization [My Copy] Nat Genet, Vol. 41, No. 4. (01 March 2009), pp. 438-445. by Yair Field, Yvonne Fondufe-Mittendorf, Irene K. K. Moore, et al.Piotr Mieczkowski, Noam Kaplan, Yaniv Lubling, Jason D. D. Lieb, Jonathan Widom, Eran Segal posted to c_albicans evolution expression expression_variability nucleosome_map nucleosome_occupancy s_cerevisiae yeast by siebert on 2009-04-24 14:12:47 as along with 10 people and 1 group aprickett daveGerrard robfsouza TRHvidsten athma clearbluespring lp2 fenghezi djkt provero BergmanLab
	Intrinsic variability of gene expression encoded in nucleosome positioning sequences [My Copy] Nature genetics (1 March 2009) by Jung, Young-Joon J. Kim posted to expression_variability nucleosome nucleosome_occupancy s_cerevisiae by siebert on 2009-04-16 12:37:54 as along with 10 people hagechouchin443 TRHvidsten athma absterga shikin inesdesantiago jjray fenghezi djkt provero
	Widespread bidirectional promoters are the major source of cryptic transcripts in yeast. [My Copy] Nature, Vol. 457, No. 7232. (19 February 2009), pp. 1038-1042. by Helen Neil, Christophe Malabat, Yves d'Aubenton-Carafa, Zhenyu Xu, Lars M. Steinmetz, Alain Jacquier posted to bidirectional_promoters cuts s_cerevisiae transcription transcription_initiation by siebert on 2009-04-09 14:20:44 as along with 7 people bartjacobse maximilianh jiezhou mtagaya djkt jbhiatt bpcusack
	Frequency-modulated nuclear localization bursts coordinate gene regulation. [My Copy] Nature, Vol. 455, No. 7212. (25 September 2008), pp. 485-490. by Long Cai, Chiraj K. Dalal, Michael B. Elowitz posted to coordination experimental localization regulation s_cerevisiae transcription transcription_regulation by siebert on 2009-04-07 09:22:05 as along with 8 people and 1 group bertelsen ellarond dpollard erel10 inesdesantiago raik caseybrown jjray RockmanLab
	arrayQualityMetrics - a Bioconductor package for quality assessment of microarray data [My Copy] Bioinformatics, Vol. 25, No. 3. (1 February 2009), pp. 415-416. by Audrey Kauffmann, Robert Gentleman, Wolfgang Huber posted to microarray_analysis microarray_quality programming r r_package by siebert on 2009-03-16 14:57:59 as along with 16 people and 1 group jperkins VGreiff Zephyrus daforerog shikin lwaldron jfr ptrobajo rdiaz bertelsen pkonings dswan renatomilani rschulz nuin guhjy Bioinformatics
	RGG: A general GUI framework for R scripts [My Copy] BMC bioinformatics, Vol. 10, No. 1. (2009), 74. by Ilhami Visne, Erkan Dilaveroglu, Klemens Vierlinger, et al.Martin Lauss, Ahmet Yildiz, Andreas Weinhaeusel, Christa Noehammer, Friedrich Leisch, Albert Kriegner posted to gui programming r r_package by siebert on 2009-03-16 14:22:24 as along with 22 people and 3 groups operon jfr daforerog natstreet guhjy lwaldron Yanno rdiaz nuin trfield pengchy acj2109 stajich jmeppley fpattyn VGreiff renatomilani cisevol erexhepa dswan jandot druvus Mycology BergmanLab Bioinformatics
	Mammalian RNA polymerase II core promoters: insights from genome-wide studies. [My Copy] Nature reviews. Genetics, Vol. 8, No. 6. (08 June 2007), pp. 424-436. by Albin Sandelin, Piero Carninci, Boris Lenhard, Jasmina Ponjavic, Yoshihide Hayashizaki, David A. Hume posted to core_promoter_elements review rna_pol_ii transcription transcription_initiation by siebert on 2009-03-13 15:50:07 as along with 16 people and 3 groups inesdesantiago isimpson megraw guhjy tonamswish maximilianh rpatward Lauren_Jones agustinarce dchughes xiaobeizhao zwang cabbagezs cisevol GeeSharpMinor idonaldson G4ID Genetics-of-Gambling cis-regulatory-evolution
	The role of enhancers as centres for general transcription factor recruitment [My Copy] Trends in Biochemical Sciences, Vol. 30, No. 11. (November 2005), pp. 593-599. by H. Szutorisz, N. Dillon, L. Tora posted to enhancers review transcription transcription_initiation transcription_regulation by siebert on 2009-03-12 17:12:54 as along with 1 person raylim
	A transcription factor affinity based code for mammalian transcription initiation [My Copy] Genome Research, Vol. 19, No. 4. (13 April 2009), pp. 644-656. by Molly Megraw, Fernando Pereira, Shane T. T. Jensen, Uwe Ohler, Artemis G. G. Hatzigeorgiou posted to cage core_promoter_elements logistic_regression mammals mirna tfbs transcription transcription_initiation by siebert on 2009-03-11 10:08:01 as along with 9 people and 1 group heliopais guhjy tonamswish rpatward biozhang2001 absterga jbhiatt samgj daforerog microRNA
	Genome-wide RNA polymerase II: not genes only! [My Copy] Trends in Biochemical Sciences, Vol. 33, No. 6. (June 2008), pp. 265-273. by Frederic Koch, Frederic Jourquin, Pierre Ferrier, Jean-Christophe Andrau posted to pol_ii_enhancer_binding prpp review rna_pol_ii transcription transcription_elongation transcription_initiation transcription_regulation by siebert on 2009-03-09 14:38:42 as along with 1 person inesdesantiago
	A barrier nucleosome model for statistical positioning of nucleosomes throughout the yeast genome [My Copy] Genome Research, Vol. 18, No. 7. (12 July 2008), pp. 1073-1083. by Travis N. Mavrich, Ilya P. Ioshikhes, Bryan J. Venters, et al.Cizhong Jiang, Lynn P. Tomsho, Ji Qi, Stephan C. Schuster, Istvan Albert, B. Franklin Pugh posted to experimental nfr nucleosome nucleosome_map s_cerevisiae statistical_positioning by siebert on 2009-03-06 15:27:37 as along with 7 people hagechouchin443 humburg talponer sonjadaniela vega aalibes gdb
	Poised RNA polymerase II gives pause for thought [My Copy] Cell, Vol. 133, No. 4. (16 May 2008), pp. 581-584. by T. Margaritis, F. C. Holstege posted to promoter-proximal_pausing rate-limiting_control review rna_pol_ii rna_pol_ii_stalling transcription_elongation by siebert on 2009-02-19 15:29:53 as along with 3 people and 1 group skoch3 gotant6884 inesdesantiago Koch_Lab
	CoCAS: A ChIP-on-chip analysis suite [My Copy] Bioinformatics (Oxford, England), Vol. 25, No. 7. (1 April 2009), pp. 954-955. by Touati Benoukraf, Pierre Cauchy, Romain Fenouil, et al.Adrien Jeanniard, Frederic Koch, Sébastien Jaeger, Denis Thieffry, Jean Imbert, Jean-Christophe C. Andrau, Salvatore Spicuglia, Pierre Ferrier posted to analysis application chip-on-chip by siebert on 2009-02-19 13:13:28 as along with 6 people and 1 group Eduvernois guhjy jfr dswan Stew sebastien_vigneau Bioinformatics - CRUK
	Nucleosome positioning and gene regulation: advances through genomics [My Copy] Nature Reviews Genetics, Vol. 10, No. 3. (01 March 2009), pp. 161-172. by Cizhong Jiang, Franklin posted to chromatin histone_modification nfr nucleosome review transcription transcription_initiation transcription_regulation by siebert on 2009-02-19 13:10:30 as along with 13 people and 1 group tonamswish hagechouchin443 humburg talponer fenghezi inesdesantiago rpatward timflutre nilsbecker aalibes idonaldson WanderingAengus provero cube_and_beyond
	Normalization and experimental design for ChIP-chip data [My Copy] BMC Bioinformatics, Vol. 8 (25 June 2007), 219. by Shouyong Peng, Artyom A. Alekseyenko, Erica Larschan, Mitzi I. Kuroda, Peter J. Park posted to chip-on-chip experimental normalization by siebert on 2009-02-19 13:06:54 as along with 7 people and 2 groups rschulz guhjy kengg Stew yevishere caseybrown baldigroup EisenLab Plantandetc
	Transcriptional activation: mediator can act after preinitiation complex formation [My Copy] Molecular cell, Vol. 17, No. 6. (18 March 2005), pp. 752-754. by K. Struhl posted to mediator transcription transcription_initiation transcription_regulation by siebert on 2009-02-19 12:59:37 as
	RNA polymerase II stalling: loading at the start prepares genes for a sprint [My Copy] Genome Biology, Vol. 9, No. 5. (02 May 2008), 220. by Jia Wu, Michael Snyder posted to rate-limiting_control review rna_pol_ii rna_pol_ii_stalling transcription_elongation by siebert on 2009-02-04 08:27:22 as along with 2 people and 1 group cisevol ohara BergmanLab
	Context-specific independence mixture modeling for positional weight matrices [My Copy] Bioinformatics, Vol. 22, No. 14. (15 July 2006), pp. e166-173. by Benjamin Georgi, Alexander Schliep posted to mixture_model pwm tfbs transcription transcription_regulation by siebert on 2009-02-03 09:59:38 as
	Model-based analysis of tiling-arrays for ChIP-chip [My Copy] Proceedings of the National Academy of Sciences, Vol. 103, No. 33. (15 August 2006), pp. 12457-12462. by W. E. Johnson, W. Li, C. A. Meyer, et al.R. Gottardo, J. S. Carroll, M. Brown, X. S. Liu posted to chip-on-chip dna_binding_specificity experimental tiling_microarrays by siebert on 2009-01-29 16:51:38 as along with 11 people and 1 group ashishanand idonaldson mcm rgottardo GeeSharpMinor kengg nicholso talponer caseybrown bertelsen bozdagd Plantandetc
	Integrating large-scale functional genomic data to dissect the complexity of yeast regulatory networks [My Copy] Nature genetics, Vol. 40, No. 7. (15 July 2008), pp. 854-861. by Jun Zhu, Bin Zhang, Erin N. N. Smith, et al.Becky Drees, Rachel B. B. Brem, Leonid Kruglyak, Roger E. E. Bumgarner, Eric E. E. Schadt posted to bayesian_networks eqtl expression protein_protein_interaction regulatory_networks s_cerevisiae transcription_factors by siebert on 2009-01-28 08:44:28 as along with 19 people and 1 group JoeBanks arider1 megraw TRHvidsten ggallone jo_davies suteedee burak realzhang kengg maralena ptrobajo tmmurali guhjy roys marck caseybrown djkt srp33 Jarman Lab
	High-resolution computational models of genome binding events [My Copy] Nat Biotech, Vol. 24, No. 8. (09 August 2006), pp. 963-970. by Yuan Qi, Alex Rolfe, Kenzie D. Macisaac, et al.Georg K. Gerber, Dmitry Pokholok, Julia Zeitlinger, Timothy Danford, Robin D. Dowell, Ernest Fraenkel, Tommi S. Jaakkola, Richard A. Young, David K. Gifford posted to chip-on-chip deconvolution dna_binding_specificity experimental tiling_microarrays by siebert on 2009-01-22 13:22:32 as along with 9 people and 1 group humburg arsyed Scis0000002 Stew jfr wnpx ccr caseybrown inesdesantiago Bioinformatics - CRUK
	Diverse two-dimensional input functions control bacterial sugar genes [My Copy] Molecular cell, Vol. 29, No. 6. (28 March 2008), pp. 786-792. by S. Kaplan, A. Bren, A. Zaslaver, E. Dekel, U. Alon posted to dor e_coli hill_function regulation transcription transcription_regulation by siebert on 2009-01-20 15:26:00 as along with 3 people agonzale kentz kentsis
	I am not a scientist, I am a number [My Copy] PLoS Comput Biol, Vol. 4, No. 12. (26 December 2008), e1000247. by Philip E. Bourne, Lynn J. Fink posted to open_id research_id scholar_factor by siebert on 2009-01-20 08:54:32 as along with 32 people and 5 groups tnhh Scis0000002 deanmalmgren pablog jrw henk-cul kaniko rschulz lesikv phreeza najwvandijk aberamanda pick600 kevinemamy reyez VGreiff guano jcaddy mmarois Yanno GustavoLacerda allysonlister dswan nuin sebastien_vigneau Zephyrus thomaskelder rs dbk dullhunk kshameer stajich dbmi-nlp STS Academic Writing, Literacies and Discourse Roswell Cancer Crosstalk Mycology
	Malleable machines in transcription regulation: the mediator complex [My Copy] PLoS computational biology, Vol. 4, No. 12. (December 2008) by A. Tóth-Petróczy, C. J. Oldfield, I. Simon, et al.Y. Takagi, A. K. Dunker, V. N. Uversky, M. Fuxreiter posted to disordered_regions idr mediator regulation transcription transcription_regulation by siebert on 2009-01-19 12:43:30 as along with 2 people akraemer chad_davis
	It's the sequence, stupid! [My Copy] Science, Vol. 322, No. 5900. (17 October 2008), pp. 380-381. by Hilary A. Coller, Leonid Kruglyak posted to h_sapiens mouse regulation transcription transcription_regulation by siebert on 2009-01-19 12:40:23 as along with 10 people and 4 groups GustavoLacerda Zephyrus cisevol isimpson dlobo bpcusack reyez djkt ptrobajo marck Roswell Cancer Crosstalk cis-regulatory-evolution BergmanLab GEB
	Divergent transcription from active promoters [My Copy] Science (New York, N.Y.), Vol. 322, No. 5909. (19 December 2008), pp. 1849-1851. by Amy C. Seila, Mauro J. Calabrese, Stuart S. Levine, et al.Gene W. Yeo, Peter B. Rahl, Ryan A. Flynn, Richard A. Young, Phillip A. Sharp posted to divergent_transcription mouse transcription transcription_initiation by siebert on 2009-01-19 12:37:43 as along with 16 people guhjy gdb fenghezi tonamswish emptyhb caseybrown sebastien_vigneau inesdesantiago djkt jjray strands Glires lp2 sandersl diaz0058 jbhiatt
	Epigenetics: How to lose a tail [My Copy] Nature, Vol. 456, No. 7224. (17 December 2008), pp. 885-886. by Mary A. Osley posted to chromatin histone_modification mouse nucleosome s_cerevisiae by siebert on 2009-01-19 12:34:13 as
	Properties of developmental gene regulatory networks [My Copy] Proceedings of the National Academy of Sciences, Vol. 105, No. 51. (23 December 2008), pp. 20063-20066. by Eric H. Davidson, Michael S. Levine posted to developmental networks regulation regulatory_networks subcircuits by siebert on 2009-01-19 12:28:58 as along with 6 people erel10 flybell akraemer mjoach kshundyak roys
	tCal: transcriptional probability calculator using thermodynamic model [My Copy] Bioinformatics, Vol. 24, No. 22. (15 November 2008), pp. 2639-2640. by Xin Zhou, Zhen Su posted to python rna_pol_ii statistical_mechanics thermodynamic_model transcription transcription_factors transcription_regulation by siebert on 2009-01-09 12:43:48 as along with 2 people and 1 group allPowerde behindtherabbit TranscriptionalRegulationWithThermodynamicModels
	Transcriptional regulation by the numbers: applications [My Copy] Current Opinion in Genetics & Development, Vol. 15, No. 2. (April 2005), pp. 125-135. by L. Bintu, N. E. Buchler, H. G. Garcia, et al.U. Gerland, T. Hwa, J. Kondev, T. Kuhlman, R. Phillips posted to rna_pol_ii statistical_mechanics thermodynamic_model transcription transcription_factors transcription_regulation by siebert on 2009-01-09 10:04:44 as along with 6 people and 1 group jjray imouthesmp dpollard madhadron dquest discreteonyxorb EisenLab
	On schemes of combinatorial transcription logic [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 100, No. 9. (29 April 2003), pp. 5136-5141. by Nicolas E. Buchler, Ulrich Gerland, Terence Hwa posted to regulation regulatory_networks transcription transcription_factors transcription_logic transcription_regulation by siebert on 2008-12-10 14:12:24 as along with 6 people and 1 group akraemer dbikard jjray balajis olympos discreteonyxorb Synthetic Biology
	Analysis of combinatorial cis-regulation in synthetic and genomic promoters [My Copy] Nature, Vol. 457, No. 7226. (23 November 2008), pp. 215-218. by Jason Gertz, Eric D. Siggia, Barak A. Cohen posted to cis-regulatory_logic cooperative_binding s_cerevisiae synthetic_promoters thermodynamic_model by siebert on 2008-12-09 13:53:35 as along with 17 people and 4 groups Vincent_Rouilly pcarbo emptyhb TRHvidsten rpatward jbhiatt lusk maximilianh roys dpollard druvus sebastien_vigneau pengchy sandersl djkt isimpson xianjun TranscriptionalRegulationWithThermodynamicModels RockmanLab cis-regulatory-evolution microbiology_nijmegen
	Identifying transcription factor functions and targets by phenotypic activation [My Copy] Proc Natl Acad Sci U S A, Vol. 103, No. 32. (8 August 2006), pp. 12045-12050. by G. Chua, Q. D. Morris, R. Sopko, et al.M. D. Robinson, O. Ryan, E. T. Chan, B. J. Frey, B. J. Andrews, C. Boone, T. R. Hughes posted to experimental expression overexpression phenotypic_activation transcription_factors by siebert on 2008-12-09 10:18:18 as along with 4 people and 1 group raiyar indigoviolet koller hplatero EisenLab
	Transcriptional regulatory code of a eukaryotic genome [My Copy] Nature, Vol. 431, No. 7004. (02 September 2004), pp. 99-104. by Christopher T. Harbison, D. Benjamin Gordon, Tong I. Lee, et al.Nicola J. Rinaldi, Kenzie D. Macisaac, Timothy W. Danford, Nancy M. Hannett, Jean-Bosco Tagne, David B. Reynolds, Jane Yoo, Ezra G. Jennings, Julia Zeitlinger, Dmitry K. Pokholok, Manolis Kellis, P. Alex Rolfe, Ken T. Takusagawa, Eric S. Lander, David K. Gifford, Ernest Fraenkel, Richard A. Young posted to chip-on-chip s_cerevisiae transcription transcription_factors transcription_regulation by siebert on 2008-12-09 10:15:17 as along with 29 people and 8 groups viren4388 daveGerrard Dulce talponer wowalz alokm tuck lyongu kaspermunch dpollard balicea kt dchughes nirfriedman cmm nickluscombe kengg gespim koller lusk nklee cisevol njcitulike xili03 brant mariakmejia kristallreiner snow_dragon aalibes Bioinformatics EisenLab FAB-lab G4ID EBI-regulation Plantandetc Genetics-of-Gambling BergmanLab
	Human genomes as email attachments [My Copy] Bioinformatics, Vol. 25, No. 2. (15 January 2009), pp. 274-275. by Scott Christley, Yiming Lu, Chen Li, Xiaohui Xie posted to compression genome by siebert on 2008-12-08 09:51:16 as along with 25 people and 3 groups hzoltan idonaldson kshameer operon guhjy druvus n00c dnewburger djkt mmartin sobolevnrm jfr psique cisevol GeeSharpMinor neils dswan dullhunk hpiwowar nuin cthachuk rschulz treangen renatomilani jmeppley baker-group BergmanLab Bioinformatics
	High-throughput assay for determining specificity and affinity of protein-DNA binding interactions [My Copy] Nat Protoc, Vol. 1, No. 1. (2006), pp. 215-222. by O. Hallikas, J. Taipale posted to dna_binding_specificity experimental protein_dna_interaction protocol by siebert on 2008-11-26 09:01:40 as along with 1 person Terkko
	Transcriptional regulation by the numbers: models [My Copy] Current Opinion in Genetics & Development, Vol. 15, No. 2. (April 2005), pp. 116-124. by L. Bintu, N. E. Buchler, H. G. Garcia, et al.U. Gerland, T. Hwa, J. Kondev, R. Phillips posted to rna_pol_ii statistical_mechanics thermodynamic_model transcription transcription_factors transcription_regulation by siebert on 2008-11-13 16:54:55 as along with 5 people jjray imouthesmp madhadron dquest discreteonyxorb
	Using Bayesian networks to analyze expression data [My Copy] Journal of Computational Biology, Vol. 7, No. 3-4. (August 2000), pp. 601-620. by N. Friedman, M. Linial, I. Nachman, D. Pe'er posted to bayesian_networks expression genetic_networks microarray_analysis regulatory_networks s_cerevisiae by siebert on 2008-11-11 16:07:39 as along with 11 people ruichu yonatanf cswinburne brl ldfu dragonrez Schmidtc wnpx helsley heliopais srp33
	R/parallel - speeding up bioinformatics analysis with R [My Copy] BMC Bioinformatics, Vol. 9, No. 1. (22 September 2008), 390. by Gonzalo Vera, Ritsert Jansen, Remo Suppi posted to parallel programming r r_package by siebert on 2008-11-11 08:46:01 as along with 26 people and 1 group Zephyrus daveGerrard sotacam cassj walshtp dposada jfr Yanno operon talponer guhjy dakelley chad_davis ptrobajo pengchy shikin robertlischke chrisamiller cisevol druvus renatomilani rdiaz nuin GeeSharpMinor neils jandot BergmanLab
	Perspectives on the RNA polymerase II core promoter [My Copy] Biochemical Society transactions, Vol. 34, No. Pt 6. (December 2006), pp. 1047-1050. by T. Juven-Gershon, J. Y. Hsu, J. T. Kadonaga posted to core core_promoter_elements promoter review rna_pol_ii transcription transcription_factors transcription_initiation by siebert on 2008-11-11 08:44:36 as
	A fast, robust and tunable synthetic gene oscillator [My Copy] Nature (29 October 2008) by Jesse Stricker, Scott Cookson, Matthew R. Bennett, William H. Mather, Lev S. Tsimring, Jeff Hasty posted to e_coli gene_oscillator regulatory_networks synthetic_biology by siebert on 2008-11-06 17:11:19 as
	A Bayesian regression approach to the inference of regulatory networks from gene expression data [My Copy] Bioinformatics, Vol. 21, No. 14. (15 July 2005), pp. 3131-3137. by Simon Rogers, Mark Girolami posted to artificial_networks bayesian_regression expression network_inference networks regulatory_networks by siebert on 2008-10-30 11:50:54 as along with 3 people engelhardt tvdbulck ptrobajo
	An introduction to MCMC for machine learning [My Copy] Machine Learning, Vol. 50, No. 1. (2003), pp. 5-43. by Christophe Andrieu, Nando de Freitas, Arnaud Doucet, Michael I. Jordan posted to markov_chain_monte_carlo mcmc review sampling stochastic_algorithms by siebert on 2008-09-25 13:51:54 as along with 4 people jmchauvet varung muraken vi_z
	Principles of transcriptional control in the metabolic network of Saccharomyces cerevisiae [My Copy] Nat Biotechnol, Vol. 22, No. 1. (January 2004), pp. 86-92. by J. Ihmels, R. Levy, N. Barkai posted to metabolic_network s_cerevisiae transcription transcription_modules transcription_regulation by siebert on 2008-08-28 12:07:39 as along with 7 people and 4 groups icases adepace nickluscombe koller arne shung hryk EisenLab EBI-regulation TNT dIEMoSIRIS
	Defining transcription modules using large-scale gene expression data [My Copy] Bioinformatics, Vol. 20, No. 13. (1 September 2004), pp. 1993-2003. by J. Ihmels, S. Bergmann, N. Barkai posted to clustering microarray_analysis microarrays s_cerevisiae transcription transcription_modules by siebert on 2008-08-27 15:03:32 as along with 5 people and 3 groups aviad_work marcius adepace natstreet tvdbulck EisenLab BioinfoCIPF SGU-CIPF
	Expression Profiler: next generation - an online platform for analysis of microarray data [My Copy] Nucl. Acids Res., Vol. 32, No. suppl_2. (1 July 2004), pp. W465-470. by M. Kapushesky, P. Kemmeren, A. C. Culhane, et al.S. Durinck, J. Ihmels, C. Körner, M. Kull, A. Torrente, U. Sarkans, J. Vilo, A. Brazma posted to expression_profiler microarray_analysis microarrays by siebert on 2008-08-26 16:52:00 as along with 4 people bertelsen pengchy rdiaz fisherp
	Revealing modular organization in the Yeast transcriptional network [My Copy] Nat Genet, Vol. 31, No. 4. (August 2002), pp. 370-377. by J. Ihmels, G. Friedlander, S. Bergmann, O. Sarig, Y. Ziv, N. Barkai posted to clustering microarray_analysis microarrays s_cerevisiae transcription transcription_modules by siebert on 2008-08-26 14:39:08 as along with 5 people and 2 groups adepace nickluscombe natstreet karfunkel ellakat EisenLab EBI-regulation

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transcription	49
s_cerevisiae	26
transcription_regulation	24
regulation	20
review	15
experimental	13
transcription_factors	13
regulatory_networks	11
transcription_initiation	10
chip-on-chip	8
expression	8
nucleosome	8
rna_pol_ii	8
mediator	7
cis-regulatory_modules	5
crm	5
dna_binding_specificity	5
microarray_analysis	5
tfbs	5
transcription_elongation	5
transcriptome	5
bayesian_networks	4
microarrays	4
mouse	4
network_inference	4
networks	4
nucleosome_occupancy	4
thermodynamic_model	4
core_promoter_elements	3
e_coli	3
methods	3
mirna	3
nucleosome_map	3
probabilistic_framework	3
programming	3
r	3
r_package	3
spt6	3
statistical_mechanics	3
tiling_microarrays	3
transcription_modules	3
cellular_networks	2
chromatin	2
cis-regulatory_logic	2
clustering	2
cooperative_binding	2
cryptic_promoters	2
database	2
d_melanogaster	2
expression_variability	2
fact	2
histone_modification	2
h_sapiens	2
hybmap	2
introduction	2
mixture_model	2
neural_networks	2
nfr	2
pbm	2
pwm	2
rate-limiting_control	2
remote_homology_detection	2
rna_pol_ii_stalling	2
rna-seq	2
s_pombe	2
spt16	2
ultrahigh_throughput_sequencing	2
yeastract	2
ahab	1
analysis	1
api	1
application	1
artificial_networks	1
bayesian_regression	1
bidirectional_promoters	1
binding_site_correlation	1
biojava	1
biophysical_models	1
cage	1
c_albicans	1
compression	1
coordination	1
core	1
co-regulation	1
cross_species	1
cuts	1
deconvolution	1
developmental	1
disordered_regions	1
divergent_transcription	1
dor	1
encode	1
enhancers	1
ensemble_centroid	1
eqtl	1
evolution	1
expression_profiler	1
felsenstein	1
flo8	1
gene_oscillator	1
genetic_networks	1
genome	1
gibbs_sampler	1
gui	1
hidden_markov_model	1
hierarchical_networks	1
hill_function	1
hmm	1
idr	1
localization	1
logistic_regression	1
long_short-term_memory	1
lstm	1
mammals	1
markov_chain_monte_carlo	1
mcmc	1
metabolic_network	1
metropolis-hastings_algorithm	1
microarray_quality	1
multi-class_learning	1
multi-kernel_learning	1
ncrna	1
normalization	1
open_id	1
overexpression	1
parallel	1
phenotypic_activation	1
phylogenetic_model	1
pol_ii_enhancer_binding	1
probabilistic_graphical_models	1
promoter	1
promoter-proximal_pausing	1
protein_dna_interaction	1
protein_fold_recognition	1
protein_protein_interaction	1
protocol	1
prpp	1
psam	1
psi-blast	1
psipred	1
pssm	1
python	1
research_id	1
sampling	1
scholar_factor	1
secondary_structure_prediction	1
statistical_positioning	1
stochastic_algorithms	1
stubb	1
subcircuits	1
synthetic_biology	1
synthetic_promoters	1
transcriptional_noise	1
transcription_logic	1
yeast	1

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