Tag co-expression [88 articles] Export

Recent papers classified by the tag co-expression.

	Unraveling Transcriptional Control in Arabidopsis Using cis-Regulatory Elements and Coexpression Networks [My Copy] Plant Physiol., Vol. 150, No. 2. (1 June 2009), pp. 535-546. by Klaas Vandepoele, Mauricio Quimbaya, Tine Casneuf, Lieven De Veylder, Yves Van de Peer posted to microarray co-expression arabidopsis by zchen on 2009-12-03 23:47:50 as along with 1 person dandaman
	Arabidopsis gene co-expression network and its functional modules [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (2009), 346. by Linyong Mao, John Van Hemert, Sudhansu Dash, Julie Dickerson posted to module co-expression arabidopsis by zchen on 2009-12-03 22:17:02 as along with 4 people dolchan venancio Borelli druvus
	Statistical methods for gene set co-expression analysis [My Copy] Bioinformatics, Vol. 25, No. 21. (1 November 2009), pp. 2780-2786. by YounJeong Choi, Christina Kendziorski posted to lung_cancer differentially_expressed_genes diabetes co-expression by zchen on 2009-12-03 17:56:06 as along with 8 people and 1 group jperkins ptrobajo natstreet heliopais dolchan zufar rdiaz neils Orengo Group Journal Picks
	ExprAlign - the identification of ESTs in non-model species by alignment of cDNA microarray expression profiles [My Copy] BMC Genomics, Vol. 10, No. 1. (2009), 560. by Weizhong Li, Andrew Gracey, Luciane V. Mello, Andrew Brass, Andrew Cossins posted to orphan_sequences non-model_species microarrays expression_profiles ests correlation co-expression annotation by jforment to the group Bioinformatics Core Service on 2009-11-27 15:52:43 as
	Coordinated Regulation of Heterochromatic Genes in Drosophila melanogaster Males [My Copy] Genetics, Vol. 182, No. 2. (1 June 2009), pp. 481-491. by Xinxian Deng, S. Kiran Koya, Ying Kong, Victoria H. Meller posted to sex_chromosomes regulatory_systems heterochromatin drosophila dosage_compensation co-expression chromatin by daveGerrard on 2009-11-17 13:46:33 as
	Unsupervised selection of highly coexpressed and noncoexpressed genes using a consensus clustering approach. [My Copy] Omics : a journal of integrative biology, Vol. 13, No. 3. (June 2009), pp. 219-237. by Tung T. Nguyen, Richard S. Nowakowski, Ioannis P. Androulakis posted to time-course consensus_clustering co-expression clustering by jfr on 2009-11-15 14:30:56 as
	Reconstruct modular phenotype-specific gene networks by knowledge-driven matrix factorization. [My Copy] Bioinformatics (Oxford, England), Vol. 25, No. 17. (1 September 2009), pp. 2236-2243. by Xuerui Yang, Yang Zhou, Rong Jin, Christina Chan posted to systems_biology regulatory_pathways pathways networks network_topology microarray_data gene_networks gene_expression_data co-expression algorithm_developers by ekotelnikova on 2009-11-10 11:25:34 as along with 3 people enelkinsan ptrobajo guhjy
	Coordinated evolution of co-expressed gene clusters in the Drosophila transcriptome. [My Copy] BMC evolutionary biology, Vol. 8 (07 January 2008), 2. by Jason G. Mezey, Sergey V. Nuzhdin, Fangfei Ye, Corbin D. Jones posted to gene_cluster expression_evolution drosophila co-expression by daveGerrard on 2009-11-06 15:43:26 as along with 2 people and 1 group emptyhb cisevol cis-regulatory-evolution
	Co-regulated transcriptional networks contribute to natural genetic variation in Drosophila sleep. [My Copy] Nature genetics, Vol. 41, No. 3. (22 March 2009), pp. 371-375. by Susan T. Harbison, Mary Anna A. Carbone, Julien F. Ayroles, Eric A. Stone, Richard F. Lyman, Trudy F. Mackay posted to sleep p-element network natural_variation microarray gene_regulation drosophila complex_traits co-expression by daveGerrard to the group BergmanLab on 2009-10-28 09:56:51 as along with 4 people and 2 groups roys dpollard daforerog djkt RockmanLab NYU Journal Review
	Multi-dimensional correlations for gene coexpression and application to the large-scale data of Arabidopsis. [My Copy] Bioinformatics (Oxford, England), Vol. 25, No. 20. (15 October 2009), pp. 2677-2684. by Kengo Kinoshita, Takeshi Obayashi posted to principal_components microarray co-expression arabidopsis by daveGerrard to the group BergmanLab on 2009-10-28 09:20:16 as along with 3 people kintoki rdiaz natstreet
	Applications of a rat multiple tissue gene expression data set. [My Copy] Genome research, Vol. 14, No. 4. (April 2004), pp. 742-749. by John R. Walker, Andrew I. Su, David W. Self, et al.John B. Hogenesch, Hilmar Lapp, Rainer Maier, Daniel Hoyer, Graeme Bilbe posted to tissue-specific rats quantitative-trait-loci phenotype microarray gene-expression gene functional-genomics co-expression annotation by bertelsen on 2009-09-28 13:52:43 as along with 2 people grahamc eukfn
	Large-scale analysis of Arabidopsis transcription reveals a basal co-regulation network [My Copy] BMC Systems Biology, Vol. 3, No. 1. (2009), 86. by Osnat Atias, Benny Chor, Daniel Chamovitz posted to network co-regulation co-expression by pengchy on 2009-09-15 04:18:13 as along with 3 people TRHvidsten rmk coffeerv
	GEM-TREND: a web tool for gene expression data mining toward relevant network discovery. [My Copy] BMC genomics, Vol. 10, No. 1. (3 September 2009), 411. by Chunlai Feng, Michihiro Araki, Ryo Kunimoto, et al.Akiko Tamon, Hiroki Makiguchi, Satoshi Niijima, Gozoh Tsujimoto, Yasushi Okuno posted to web_tool co-expression by pengchy on 2009-09-15 03:58:10 as along with 6 people and 1 group guhjy daforerog dswan ptrobajo sotacam barriot Bioinformatics
	Common Regulatory Variation Impacts Gene Expression in a Cell Type-Dependent Manner [My Copy] Science, Vol. 325, No. 5945. (4 September 2009), pp. 1246-1250. by Antigone S. Dimas, Samuel Deutsch, Barbara E. Stranger, et al.Stephen B. Montgomery, Christelle Borel, Homa Attar-Cohen, Catherine Ingle, Claude Beazley, Maria G. Arcelus, Magdalena Sekowska, Marilyne Gagnebin, James Nisbett, Panos Deloukas, Emmanouil T. Dermitzakis, Stylianos E. Antonarakis posted to co-expression array by kintoki on 2009-09-09 01:12:51 as along with 12 people vplagnol cajunsushi ajbattle xianjun TRHvidsten djkt fenghezi rdiaz humburg guhjy frohike SeaBird
	A dynamic network of transcription in LPS-treated human subjects [My Copy] BMC Systems Biology, Vol. 3, No. 1. (2009), 78. by Junhee Seok, Wenzhong Xiao, Lyle Moldawer, Ronald Davis, Markus Covert posted to networks co-expression by ekotelnikova on 2009-08-28 08:45:56 as
	Coexpression Analysis of Human Genes Across Many Microarray Data Sets [My Copy] Genome Research In Genome Research, Vol. 14, No. 6. (June 2004), pp. 1085-1094. by Homin K. Lee, Amy K. Hsu, Jon Sajdak, Jie Qin, Paul Pavlidis posted to co-expression by sficklin on 2009-08-26 02:43:30 as along with 18 people and 2 groups Zephyrus cabbagezs cswinburne pengchy jiny maryee gpalidwor giovanni jeremymiller hawkeyehammer grahamc macavity1g raylim sgoetz wilbur jo_davies nedwards dragonrez GeschwindLab Indigene
	A Gene-Coexpression Network for Global Discovery of Conserved Genetic Modules [My Copy] Science, Vol. 302, No. 5643. (10 October 2003), pp. 249-255. by Joshua M. Stuart, Eran Segal, Daphne Koller, Stuart K. Kim posted to gene co-expression by sficklin on 2009-08-24 22:10:09 as along with 24 people and 7 groups roys thegoose2 cswinburne carlk saket pengchy nolodie jeremymiller tharris dragonrez textoris lfriedl balajis nuke2005 maryee tardigrade opheliav wnpx neveaire macle raylim lp2 karfunkel vertikalist C. elegans / WormBase kdl Biostatistics Computational-Genomics Bioinformatics Neuroscience BTS-PT-AS-CS
	A stochastic model for identifying differential gene pair co-expression patterns in prostate cancer progression [My Copy] BMC Genomics, Vol. 10, No. 1. (29 July 2009), 340. by Wen Mo, Xu Fu, Xiao Han, et al.Guang Yang, Ji Zhang, Feng Guo, Yan Huang, Yu Mao, Yao Li, Yi Xie posted to profiling pattern pair model gene expression differential co-expression cancer algorithm by fpattyn on 2009-08-19 21:47:45 as along with 2 people nuin rdiaz
	Relationship between gene co-expression and sharing of transcription factor binding sites in Drosophila melanogaster [My Copy] Bioinformatics, Vol. 25, No. 19. (1 October 2009), pp. 2473-2477. by Antonio Marco, Charlotte Konikoff, Timothy L. Karr, Sudhir Kumar posted to transcription-factor gene-expression correlation co-expression by sebastien_vigneau on 2009-08-11 17:01:21 as along with 8 people and 1 group Garamonfok TRHvidsten djkt rdiaz natstreet nuin maximilianh isimpson Jarman Lab
	Topological and Functional Discovery in a Gene Coexpression Meta-Network of Gastric Cancer [My Copy] Cancer Res, Vol. 66, No. 1. (1 January 2006), pp. 232-241. by Amit Aggarwal, Dong Li Guo, Yujin Hoshida, et al.Siu Tsan Yuen, Kent-Man Chu, Samuel So, Alex Boussioutas, Xin Chen, David Bowtell, Hiroyuki Aburatani, Suet Y. Leung, Patrick Tan posted to cancer co-expression function functional-genomics gastric network topological by bertelsen on 2009-07-12 23:42:29 as along with 3 people zufar jfr kengg
	Tissue and Process Specific microRNA–mRNA Co-Expression in Mammalian Development and Malignancy [My Copy] PLoS ONE, Vol. 4, No. 5. (5 May 2009), e5436. by Hongye Liu, Issac S. Kohane posted to co-expression microrna mrna specific tissue by gdb on 2009-07-11 16:23:14 as along with 4 people and 1 group tonamswish giovenko roys ealloza microRNA
	Detecting intergene correlation changes in microarray analysis: a new approach to gene selection. [My Copy] BMC bioinformatics, Vol. 10, No. 1. (2009), 20. by Rui Hu, Xing Qiu, Galina Glazko, Lev Klebanov, Andrei Yakovlev posted to co-expression correlation feature_selection by jfr to the group Bioinformatics on 2009-07-09 12:44:48 as along with 9 people zufar sotacam BUR44Dcul rdiaz provero Zephyrus renatomilani guhjy irinamohorianu
	Evidence for large domains of similarly expressed genes in the Drosophila genome [My Copy] Journal of Biology, Vol. 1, No. 1. (2002), 5. by Paul Spellman, Gerald Rubin posted to transcription_factory nuclear_architecture locus_control_region genome_architecture gene_cluster drosophila co-expression by daveGerrard on 2009-07-07 11:46:11 as along with 2 people maximilianh briann
	Gene expression neighborhoods [My Copy] Journal of Biology, Vol. 1, No. 1. (2002), 4. by Brian Oliver, Michael Parisi, David Clark posted to co-expression drosophila genome_architecture nuclear_architecture transcription_factory by daveGerrard on 2009-07-07 11:44:38 as
	Large clusters of co-expressed genes in the Drosophila genome [My Copy] Nature, Vol. 420, No. 6916. (12 December 2002), pp. 666-669. by Alexander M. Boutanaev, Alla I. Kalmykova, Yuri Y. Shevelyov, Dmitry I. Nurminsky posted to co-expression by daveGerrard on 2009-06-23 15:44:17 as
	Inter-species differences of co-expression of neighboring genes in eukaryotic genomes. [My Copy] BMC genomics, Vol. 5, No. 1. (13 January 2004) by Y. Fukuoka, H. Inaoka, I. S. Kohane posted to co-expression by daveGerrard on 2009-06-23 15:34:26 as
	Exploring Expression Data: Identification and Analysis of Coexpressed Genes [My Copy] Genome Research, Vol. 9, No. 11. (1 November 1999), pp. 1106-1115. by Laurie J. Heyer, Semyon Kruglyak, Shibu Yooseph posted to co-expression by daveGerrard on 2009-06-23 15:32:20 as along with 2 people jperkins aswin
	Coexpression of Linked Genes in Mammalian Genomes Is Generally Disadvantageous [My Copy] Mol Biol Evol, Vol. 25, No. 8. (1 August 2008), pp. 1555-1565. by Ben-Yang Liao, Jianzhi Zhang posted to mammals hfsp_synopsis genome_architecture expression_evolution co-expression by daveGerrard on 2009-06-23 15:26:58 as along with 6 people clearbluespring Garamonfok djkt aprasad zwang bpcusack
	Genome-wide co-expression analysis in multiple tissues. [My Copy] PloS one, Vol. 3, No. 12. (29 December 2008), e4033. by I. C. Grieve, N. J. Dickens, M. Pravenec, et al.V. Kren, N. Hubner, S. A. Cook, T. J. Aitman, E. Petretto, J. Mangion posted to co-expression e-qtl genome_architecture genomics by daveGerrard on 2009-06-23 15:25:10 as along with 3 people cscweb guhjy bpcusack
	Multi-tissue coexpression networks reveal unexpected subnetworks associated with disease [My Copy] Genome Biology, Vol. 10, No. 5. (22 May 2009), R55. by Radu Dobrin, Jun Zhu, Cliona Molony, et al.Carmen Argman, Mark Parrish, Sonia Carlson, Mark Allan, Daniel Pomp, Eric Schadt posted to co-expression disease network_biology network_comparison tissue by grahamc on 2009-06-15 05:32:50 as along with 6 people greg winterstream ptrobajo lp2 roys brianb
	Analysis of promoter regions of co-expressed genes identified by microarray analysis [My Copy] BMC Bioinformatics, Vol. 7 (17 August 2006), 384. by Srinivas Veerla, Mattias Hoglund posted to co-expression microarray promoter by greg on 2009-06-12 15:29:30 as along with 6 people and 1 group jfr gpalidwor giovanni SeungjoonOh heliopais nuin GeschwindLab
	A general framework for weighted gene co-expression network analysis. [My Copy] Statistical applications in genetics and molecular biology, Vol. 4, No. 1. (2005) by Bin Zhang, Steve Horvath posted to analysis co-expression framework networks topological by bertelsen on 2009-05-05 13:16:25 as along with 9 people and 1 group nicholso rdiaz cswinburne druvus pengchy kengg jeremymiller natstreet jo_davies GeschwindLab
	Gene connectivity, function, and sequence conservation: predictions from modular yeast co-expression networks. [My Copy] BMC Genomics, Vol. 7 (2006) by M. R. Carlson, B. Zhang, Z. Fang, P. S. Mischel, S. Horvath, S. F. Nelson posted to co-expression by sficklin on 2009-04-30 03:48:43 as along with 5 people and 1 group natstreet druvus jeremymiller kengg xwbcn GeschwindLab
	WGCNA: an R package for weighted correlation network analysis. [My Copy] BMC bioinformatics, Vol. 9, No. 1. (2008) by Peter Langfelder, Steve Horvath posted to co-expression by sficklin on 2009-04-30 03:46:57 as along with 16 people and 2 groups enelkinsan jeremymiller daforerog lwaldron jfr ekotelnikova slv23 rdiaz guhjy natstreet druvus cswinburne lptolik jmeppley irinamohorianu pengchy Bioinformatics Bioinformatics - CRUK
	Integrated weighted gene co-expression network analysis with an application to chronic fatigue syndrome. [My Copy] BMC systems biology, Vol. 2 (06 November 2008), 95. by Angela P. Presson, Eric M. Sobel, Jeanette C. Papp, et al.Charlyn J. Suarez, Toni Whistler, Mangalathu S. Rajeevan, Suzanne D. Vernon, Steve Horvath posted to co-expression by sficklin on 2009-04-30 03:43:42 as along with 4 people shikin natstreet druvus timrwatkins
	Coding-sequence determinants of gene expression in Escherichia coli. [My Copy] Science (New York, N.Y.), Vol. 324, No. 5924. (10 April 2009), pp. 255-258. by Grzegorz Kudla, Andrew W. Murray, David Tollervey, Joshua B. Plotkin posted to co-expression by kintoki on 2009-04-23 09:19:13 as along with 35 people and 1 group daveGerrard pmalkus codonusage balabu yyfwuhan dbikard kinestetika samgj dswan bpcusack emptyhb sameersoi dpsuslo8 anwazo Vincent_Rouilly erel10 michaelbarton fenghezi VGreiff ramanuja austin twatanab coela polivares rpatward lizbiogen jdbowes operon jasontsai absterga jbhiatt jjray kshundyak zwang friendpine BergmanLab
	SIMoNe: Statistical Inference for MOdular NEtworks [My Copy] Bioinformatics, Vol. 25, No. 3. (1 February 2009), pp. 417-418. by Julien Chiquet, Alexander Smith, Gilles Grasseau, Catherine Matias, Christophe Ambroise posted to co-expression network r software by jfr on 2009-04-20 10:34:26 as along with 1 person rdiaz
	Human gene coexpression landscape: confident network derived from tissue transcriptomic profiles. [My Copy] PloS one, Vol. 3, No. 12. (2008) by Carlos Prieto, Alberto Risueño, Celia Fontanillo, Javier De las Rivas posted to co-expression network by jfr on 2009-03-23 15:30:40 as along with 1 person mingzhi
	Prediction of human disease genes by human-mouse conserved coexpression analysis. [My Copy] PLoS computational biology, Vol. 4, No. 3. (March 2008) by Ugo Ala, Rosario Michael M. Piro, Elena Grassi, et al.Christian Damasco, Lorenzo Silengo, Martin Oti, Paolo Provero, Ferdinando Di Cunto posted to co-expression disease gene human mouse by fisherp on 2009-03-19 19:59:17 as along with 6 people jeremymiller provero ptrobajo jfr guhjy wenhui
	Cepred: Predicting the Co-Expression Patterns of the Human Intronic microRNAs with Their Host Genes [My Copy] PLoS ONE, Vol. 4, No. 2. (10 February 2009), e4421. by Dong Wang, Ming Lu, Jing Miao, Tingting Li, Edwin Wang, Qinghua Cui posted to co-expression microrna by pengchy on 2009-02-15 01:56:05 as along with 9 people and 1 group Garamonfok guhjy suizifish jfr heliopais ealloza samgj daforerog mhamada microRNA
	Annotating Genes of Known and Unknown Function by Large-Scale Coexpression Analysis [My Copy] Plant Physiol., Vol. 147, No. 1. (1 May 2008), pp. 41-57. by Kevin Horan, Charles Jang, Julia Bailey-Serres, et al.Ron Mittler, Christian Shelton, Jeff F. Harper, Jian-Kang Zhu, John C. Cushman, Martin Gollery, Thomas Girke posted to annotation arabidopsis co-expression todo by xwbcn on 2009-01-06 08:47:59 as along with 3 people sanchezbuelna kengg guhjy
	Transcriptional coordination of the metabolic network in Arabidopsis. [My Copy] Plant Physiol, Vol. 142, No. 2. (October 2006), pp. 762-774. by H. Wei, S. Persson, T. Mehta, et al.V. Srinivasasainagendra, L. Chen, G. P. Page, C. Somerville, A. Loraine posted to arabidopsis co-expression todo by xwbcn on 2009-01-06 08:44:43 as along with 1 person kengg
	CressExpress: A tool for large-scale mining of expression data from Arabidopsis thaliana. [My Copy] Plant physiology (8 May 2008) by Vinodh Srinivasasainagendra, Grier Page, Tapan Mehta, Issa Coulibaly, Ann E E. Loraine posted to arabidopsis co-expression todo by xwbcn on 2009-01-06 08:43:42 as along with 3 people imtechnology talponer kengg
	Local coexpression domains of two to four genes in the genome of Arabidopsis. [My Copy] Plant Physiol, Vol. 138, No. 2. (June 2005), pp. 923-934. by X. Y. Ren, M. W. Fiers, W. J. Stiekema, J. P. Nap posted to co-expression promoters by sanchezbuelna on 2009-01-04 05:48:28 as along with 1 person plofje
	ATTED-II: a database of co-expressed genes and cis elements for identifying co-regulated gene groups in Arabidopsis. [My Copy] Nucleic Acids Res, Vol. 35, No. Database issue. (January 2007) by T. Obayashi, K. Kinoshita, K. Nakai, et al.M. Shibaoka, S. Hayashi, M. Saeki, D. Shibata, K. Saito, H. Ohta posted to co-expression database promoters by sanchezbuelna on 2009-01-04 05:45:38 as along with 1 person kengg
	AthaMap web tools for the analysis and identification of co-regulated genes. [My Copy] Nucleic Acids Res, Vol. 35, No. Database issue. (January 2007) by C. Galuschka, M. Schindler, L. Bülow, R. Hehl posted to athamap co-expression promoters by sanchezbuelna on 2009-01-04 05:44:47 as along with 1 person natstreet
	GeneCAT--novel webtools that combine BLAST and co-expression analyses. [My Copy] Nucleic acids research (14 May 2008) by Marek Mutwil, Jens Obro, William G T G. Willats, Staffan Persson posted to blast co-expression by sanchezbuelna on 2009-01-04 04:47:11 as along with 2 people mariakmejia guhjy
	PathoPlant: a platform for microarray expression data to analyze co-regulated genes involved in plant defense responses. [My Copy] Nucleic acids research, Vol. 35, No. Database issue. (January 2007) by L. Bülow, M. Schindler, R. Hehl posted to co-expression microaray promoters by sanchezbuelna on 2009-01-04 04:43:15 as
	Conservation and Coevolution in the Scale-Free Human Gene Coexpression Network [My Copy] Mol Biol Evol, Vol. 21, No. 11. (1 November 2004), pp. 2058-2070. by I. King Jordan, Leonardo Marino-Ramirez, Yuri I. Wolf, Eugene V. Koonin posted to co-expression evolution network by pengchy on 2008-12-30 07:59:23 as along with 4 people daveGerrard dragonrez bjorns Garamonfok
	A nitty-grritty aspect of correlation and network inference from gene expression data [My Copy] Biology Direct, Vol. 3 (20 August 2008), 35. by Lev B. Klebanov, Andrei Y. U. Yakovlev posted to co-expression network by jfr on 2008-11-18 14:34:11 as along with 1 person natstreet

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network	20
microarray	15
annotation	8
arabidopsis	8
gene	8
drosophila	6
human	6
networks	6
software	6
co-regulation	5
correlation	5
functional-genomics	4
genome_architecture	4
promoters	4
review	4
topological	4
analysis	3
cancer	3
clustering	3
evolution	3
feature_selection	3
gene-expression	3
microrna	3
r	3
systems_biology	3
todo	3
biology	2
complex_traits	2
conservation	2
diabetes	2
differential	2
disease	2
ests	2
expression	2
expression_evolution	2
expression_profiles	2
framework	2
function	2
functional_inference	2
gastric	2
gene_cluster	2
gene_regulation	2
genomics	2
interaction	2
low_level	2
microarrays	2
mirna	2
module	2
mrna	2
natural_variation	2
non-model_species	2
nuclear_architecture	2
orphan_sequences	2
p-element	2
pattern-recognition	2
phenotype	2
principal_components	2
protein	2
proteomics	2
quantitative-trait-loci	2
rats	2
sleep	2
tissue	2
tissue-specific	2
transcription_factory	2
unsupervised	2
affy	1
affymetrix	1
athamap	1
bioinformatics	1
chemotaxis	1
classification	1
consensus_clustering	1
database	1
differentially_expressed_genes	1
dosage_compensation	1
e-qtl	1
gene_expression_data	1
genome	1
interactions	1
lung_cancer	1
mammals	1
microarray_analysis	1
milka	1
motif	1
mouse	1
network_comparison	1
network_topology	1
networks-reconstruction	1
pattern	1
prediction	1
profiling	1
promoter	1
protein-protein	1
regulation	1
sex_chromosomes	1
specific	1
statistics	1
web_tool	1
wgcna	1

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