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Tag gene [798 articles]

Recent papers classified by the tag gene.
  • A First-Principles Model of Early Evolution: Emergence of Gene Families, Species, and Preferred Protein Folds
    PLoS Computational Biology, Vol. 3, No. 7. (1 July 2007), e139.
    by Konstantin B Zeldovich, Peiqiu Chen, Boris E Shakhnovich, Eugene I Shakhnovich
    posted to evolution folding gene modeling protein specy by zwang on 2007-08-28 07:39:34 as ** along with 6 people and 1 group BioNica grahamc cjeans Jporci farhat biinins ParkinsonLab_at_MaRS
  • Evolutionary plasticity of developmental gene regulatory network architecture
    Proceedings of the National Academy of Sciences (27 November 2007), 0709994104.
    by Veronica F Hinman, Eric H Davidson
    posted to architecture evolution gene network regulatory by zwang on 2007-12-05 10:58:17 as ** along with 3 people tmmurali maximilianh roys
  • A forest-based approach to identifying gene and gene gene interactions
    Proceedings of the National Academy of Sciences (28 November 2007), 0709868104.
    by Xiang Chen, Ching-Ti Liu, Meizhuo Zhang, Heping Zhang
    posted to gene interaction by zwang on 2007-12-05 10:57:47 as * along with 5 people jyuh balicea cjeans xingxu hpaces
  • On the relation between promoter divergence and gene expression evolution
    Mol Syst Biol, Vol. 4 (15 January 2008)
    by Itay Tirosh, Adina Weinberger, Dana Bezalel, Mark Kaganovich, Naama Barkai
    posted to divergence evolution expression gene promoter by zwang on 2008-01-15 16:40:20 as ** along with 8 people and 2 groups Jporci balicea kengg biomcgary cisevol caseybrown renatomilani mclarenv cis-regulatory-evolution BergmanLab
  • How does eukaryotic gene prediction work?
    Nature Biotechnology, Vol. 25, No. 8., pp. 883-885.
    by Michael R Brent
    posted to eukaryota gene prediction by zwang on 2007-08-14 08:01:16 as **** along with 7 people and 3 groups jyuh indigoviolet dchughes wenhan cabbagezs nklee ale EisenLab G4ID Genetics-of-Gambling
  • Evolution of chromosome organization driven by selection for reduced gene expression noise
    Nature Genetics, Vol. 39, No. 8. (27 July 2007), pp. 945-949.
    by Nizar N Batada, Laurence D Hurst
    posted to evolution expression gene selection by zwang on 2007-08-09 04:07:24 as * along with 5 people and 2 groups jjray dpollard ealloza djkt lusk EisenLab BioinfoCIPF
  • Genes overexpressed in different human solid cancers exhibit different tissue-specific expression profiles
    PNAS, Vol. 104, No. 32. (7 August 2007), pp. 13122-13127.
    by Jacob Bock-Axelsen, Joseph Lotem, Leo Sachs, Eytan Domany
    posted to expression gene profile tissue by zwang on 2007-08-09 04:05:37 as * along with 1 person jyuh
  • Orthologous Transcription Factors in Bacteria Have Different Functions and Regulate Different Genes
    PLoS Computational Biology, Vol. 3, No. 9. (1 September 2007), e175.
    by Morgan N Price, Paramvir S Dehal, Adam P Arkin
    posted to bacterial gene ortholog regulation transcription by zwang on 2007-11-02 08:03:07 as ** along with 6 people and 3 groups dpollard dquest djkt cabbagezs heliopais blobbybirdman EisenLab cis-regulatory-evolution Myxo group
  • Integration of Genome and Chromatin Structure with Gene Expression Profiles To Predict c-MYC Recognition Site Binding and Function.
    PLoS Comput Biol, Vol. 3, No. 4. (6 April 2007)
    by Yili Chen, Thomas W W Blackwell, Ji Chen, Jing Gao, Angel W W Lee, David J J States
    posted to chromatin gene genome integration prediction structure by zwang on 2007-04-28 12:36:42 as ** along with 1 person and 2 groups kengg Bioinformatics Plantandetc
  • Network-based global inference of human disease genes
    Mol Syst Biol, Vol. 4 (6 May 2008)
    by Xuebing Wu, Rui Jiang, Michael Q Zhang, Shao Li
    posted to prediction network human gene by zwang on 2008-05-09 02:59:01 as **** along with 4 people bootsy maralena jyuh biomcgary
  • Evolution of genes and genomes on the Drosophila phylogeny
    Nature, Vol. 450, No. 7167. (November 2007), pp. 203-218.
    posted to evolution gene genome phylogeny by zwang on 2007-11-20 09:04:25 as **** along with 14 people and 4 groups PetrovLab operon tmmurali indigoviolet djkt timflutre stajich Garamonfok lp2 hpaces caseybrown emptyhb urgi noor Bioinformatics EisenLab csb_journal_club_public Berkeley Mycology
  • A modular and extensible RNA-based gene-regulatory platform for engineering cellular function
    PNAS (20 August 2007), 0703961104.
    by Maung N Win, Christina D Smolke
    posted to gene regulatory rna by zwang on 2007-08-25 03:58:38 as * along with 4 people and 2 groups austin dchughes kengg Jporci G4ID Genetics-of-Gambling
  • Towards multidimensional genome annotation
    Nature Reviews Genetics, Vol. 7, No. 2., pp. 130-141.
    by Jennifer L Reed, Iman Famili, Ines Thiele, Bernhard O Palsson
    posted to annotation gene genome by zwang on 2008-04-14 01:57:46 as ** along with 10 people and 4 groups jyuh jfr balajis eweaver dchughes cmm raiyar massivemayhem wenhan lylu FAB-lab G4ID steinmetzlab Genetics-of-Gambling
  • An Approach to Predict Transcription Factor DNA Binding Site Specificity Based upon Gene and Transcription Factor Functional Categorization
    Bioinformatics (10 July 2007), btm348.
    by Ziliang Qian, Lingyi Lu, Xiaojun Liu, Yu-Dong Cai, Yixue Li
    posted to binding dna gene prediction site transcription by zwang on 2007-08-15 03:43:07 as *** along with 1 person xili03
  • Programming gene expression with combinatorial promoters
    Mol Syst Biol, Vol. 3 (13 November 2007)
    by Robert S Cox, Michael G Surette, Michael B Elowitz
    posted to expression gene promoter synthetic by zwang on 2007-11-15 01:09:19 as * along with 13 people and 2 groups Retchless tmmurali austin dpollard balicea kengg dbikard margaritis lusk cjeans discreteonyxorb cabbagezs Ema EisenLab SynBioSys
  • Natural history and evolutionary principles of gene duplication in fungi
    Nature, Vol. 449, No. 7158., pp. 54-61.
    by Ilan Wapinski, Avi Pfeffer, Nir Friedman, Aviv Regev
    posted to evolution gene by zwang on 2007-09-06 15:08:20 as ** along with 10 people and 4 groups aheilbut dpollard tny dchughes djkt stajich biomcgary lp2 tzhughes maximilianh EisenLab G4ID Genetics-of-Gambling Berkeley Mycology
  • Wasp Gene Expression Supports an Evolutionary Link Between Maternal Behavior and Eusociality
    Science (27 September 2007), 1146647.
    by Amy L Toth, Kranthi Varala, Thomas C Newman, Fernando E Miguez, Stephen K Hutchison, David A Willoughby, Jan F Simons, Michael Egholm, James H Hunt, Matthew E Hudson, Gene E Robinson
    posted to evolution expression gene by zwang on 2007-10-11 02:22:42 as ** along with 3 people stajich niallhaslam ale
  • Widespread Lateral Gene Transfer from Intracellular Bacteria to Multicellular Eukaryotes
    Science (30 August 2007), 1142490.
    by Julie C Hotopp, Michael E Clark, Deodoro C Oliveira, Jeremy M Foster, Peter Fischer, Monica C Torres, Jonathan D Giebel, Nikhil Kumar, Nadeeza Ishmael, Shiliang Wang, Jessica Ingram, Rahul V Nene, Jessica Shepard, Jeffrey Tomkins, Stephen Richards, David J Spiro, Elodie Ghedin, Barton E Slatko, Herve Tettelin, John H Werren
    posted to bacterial eukaryota evolution gene genome lgt by zwang on 2007-10-11 02:03:35 as **** along with 7 people and 2 groups dpollard bluto emmahe lp2 wrowell paulschlesinger Patola EisenLab Cline_lab
  • Identifying clusters of functionally related genes in genomes.
    Bioinformatics (19 January 2007)
    by Gangman Yi, Sing-Hoi H Sze, Michael R R Thon
    posted to gene genome by zwang on 2007-05-10 08:18:23 as * along with 3 people and 1 group grahamc macavity1g wenhan ParkinsonLab_at_MaRS
  • Protein subcellular relocalization: a new perspective on the origin of novel genes
    Trends in Ecology & Evolution, Vol. 22, No. 7. (July 2007), pp. 338-344.
    by Ashley S Byun-Mckay, R Geeta
    posted to gene localization protein by zwang on 2007-08-18 08:58:16 as *** along with 2 people cjeans Jporci
  • How gene order is influenced by the biophysics of transcription regulation
    PNAS (20 August 2007), 0700672104.
    by Grigory Kolesov, Zeba Wunderlich, Olga N Laikova, Mikhail S Gelfand, Leonid A Mirny
    posted to gene regulation transcription by zwang on 2007-08-27 09:01:56 as * along with 6 people jjray madhadron margaritis Jporci maximilianh lambda
  • Innovation and robustness in complex regulatory gene networks.
    Proc Natl Acad Sci U S A (9 August 2007)
    by S Ciliberti, O C C Martin, A Wagner
    posted to gene network regulatory by zwang on 2007-08-27 08:56:14 as ** along with 3 people and 2 groups dpollard sebastien_vigneau cisevol EisenLab cis-regulatory-evolution
  • High-Throughput In Vivo Analysis of Gene Expression in Caenorhabditis elegans
    PLoS Biology, Vol. 5, No. 9. (1 September 2007), e237.
    by Rebecca Hunt-Newbury, Ryan Viveiros, Robert Johnsen, Allan Mah, Dina Anastas, Lily Fang, Erin Halfnight, David Lee, John Lin, Adam Lorch, Sheldon Mckay, Mark H Okada, Jie Pan, Ana K Schulz, Domena Tu, Kim Wong, Z Zhao, Andrey Alexeyenko, Thomas Burglin, Eric Sonnhammer, Ralf Schnabel, Steven J Jones, Marco A Marra, David L Baillie, Donald G Moerman
    posted to expression gene invivo by zwang on 2007-09-17 10:13:59 as * along with 1 person dlmace
  • Constraint-based functional similarity of metabolic genes: going beyond network topology
    Bioinformatics, Vol. 23, No. 16. (15 August 2007), pp. 2139-2146.
    by Oleg Rokhlenko, Tomer Shlomi, Roded Sharan, Eytan Ruppin, Ron Y Pinter
    posted to gene network phylogeny by zwang on 2007-09-17 09:39:55 as ***
  • Superfamily Assignments for the Yeast Proteome through Integration of Structure Prediction with the Gene Ontology
    PLoS Biology, Vol. 5, No. 4. (1 April 2007), e76.
    by Lars Malmström, Michael Riffle, Charlie E Strauss, Dylan Chivian, Trisha N Davis, Richard Bonneau, David Baker
    posted to gene prediction structure yeast by zwang on 2007-04-19 15:17:08 as *
  • Global Discriminative Learning for Higher-Accuracy Computational Gene Prediction
    PLoS Computational Biology, Vol. 3, No. 3. (1 March 2007), e54.
    by Axel Bernal, Koby Crammer, Artemis Hatzigeorgiou, Fernando Pereira
    posted to gene prediction by zwang on 2007-04-19 15:12:45 as * along with 3 people and 2 groups dpollard wenhan acarbo Bioinformatics EisenLab
  • Potential Energy Landscape and Robustness of a Gene Regulatory Network: Toggle Switch
    PLoS Computational Biology, Vol. 3, No. 3. (1 March 2007), e60.
    by Keun-Young Kim, Jin Wang
    posted to gene network regulation by zwang on 2007-04-19 15:10:52 as **
  • The gene and the genon concept: a functional and information-theoretic analysis.
    Mol Syst Biol, Vol. 3 (2007)
    by K Scherrer, J Jost
    posted to gene information-theory by zwang on 2007-04-17 17:24:23 as * along with 4 people and 3 groups dchughes cdawson neils dylan77 G4ID GIG Genetics-of-Gambling
  • Ribozymes, riboswitches and beyond: regulation of gene expression without proteins
    Nature Reviews Genetics, Vol. 8, No. 10. (11 September 2007), pp. 776-790.
    by Alexander Serganov, Dinshaw J Patel
    posted to expression gene regulation ribozyme rna by zwang on 2007-11-01 07:15:05 as *** along with 3 people and 3 groups austin dbikard jmrivort G-quadruplex Supramolecular SynBioSys
  • The liver pharmacological and xenobiotic gene response repertoire
    Mol Syst Biol, Vol. 4 (25 March 2008)
    by Georges Natsoulis, Cecelia I Pearson, Jeremy Gollub, Eynon, Joe Ferng, Ramesh Nair, Radha Idury, May D Lee, Mark R Fielden, Richard J Brennan, Alan H Roter, Kurt Jarnagin
    posted to clustering gene human metabolism pathway by zwang on 2008-03-27 05:07:04 as ** along with 4 people and 1 group jyuh caseybrown aubinhon ptrobajo Integrative_biology_behavior
  • Functional Architecture and Evolution of Transcriptional Elements That Drive Gene Coexpression
    Science, Vol. 317, No. 5844. (14 September 2007), pp. 1557-1560.
    by Christopher D Brown, David S Johnson, Arend Sidow
    posted to evolution expression gene transcription by zwang on 2007-09-18 06:18:00 as ** along with 8 people and 2 groups dpollard djkt joepickrell Garamonfok Stew mimulus_99 maximilianh cisevol EisenLab cis-regulatory-evolution
  • Bayesian Orthogonal Least Squares (BOLS) algorithm for reverse engineering of gene regulatory networks
    BMC Bioinformatics, Vol. 8, No. 1. (2007)
    by Chang S Kim
    posted to algorithm bayesian gene network regulatory reverse-engineering by zwang on 2007-07-13 17:20:00 as *** along with 4 people jyuh rdiaz frohike shigepong
  • Genome-wide prediction of matrix attachment regions that increase gene expression in mammalian cells
    Nat Meth, Vol. 4, No. 9. (2007), pp. 747-753.
    by Pierre-Alain Girod, Duc-Quang Nguyen, David Calabrese, Stefania Puttini, Melanie Grandjean, Danielle Martinet, Alexandre Regamey, Damien Saugy, Jacques S Beckmann, Philipp Bucher, Nicolas Mermod
    posted to expression gene genome-wide mammal prediction by zwang on 2007-08-31 16:22:46 as * along with 2 people sebastien_vigneau uz_labu_laimi
  • A Gene Regulatory Network Subcircuit Drives a Dynamic Pattern of Gene Expression
    Science, Vol. 318, No. 5851. (2 November 2007), pp. 794-797.
    by Joel Smith, Christina Theodoris, Eric H Davidson
    posted to dynamics expression gene network regulatory by zwang on 2007-11-05 14:33:49 as * along with 5 people and 1 group cwbrown lshaw shigepong heliopais hpaces EisenLab
  • Lifespan Regulation by Evolutionarily Conserved Genes Essential for Viability.
    PLoS Genet, Vol. 3, No. 4. (6 April 2007)
    by Sean P P Curran, Gary Ruvkun
    posted to evolution gene regulation viability by zwang on 2007-04-29 05:08:51 as ** along with 1 person johncumbers
  • Regulation of the Expression of the Prostate-specific Antigen by Claudin-7
    Journal of Membrane Biology, Vol. 194, No. 3. (1 July 2003), pp. 187-197.
    by Zheng, D Yu, M Foroohar, E Ko, J Chan, N Kim, R Chiu, S Pang
    posted to cancer gene prostate by zkyken on 2007-06-05 04:30:01 as **
  • Reconstruction of gene networks using Bayesian learning and manipulation experiments
    Bioinformatics, Vol. 20, No. 17. (22 November 2004), pp. 2934-2942.
    by Iosifina Pournara, Lorenz Wernisch
    posted to network infer gene bayesian by Yumyai on 2008-04-26 17:38:32 as *** along with 3 people and 2 groups lfriedl wnpx aleks kdl Compilers
  • Gene prediction: compare and CONTRAST
    Genome Biology, Vol. 8, No. 12. (2007)
    by Paul Flicek
    posted to bg crf gene prediction svm by yoanjacquemin on 2008-01-15 08:18:00 as read along with 2 people wenhan dewaldron
  • Gene structure prediction by linguistic methods
    (1994)
    by S Dong, D Searls
    posted to gene linguistics by YenHuaHuang on 2007-04-02 03:27:31 as read
  • Simple one-week method to construct gene-targeting vectors: application to production of human knockout cell lines.
    Biotechniques, Vol. 41, No. 3. (September 2006), pp. 311-316.
    by S Iiizumi, Y Nomura, S So, K Uegaki, K Aoki, K Shibahara, N Adachi, H Koyama
    posted to cells es gene method targeting by yeastyboy on 2006-11-20 16:03:20 as *** along with 2 people jyuh shimi002
  • Catechol-O-methyl transferase Val158Met gene polymorphism in schizophrenia: working memory, frontal lobe MRI morphology and frontal cerebral blood flow
    Molecular Psychiatry, Vol. aop, No. current. (25 January 2005)
    by B Ho, TH Wassink, DS O'Leary, VC Sheffield, NC Andreasen
    posted to cbf comt frontal gene lobe memory morphology mri polymorphism schizophrenia working by yanhaomouse on 2006-09-20 10:46:39 as ***
  • Antiangiogenic gene therapy of cancer: recent developments
    Journal of Translational Medicine, Vol. 2, No. 1. (2004)
    by Anita Tandle, Dan Blazer, Steven Libutti
    posted to antiangiogenic cancer gene review by xtizon on 2007-09-15 16:04:04 as *****
  • A MADS domain gene involved in the transition to flowering in Arabidopsis.
    Plant J, Vol. 24, No. 5. (December 2000), pp. 591-599.
    by R Borner, G Kampmann, J Chandler, R Gleissner, E Wisman, K Apel, S Melzer
    posted to a arabidopsis domain flowering gene in involved mads the to transition by xixibio on 2006-04-19 13:43:18 as ** along with 1 person Happybene
  • Transcription regulation and animal diversity.
    Nature, Vol. 424, No. 6945. (10 July 2003), pp. 147-151.
    by M Levine, R Tjian
    posted to animal diversity enhancer factor gene polymerase promoter regulation rna rnapolii transcription by xico on 2007-05-27 01:35:17 as **** along with 6 people and 2 groups brant nickluscombe djkt lusk Jporci heliopais WetBiology EBI-regulation
  • Epigenetic manipulation of gene expression: a toolkit for cell biologists.
    J Cell Biol, Vol. 169, No. 6. (20 June 2005), pp. 847-857.
    by RL Juliano, VR Dixit, H Kang, TY Kim, Y Miyamoto, D Xu
    posted to alterating epigenetic expression gene manipulation targeting tool by xico on 2006-03-15 00:24:03 as *** along with 2 people and 1 group RMGraze balicea WetBiology
  • Unraveling V(D)J Recombination - Insights into Gene Regulation
    Cell, Vol. 116, No. 2. (23 January 2004), pp. 299-311.
    by D Jung, FW Alt
    posted to gene recombination regulation review vdj by xico on 2005-12-27 19:40:00 as ** along with 1 person and 1 group gloria WetBiology
  • Coordination of transcription, RNA processing, and surveillance by P-TEFb kinase on heat shock genes.
    Mol Cell, Vol. 13, No. 1. (16 January 2004), pp. 55-65.
    by Z Ni, BE Schwartz, J Werner, JR Suarez, JT Lis
    posted to cdk9 gene heat p-tef processing rna shock surveillance transcription by xico on 2006-04-04 19:06:16 as ** along with 1 group WetBiology
  • Gene regulatory networks and the evolution of animal body plans.
    Science, Vol. 311, No. 5762. (10 February 2006), pp. 796-800.
    by EH Davidson, DH Erwin
    posted to animal body gene network plan regulation review transcription by xico on 2006-04-04 17:47:35 as **** along with 13 people and 4 groups eldan bayesian dpollard dchughes brixtonmc Liusha margaritis josepe cjeans sujaikumar Garamonfok jtomasch Ema EisenLab WetBiology G4ID Genetics-of-Gambling
  • Agrobacterium is not alone: gene transfer to plants by viruses and other bacteria.
    Trends Plant Sci, Vol. 11, No. 1. (January 2006), pp. 1-4.
    by SM Chung, M Vaidya, T Tzfira
    posted to agrobacterium bacteria gene method not plant review transfer tumefaciens virus by xico on 2006-03-19 19:54:52 as *** along with 1 group WetBiology
  • Exploring functional relationships between components of the gene expression machinery.
    Nat Struct Mol Biol, Vol. 12, No. 2. (February 2005), pp. 175-182.
    by T Burckin, R Nagel, Y Mandel-Gutfreund, L Shiue, TA Clark, JL Chong, TH Chang, S Squazzo, G Hartzog, M Ares
    posted to elongation expression gene machinery maturation mrna review splicing transcription by xico on 2007-06-06 16:28:43 as ** along with 2 people and 1 group balajis opheliav WetBiology
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