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tvdbulcks library [326 articles]

Nye artikler sendt til tvdbulcks bibliotek.
  • ArrayExpress--a public database of microarray experiments and gene expression profiles.
    Nucleic Acids Res, Vol. 35, No. Database issue. (January 2007)
    by H Parkinson, M Kapushesky, M Shojatalab, N Abeygunawardena, R Coulson, A Farne, E Holloway, N Kolesnykov, P Lilja, M Lukk, R Mani, T Rayner, A Sharma, E William, U Sarkans, A Brazma
    posted to no-tag by tvdbulck on 2008-07-24 16:37:33 as ** along with 4 people jfr balajis hpiwowar ghattem
  • NCBI GEO: mining tens of millions of expression profiles--database and tools update.
    Nucleic Acids Res, Vol. 35, No. Database issue. (January 2007)
    by T Barrett, DB Troup, SE Wilhite, P Ledoux, D Rudnev, C Evangelista, IF Kim, A Soboleva, M Tomashevsky, R Edgar
    posted to no-tag by tvdbulck on 2008-07-24 16:35:54 as ** along with 6 people jyuh jfr balajis hpiwowar incovoma pziarsolo
  • The Stanford Microarray Database: implementation of new analysis tools and open source release of software.
    Nucleic Acids Res, Vol. 35, No. Database issue. (January 2007)
    by J Demeter, C Beauheim, J Gollub, T Hernandez-Boussard, H Jin, D Maier, JC Matese, M Nitzberg, F Wymore, ZK Zachariah, PO Brown, G Sherlock, CA Ball
    posted to no-tag by tvdbulck on 2008-07-24 16:34:21 as ** along with 6 people and 1 group dragonrez jfr balajis hpiwowar ghattem azazello MBLAB
  • GEMS: a web server for biclustering analysis of expression data.
    Nucleic Acids Res, Vol. 33, No. Web Server issue. (1 July 2005)
    by CJ Wu, S Kasif
    posted to no-tag by tvdbulck on 2008-07-23 14:12:16 as ** along with 1 person dps
  • A Gene Recommender Algorithm to Identify Coexpressed Genes in C. elegans
    Genome Res., Vol. 13, No. 8. (1 August 2003), pp. 1828-1837.
    by Art B Owen, Josh Stuart, Kathy Mach, Anne M Villeneuve, Stuart Kim
    posted to no-tag by tvdbulck on 2008-07-23 14:11:15 as ** along with 2 people tmmurali balajis
  • Iterative signature algorithm for the analysis of large-scale gene expression data.
    Physical review. E, Statistical, nonlinear, and soft matter physics, Vol. 67, No. 3 Pt 1. (March 2003)
    by S Bergmann, J Ihmels, N Barkai
    posted to no-tag by tvdbulck on 2008-07-23 14:09:49 as **
  • Interrelating different types of genomic data, from proteome to secretome: 'oming in on function.
    Genome research, Vol. 11, No. 9. (September 2001), pp. 1463-1468.
    by D Greenbaum, NM Luscombe, R Jansen, J Qian, M Gerstein
    posted to no-tag by tvdbulck on 2008-07-22 14:53:58 as **
  • Estimating the Dimension of a Model
    The Annals of Statistics, Vol. 6, No. 2. (1978), pp. 461-464.
    by Gideon Schwarz
    posted to number model dimension cluster bayes by tvdbulck on 2008-05-21 10:47:36 as ** along with 9 people and 2 groups matjes brian yaroslavvb gangli olivierbousquet davidr abhishekseth slygent ciga tulip Computational_Information_Geometry
  • Bayesian biclustering of gene expression data
    BMC Genomics, Vol. 9, No. Suppl 1. (2008)
    by Jiajun Gu, Jun Liu
    posted to no-tag by tvdbulck on 2008-05-21 10:12:41 as ** along with 4 people dragonrez bertelsen jfr yangc
  • Regulatory element detection using correlation with expression.
    Nat Genet, Vol. 27, No. 2. (February 2001), pp. 167-171.
    by HJ Bussemaker, H Li, ED Siggia
    posted to no-tag by tvdbulck on 2008-05-20 16:12:46 as ** along with 4 people and 2 groups isimpson dpollard nickluscombe heliopais EisenLab EBI-regulation
  • Integrative analysis of genome-wide experiments in the context of a large high-throughput data compendium
    Molecular Systems Biology, Vol. 1, No. 1. (29 March 2005), pp. msb4100005-E1-msb4100005-E10.
    by Amos Tanay, Israel Steinfeld, Martin Kupiec, Ron Shamir
    posted to no-tag by tvdbulck on 2008-05-20 16:10:45 as ** along with 4 people srp33 tmmurali jfr natstreet
  • Discovering statistically significant biclusters in gene expression data.
    Bioinformatics, Vol. 18 Suppl 1 (2002)
    by A Tanay, R Sharan, R Shamir
    posted to no-tag by tvdbulck on 2008-05-20 16:09:17 as ** along with 8 people and 2 groups librain carlk dragonrez ggrot okarsligil lfriedl incovoma dps kdl Bioinformatics
  • Comprehensive identification of cell cycle-regulated genes of the yeast Saccharomyces cerevisiae by microarray hybridization.
    Mol Biol Cell, Vol. 9, No. 12. (December 1998), pp. 3273-3297.
    by PT Spellman, G Sherlock, MQ Zhang, VR Iyer, K Anders, MB Eisen, PO Brown, D Botstein, B Futcher
    posted to no-tag by tvdbulck on 2008-05-20 15:58:34 as ** along with 9 people and 1 group lfriedl balajis nirfriedman jacky957 johncumbers timflutre bootsy mimulus_99 dbenn kdl
  • A systematic approach to reconstructing transcription networks in Saccharomycescerevisiae
    Proceedings of the National Academy of Sciences, Vol. 99, No. 26. (24 December 2002), pp. 16893-16898.
    by Wei Wang, Michael J Cherry, David Botstein, Hao Li
    posted to no-tag by tvdbulck on 2008-05-20 15:56:42 as **
  • Defining transcriptional networks through integrative modeling of mRNA expression and transcription factor binding data.
    BMC Bioinformatics, Vol. 5 (18 March 2004)
    by F Gao, BC Foat, HJ Bussemaker
    posted to no-tag by tvdbulck on 2008-05-20 15:53:58 as ** along with 7 people and 1 group mariakmejia tmmurali tuck gpalidwor nickluscombe koller Ao_Li2007 EBI-regulation
  • Computational discovery of gene modules and regulatory networks.
    Nat Biotechnol, Vol. 21, No. 11. (November 2003), pp. 1337-1342.
    by Z Bar-Joseph, GK Gerber, TI Lee, NJ Rinaldi, JY Yoo, F Robert, DB Gordon, E Fraenkel, TS Jaakkola, RA Young, DK Gifford
    posted to no-tag by tvdbulck on 2008-05-20 15:08:59 as ** along with 12 people and 1 group balicea dquest carlk ggrot dragonrez bayesian wnpx nickluscombe koller frohike karfunkel roys EBI-regulation
  • notes A new dynamic Bayesian network (DBN) approach for identifying gene regulatory networks from time course microarray data
    Vol. 21, No. 1. (1 January 2005), pp. 71-79.
    by M Zou, SD Conzen
    posted to usgovt transcription-factors time-factors statistical signal-transduction saccharomyces-cerevisiae-proteins saccharomyces-cerevisiae saccharomyces research-support refmanager proteins physiology phs oligonucleotide-array-sequence-analysis non-usgovt models methods metabolism genes gene-expression-regulation gene-expression-profiling evaluation-studies computer-simulation comparative-study cell-cycle-proteins cell-cycle biological bayes-theorem algorithms by tvdbulck on 2008-05-20 15:03:47 as **
  • notes Structural comparison of metabolic networks in selected single cell organisms
    BMC Bioinformatics, Vol. 6, No. 1. (14 January 2005), 8.
    by D Zhu, ZS Qin
    posted to refmanager by tvdbulck on 2008-05-20 15:03:47 as **
  • Simulation Studies for the Identification of Genetic Networks from cDNA Array and Regulatory Activity Data
    Proceedings of the Second International Conference on Systems Biology (2001), pp. -238.
    by DE Zak, FJ Doyle, JS Schwaber
    posted to refmanager by tvdbulck on 2008-05-20 15:03:47 as **
  • notes Normalization for cDNA microarray data: a robust composite method addressing single and multiple slide systematic variation
    Vol. 30, No. 4. (15 February 2002), e15.
    by YH Yang, S Dudoit, P Luu, DM Lin, V Peng, J Ngai, TP Speed
    posted to variation-genetics usgovt titrimetry statistics--numerical-data rna research-support refmanager reference-standards phs oligonucleotide-array-sequence-analysis olfactory-bulb non-usgovt mice methods metabolism messenger likelihood-functions inbred-c57bl gene-expression-profiling gene-expression fluorescent-dyes comparative-study chemistry bias-epidemiology animals analysis by tvdbulck on 2008-05-20 15:03:47 as **
  • notes Learning module networks from genome-wide location and expression data
    Vol. 578, No. 3. (17 December 2004), pp. 297-304.
    by X Xu, L Wang, D Ding
    posted to transcription-factors transcription saccharomyces-cerevisiae research-support regulatory-sequences refmanager physiology oligonucleotide-array-sequence-analysis nucleic-acid non-usgovt models methods metabolism learning genome genetics genetic gene-expression-regulation gene-expression-profiling fungal comparative-study cluster-analysis cell-cycle bayes-theorem algorithms by tvdbulck on 2008-05-20 15:03:47 as **
  • notes DIP, the Database of Interacting Proteins: a research tool for studying cellular networks of protein interactions
    Vol. 30, No. 1. (1 January 2002), pp. 303-305.
    by I Xenarios, L Salwinski, XJ Duan, P Higney, SM Kim, D Eisenberg
    posted to usgovt tertiary research-support refmanager protein-structure proteins protein phs non-phs metabolism macromolecular-substances internet information-storage-and-retrieval humans helicobacter-pylori fungal-proteins forecasting databases computer-graphics chemistry bacterial-proteins animals by tvdbulck on 2008-05-20 15:03:46 as **
  • notes Charting gene regulatory networks: strategies, challenges and perspectives
    Vol. 381, No. Pt 1. (1 July 2004), pp. 1-12.
    by GH Wei, DP Liu, CC Liang
    posted to trends transcription-factors research-support refmanager proteomics non-usgovt methods humans genomics genome genetics gene-expression-regulation computational-biology animals by tvdbulck on 2008-05-20 15:03:46 as **
  • notes Modeling regulatory networks with weight matrices
    (1999), pp. 112-123.
    by DC Weaver, CT Workman, GD Stormo
    posted to transcription software reproducibility-of-results refmanager models methods genetic genes gene-expression-regulation gene-expression factual environment developmental databases computer-simulation computational-biology by tvdbulck on 2008-05-20 15:03:46 as **
  • notes Collective dynamics of 'small-world' networks
    Vol. 393, No. 6684. (4 June 1998), pp. 440-442.
    by DJ Watts, SH Strogatz
    posted to usgovt transmission theoretical research-support refmanager physiology non-phs neurological nerve-net models games experimental communicable-diseases caenorhabditis-elegans biological animals by tvdbulck on 2008-05-20 15:03:46 as **
  • notes New probabilistic graphical models for genetic regulatory networks studies
    (2005)
    by J Wang, LW Cheung, J Delabie
    posted to refmanager by tvdbulck on 2008-05-20 15:03:46 as **
  • notes Coarse-grained reverse engineering of genetic regulatory networks
    Vol. 55, No. 1-3. (February 2000), pp. 129-136.
    by M Wahde, J Hertz
    posted to research-support refmanager rats non-usgovt neural-networks-computer metabolism growth--development gene-expression central-nervous-system animals algorithms by tvdbulck on 2008-05-20 15:03:45 as **
  • notes Genetic network modeling
    Vol. 3, No. 4. (July 2002), pp. 507-525.
    by EP van Someren, LF Wessels, E Backer, MJ Reinders
    posted to research-support refmanager non-usgovt neural-networks-computer models learning humans history genomics genetics genetic-research genetic gene-expression-regulation comparative-study 21st-century 20th-century by tvdbulck on 2008-05-20 15:03:45 as **
  • Exploring the operational characteristics of inference algorithms for transcriptional networks by means of synthetic data
    Vol. , No. 1. (2 January 2008), pp. 49-63.
    by K Van Leemput, T Van den Bulcke, T Dhollander, B De Moor, K Marchal, P van Remortel
    posted to refmanager algorithms by tvdbulck on 2008-05-20 15:03:45 as **
  • Inferring transcriptional networks by mining 'omics' data
    Current bioinformatics, Vol. , No. 3. (2006)
    by T Van den Bulcke, K Lemmens, Y Van de Peer, K Marchal
    posted to refmanager by tvdbulck on 2008-05-20 15:03:45 as **
  • notes SynTReN: a generator of synthetic gene expression data for design and analysis of structure learning algorithms
    BMC Bioinformatics, Vol. 7 (2006), 43.
    by T Van den Bulcke, K Van Leemput, B Naudts, P van Remortel, H Ma, A Verschoren, B De Moor, K Marchal
    posted to transcription-factors software-validation software signal-transduction research-support refmanager physiology non-usgovt models methods metabolism learning kinetics gene-expression-regulation gene-expression factual evaluation-studies databases computer-simulation biological benchmarking artificial-intelligence analysis algorithms by tvdbulck on 2008-05-20 15:03:45 as **
  • notes Inference of a genetic network by a combined approach of cluster analysis and graphical Gaussian modeling
    Vol. 18, No. 2. (February 2002), pp. 287-297.
    by H Toh, K Horimoto
    posted to statistics--numerical-data statistical software saccharomyces-cerevisiae saccharomyces research-support refmanager oligonucleotide-array-sequence-analysis non-usgovt models genetics genetic genes gene-expression-profiling dna computational-biology cluster-analysis bayes-theorem analysis by tvdbulck on 2008-05-20 15:03:45 as **
  • Fast marginal likelihood maximisation for sparse Bayesian models
    (2003)
    by M Tipping, A Faul, CM Bishop, BJ Frey
    posted to statistics refmanager artificial-intelligence by tvdbulck on 2008-05-20 15:03:45 as **
  • notes INCLUSive: integrated clustering, upstream sequence retrieval and motif sampling
    Vol. 18, No. 2. (February 2002), pp. 331-332.
    by G Thijs, Y Moreau, F De Smet, J Mathys, M Lescot, S Rombauts, P Rouze, B De Moor, K Marchal
    posted to statistics--numerical-data software research-support refmanager oligonucleotide-array-sequence-analysis non-usgovt multigene-family genetic genes gene-expression-profiling databases computational-biology cluster-analysis analysis algorithms by tvdbulck on 2008-05-20 15:03:45 as **
  • notes A Gibbs sampling method to detect overrepresented motifs in the upstream regions of coexpressed genes
    Vol. 9, No. 2. (2002), pp. 447-464.
    by G Thijs, K Marchal, M Lescot, S Rombauts, B De Moor, P Rouze, Y Moreau
    posted to statistics--numerical-data saccharomyces-cerevisiae saccharomyces research-support refmanager probability oligonucleotide-array-sequence-analysis non-usgovt models genetics genetic genes gene-expression-profiling dna computational-biology base-sequence bacteria arabidopsis analysis algorithms by tvdbulck on 2008-05-20 15:03:45 as **
  • notes A higher-order background model improves the detection of promoter regulatory elements by Gibbs sampling
    Vol. 17, No. 12. (December 2001), pp. 1113-1122.
    by G Thijs, M Lescot, K Marchal, S Rombauts, B De Moor, P Rouze, Y Moreau
    posted to transcription research-support refmanager promoter-regions-genetics probability non-usgovt models intergenic genetics genetic genes gene-expression dna computer-simulation arabidopsis analysis algorithms by tvdbulck on 2008-05-20 15:03:45 as **
  • Probabilistic Classification and Clustering in Relational Data
    (2001), pp. 870-878.
    by Benjamin Taskar, Eran Segal, Daphne Koller, Bernhard Nebel
    posted to refmanager classification by tvdbulck on 2008-05-20 15:03:45 as **
  • Revealing modularity and organization in the yeast molecular network by integrated analysis of highly heterogeneous genomewide data
    Vol. 101 (2 March 2004), pp. 2981-2986.
    by A Tanay, R Sharan, M Kupiec, R Shamir
    posted to transcription software saccharomyces-cerevisiae research-support refmanager non-usgovt models metabolism lipids glucose genome genetics genetic gene-expression fungal analysis amino-acids by tvdbulck on 2008-05-20 15:03:45 as **
  • Multilevel modeling and inference of transcription regulation
    J.Comput.Biol.2004.;11(2-3):357.-75., Vol. 11 (2004), pp. 357-375.
    by A Tanay, R Shamir
    posted to transcription-factors transcription statistics--numerical-data sensitivity-and-specificity research-support refmanager physiology non-usgovt models metabolism genetic gene-expression-regulation gene-expression-profiling gene-expression galactose computational-biology binding-sites amino-acid-motifs algorithms by tvdbulck on 2008-05-20 15:03:45 as **
  • notes Estimating gene networks from gene expression data by combining Bayesian network model with promoter element detection
    Vol. 19 Suppl 2 (October 2003), pp. II227-II236.
    by Y Tamada, S Kim, H Bannai, S Imoto, K Tashiro, S Kuhara, S Miyano
    posted to saccharomyces-cerevisiae refmanager gene-expression by tvdbulck on 2008-05-20 15:03:44 as **
  • notes In search of the philosopher's stone: Remarks on Humphreys and Freedman's critique of causal discovery - Reply
    British Journal for the Philosophy of Science, Vol. 48, No. 4. (December 1997), pp. 555-568.
    by P Spirtes, C Glymour, R Scheines
    posted to refmanager by tvdbulck on 2008-05-20 15:03:44 as **
  • notes From Probability to Causality
    Philosophical Studies, Vol. 64, No. 1. (October 1991), pp. 1-36.
    by P Spirtes, C Glymour, R Scheines
    posted to refmanager probability by tvdbulck on 2008-05-20 15:03:44 as **
  • Complex networks in genomics and proteomics
    (2002), pp. 147-169.
    by RV Sol, R Pastor-Satorras, S Bornholdt, Schuster,
    posted to refmanager proteomics by tvdbulck on 2008-05-20 15:03:44 as **
  • notes Self-organized instability in complex ecosystems
    Vol. 357, No. 1421. (29 May 2002), pp. 667-671.
    by RV Sole, D Alonso, A Mckane
    posted to usgovt stochastic-processes research-support refmanager non-usgovt non-phs nonlinear-dynamics models food-chain ecosystem biological animals by tvdbulck on 2008-05-20 15:03:44 as **
  • notes Evaluating functional network inference using simulations of complex biological systems
    Vol. 18 Suppl 1 (2002), pp. S216-S224.
    by VA Smith, ED Jarvis, AJ Hartemink
    posted to vocalization usgovt songbirds signal-transduction research-support refmanager physiology physiological phs non-usgovt neurological models methods gene-expression-regulation gene-expression-profiling gene-expression computer-simulation brain animals animal algorithms adaptation by tvdbulck on 2008-05-20 15:03:44 as **
  • Query-driven biclustering of microarray data by Gibbs sampling
    (2005), submitted.
    by Q Sheng, K Lemmens, K Marchal, B De Moor, Y Moreau
    posted to refmanager by tvdbulck on 2008-05-20 15:03:44 as **
  • notes Network motifs in the transcriptional regulation network of Escherichia coli
    Vol. 31, No. 1. (May 2002), pp. 64-68.
    by SS Shen-Orr, R Milo, S Mangan, U Alon
    posted to transcription-factors transcription signal-transduction research-support regulon refmanager non-usgovt models genetics genetic genes gene-expression-regulation gene-expression escherichia-coli databases bacterial algorithms by tvdbulck on 2008-05-20 15:03:44 as **
  • notes Detailed map of a cis-regulatory input function
    Vol. 100, No. 13. (24 June 2003), pp. 7702-7707.
    by Y Setty, AE Mayo, MG Surette, U Alon
    posted to ultrastructure transcription-factors transcription time-factors theoretical research-support reporter refmanager proteins plasmids pharmacology operon non-usgovt mutation models metabolism luminescent-proteins isopropyl-thiogalactoside green-fluorescent-proteins genetic-techniques genetic genes gene-expression escherichia-coli drug dose-response-relationship dna cyclic-amp chromosomes beta-galactosidase by tvdbulck on 2008-05-20 15:03:44 as **
  • Rich probabilistic models for genomic data
    (2004)
    by E Segal
    posted to refmanager by tvdbulck on 2008-05-20 15:03:44 as **
  • notes Module networks: identifying regulatory modules and their condition-specific regulators from gene expression data
    Vol. 34, No. 2. (June 2003), pp. 166-176.
    by E Segal, M Shapira, A Regev, D Pe'er, D Botstein, D Koller, N Friedman
    posted to statistics--numerical-data statistical saccharomyces-cerevisiae-proteins saccharomyces-cerevisiae research-support regulator refmanager oligonucleotide-array-sequence-analysis non-usgovt mutation models genetics genetic genes gene-expression-regulation gene-expression-profiling fungal databases algorithms by tvdbulck on 2008-05-20 15:03:44 as **
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