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Group: BioinfoCIPF - library [1040 articles]

Recent papers posted by members of the BioinfoCIPF group
  • Probing the beta2 adrenoceptor binding site with catechol reveals differences in binding and activation by agonists and partial agonists.
    J Biol Chem, Vol. 280, No. 23. (10 June 2005), pp. 22165-22171.
    by G Swaminath, X Deupi, TW Lee, W Zhu, FS Thian, TS Kobilka, B Kobilka
    posted to biology biophysics protein_function by marcius to the group BioinfoCIPF on 2005-10-22 21:55:55 as * along with 1 person and 2 groups xdeupi LabCompMed SGU-CIPF
  • Scoring function for automated assessment of protein structure template quality
    Proteins: Structure, Function, and Bioinformatics, Vol. 57, No. 4., pp. 702-710.
    by Yang Zhang, Jeffrey Skolnick
    posted to computational_biology model_assessment protein_structure by marcius to the group BioinfoCIPF on 2005-10-21 21:55:27 as * along with 5 people and 1 group karbak dgront aengisch rabio granujilla SGU-CIPF
  • Discrimination of native loop conformations in membrane proteins: decoy library design and evaluation of effective energy scoring functions.
    Proteins, Vol. 52, No. 4. (1 September 2003), pp. 492-509.
    by LR Forrest, TB Woolf
    posted to computational_biology model_assessment protein_structure software by marcius to the group BioinfoCIPF on 2005-10-21 21:08:44 as * along with 1 person and 1 group thaliana SGU-CIPF
  • Urokinase-type plasminogen activator is a preferred substrate of the human epithelium serine protease tryptase epsilon/PRSS22.
    Blood, Vol. 105, No. 10. (15 May 2005), pp. 3893-3901.
    by S Yasuda, N Morokawa, GW Wong, A Rossi, MS Madhusudhan, A Sali, YS Askew, R Adachi, GA Silverman, SA Krilis, RL Stevens
    posted to biology proteases protein_structure by marcius to the group BioinfoCIPF on 2005-10-20 23:16:59 as * along with 1 group SGU-CIPF
  • The sequences of small proteins are not extensively optimized for rapid folding by natural selection
    Proc Natl Acad Sci U S A, Vol. 95 (1998), pp. 4982-6.
    by DE Kim, H Gu, D Baker
    posted to protein_folding protein_structure by marcius to the group BioinfoCIPF on 2005-10-20 20:48:54 as * along with 1 group SGU-CIPF
  • Recent acceleration of human adaptive evolution
    Proceedings of the National Academy of Sciences, Vol. 104, No. 52. (26 December 2007), pp. 20753-20758.
    by John Hawks, Eric T Wang, Gregory M Cochran, Henry C Harpending, Robert K Moyzis
    posted to evolution human positive selection by hdopazo to the group BioinfoCIPF on 2008-02-04 17:33:37 as ** along with 9 people and 2 groups balicea laharrin shoshin cannon qwermish wsjames coyotetraxx candypmcg hpaces Oxford Virology Fasting, food and evolution
  • GENECODIS: A web-based tool for finding significant concurrent annotations in gene lists
    Genome Biology, Vol. 8 (04 January 2007), R3.
    by Pedro Carmona-Saez, Monica Chagoyen, Francisco Tirado, Jose M Carazo, Alberto Pascual-Montano
    posted to functional_annotation gene_list_analysis suite by ealloza to the group BioinfoCIPF on 2007-10-25 16:26:30 as ** along with 3 people aalibes jfr yas
  • Network modeling links breast cancer susceptibility and centrosome dysfunction.
    Nat Genet (7 October 2007)
    by Miguel Angel A Pujana, Jing-Dong J D Han, Lea M M Starita, Kristen N N Stevens, Muneesh Tewari, Jin Sook S Ahn, Gad Rennert, Víctor Moreno, Tomas Kirchhoff, Bert Gold, Volker Assmann, Wael M M Elshamy, Jean-François F Rual, Douglas Levine, Laura S S Rozek, Rebecca S S Gelman, Kristin C C Gunsalus, Roger A A Greenberg, Bijan Sobhian, Nicolas Bertin, Kavitha Venkatesan, Nono Ayivi-Guedehoussou, Xavier Solé, Pilar Hernández, Conxi Lázaro, Katherine L L Nathanson, Barbara L L Weber, Michael E E Cusick, David E E Hill, Kenneth Offit, David M M Livingston, Stephen B B Gruber, Jeffrey D D Parvin, Marc Vidal
    posted to cancer network by ealloza to the group BioinfoCIPF on 2007-10-22 11:33:34 as ** along with 6 people jfr cjeans nedwards jdiezperezj phoenixzxl chrisamiller
  • Technology: A new tool for analysing structural variation
    Nat Rev Genet, Vol. 8, No. 11. (November 2007), pp. 822-822.
    by Magdalena Skipper
    posted to acgh cnv technique by ealloza to the group BioinfoCIPF on 2007-10-22 11:16:32 as ** along with 1 person rdiaz
  • The discovery of microdeletion syndromes in the post-genomic era: review of the methodology and characterization of a new 1q41q42 microdeletion syndrome.
    Genet Med, Vol. 9, No. 9. (September 2007), pp. 607-616.
    by LG Shaffer, A Theisen, BA Bejjani, BC Ballif, AS Aylsworth, C Lim, M McDonald, JW Ellison, D Kostiner, S Saitta, T Shaikh
    posted to no-tag by ealloza to the group BioinfoCIPF on 2007-10-17 19:01:30 as **
  • Array comparative genomic hybridization and computational genome annotation in constitutional cytogenetics: suggesting candidate genes for novel submicroscopic chromosomal imbalance syndromes.
    Genet Med, Vol. 9, No. 9. (September 2007), pp. 642-649.
    by S Van Vooren, B Coessens, B De Moor, Y Moreau, JR Vermeesch
    posted to aberration acgh cytogenetics mining by ealloza to the group BioinfoCIPF on 2007-10-17 19:01:19 as **
  • Pathway analysis of gene signatures predicting metastasis of node-negative primary breast cancer
    BMC Cancer, Vol. 7 (25 September 2007), 182.
    by Jack X Yu, Anieta M Sieuwerts, Yi Zhang, John WM Martens, Marcel Smid, Jan GM Klijn, Yixin Wang, John A Foekens
    posted to application cancer gene_set_analysis signature by ealloza to the group BioinfoCIPF on 2007-10-17 16:34:27 as ** along with 2 people Zephyrus jfr
  • Integrative analysis of the cancer transcriptome.
    Nat Genet, Vol. 37 Suppl (June 2005)
    by DR Rhodes, AM Chinnaiyan
    posted to transcriptome interactome integration cancer by ealloza to the group BioinfoCIPF on 2007-09-11 17:47:03 as ** along with 5 people and 1 group aalibes textoris shikin waghsk srp33 GeneGo
  • Automated de novo prediction of native-like RNA tertiary structures
    PNAS (28 August 2007), 0703836104.
    by Rhiju Das, David Baker
    posted to structure_prediction rna ab-initio by marcius to the group BioinfoCIPF on 2007-09-01 10:46:02 as ** along with 6 people and 1 group jwm eckart_bindewald zwang physics Ema reyez SGU-CIPF
  • Tentative mapping of transcription-induced interchromosomal interaction using chimeric EST and mRNA data.
    PLoS ONE, Vol. 2 (2007)
    by P Unneberg, JM Claverie
    posted to territory map chromosome by ealloza to the group BioinfoCIPF on 2007-08-09 12:23:12 as **
  • EasyGO: Gene Ontology-based annotation and functional enrichment analysis tool for agronomical species
    BMC Genomics, Vol. 8 (24 July 2007), 246.
    by Xin Zhou, Zhen Su
    posted to gene_set_analysis functional_annotation by ealloza to the group BioinfoCIPF on 2007-07-30 12:40:38 as ** along with 1 person sgoetz
  • Identifying the biologically relevant gene categories based on gene expression and biological data: an example on prostate cancer
    Bioinformatics, Vol. 23, No. 12. (1 June 2007), pp. 1503-1510.
    by D Huang, Tommy W Chow
    posted to human gene_list_analysis cancer by ealloza to the group BioinfoCIPF on 2007-07-06 17:56:39 as **
  • RNA Maps Reveal New RNA Classes and a Possible Function for Pervasive Transcription
    Science (17 May 2007), 1138341.
    by Philipp Kapranov, Jill Cheng, Sujit Dike, David A Nix, Radharani Duttagupta, Aarron T Willingham, Peter F Stadler, Jana Hertel, Joerg Hackermueller, Ivo L Hofacker, Ian Bell, Evelyn Cheung, Jorg Drenkow, Erica Dumais, Sandeep Patel, Gregg Helt, Madhavan Ganesh, Srinka Ghosh, Antonio Piccolboni, Victor Sementchenko, Hari Tammana, Thomas R Gingeras
    posted to ncrna genome classification by marcius to the group BioinfoCIPF on 2007-06-15 11:16:53 as ** along with 11 people and 3 groups alexg dpollard xico mtagaya rdiaz djkt stajich mathijsv asddd elfar xingxu EisenLab WetBiology SGU-CIPF
  • RNA structure: experimental analysis.
    Curr Opin Microbiol (24 May 2007)
    by Brice Felden
    posted to structure rna review experimental by marcius to the group BioinfoCIPF on 2007-06-12 12:56:46 as ** along with 3 people and 1 group penka emidio_capriotti debatebob SGU-CIPF
  • RNA conformational classes.
    Nucleic Acids Res, Vol. 32, No. 5. (2004), pp. 1666-1677.
    by B Schneider, Z Morávek, HM Berman
    posted to rotamers rna classification biophysics by marcius to the group BioinfoCIPF on 2007-06-12 12:55:21 as ** along with 1 person and 1 group emidio_capriotti SGU-CIPF
  • Evolutionary rates vary among rRNA structural elements
    Nucl. Acids Res., Vol. 35, No. 10. (11 May 2007), pp. 3339-3354.
    by S Smit, J Widmann, R Knight
    posted to rna evolution by marcius to the group BioinfoCIPF on 2007-06-12 12:54:21 as ** along with 5 people and 2 groups eckart_bindewald balicea penka i000 cjeans SGU-CIPF YY1
  • Genome Expression Pathway Analysis Tool - Analysis and visualization of microarray gene expression data under genomic, proteomic and metabolic context
    BMC Bioinformatics, Vol. 8 (02 June 2007), 179.
    by Markus Weniger, Julia C Engelmann, Joerg Schultz
    posted to webserver suite pathway microarray expression by ealloza to the group BioinfoCIPF on 2007-06-04 10:46:29 as ** along with 5 people jyuh jfr rdiaz frohike fmenolascina
  • RNAbor: a web server for RNA structural neighbors.
    Nucleic Acids Res (25 May 2007)
    by Eva Freyhult, Vincent Moulton, Peter Clote
    posted to server sequence-structure secondary_structure rna by marcius to the group BioinfoCIPF on 2007-06-04 10:14:23 as ** along with 2 people and 1 group sebastien_vigneau evaf SGU-CIPF
  • The M-Coffee web server: a meta-method for computing multiple sequence alignments by combining alternative alignment methods.
    Nucleic Acids Res (25 May 2007)
    by Sebastien Moretti, Fabrice Armougom, Iain M M Wallace, Desmond G G Higgins, Cornelius V V Jongeneel, Cedric Notredame
    posted to sequence_alignment sequence alignment algorithms by marcius to the group BioinfoCIPF on 2007-06-04 10:12:59 as ** along with 2 people and 1 group sebastien_vigneau marti SGU-CIPF
  • RNA Sampler: A new sampling based algorithm for common RNA secondary structure prediction and structural alignment.
    Bioinformatics (30 May 2007)
    by Xing Xu, Yongmei Ji, Gary D D Stormo
    posted to structure_alignment rna by marcius to the group BioinfoCIPF on 2007-06-04 10:11:38 as ** along with 1 person and 2 groups cjeans Bioinformatics SGU-CIPF
  • GeneTrail--advanced gene set enrichment analysis
    Nucl. Acids Res. (25 May 2007), gkm323.
    by Christina Backes, Andreas Keller, Jan Kuentzer, Benny Kneissl, Nicole Comtesse, Yasser A Elnakady, Rolf Muller, Eckart Meese, Hans-Peter Lenhof
    posted to gene_set_analysis gene_list_analysis expression by ealloza to the group BioinfoCIPF on 2007-05-28 12:11:22 as **
  • Cancer: Drivers and passengers
    Nature, Vol. 446, No. 7132. (07 March 2007), pp. 145-146.
    by Daniel A Haber, Jeff Settleman
    posted to cancer by ealloza to the group BioinfoCIPF on 2007-05-14 12:16:01 as ** along with 4 people and 2 groups dchughes Garamonfok ramensky cerami G4ID Genetics-of-Gambling
  • Threshold-free high-power methods for the ontological analysis of genome-wide gene expression studies
    Genome Biology, Vol. 8 (08 May 2007), R74.
    by Bjorn Nilsson, Petra Hakansson, Mikael Johansson, Sven Nelander, Thoas Fioretos
    posted to ontology microarray gene_set_analysis expression algorithm by ealloza to the group BioinfoCIPF on 2007-05-10 15:07:53 as ** along with 1 person jfr
  • Discovery of microRNA-mRNA modules via population-based probabilistic learning.
    Bioinformatics (9 March 2007)
    by Je-Gun G Joung, Kyu-Baek B Hwang, Jin-Wu W Nam, Soo-Jin J Kim, Byoung-Tak T Zhang
    posted to target mrna microrna human cancer by ealloza to the group BioinfoCIPF on 2007-05-10 10:19:44 as ** along with 3 people and 2 groups andersbj lp2 heliopais Bioinformatics microRNA
  • A model for genetic complementation controlling the chromosomal abnormalities and loss of heterozygosity formation in cancer.
    Cytogenet Genome Res, Vol. 116, No. 4. (2007), pp. 235-247.
    by AL Nestor, SL Hollopeter, SI Matsui, D Allison
    posted to no-tag by ealloza to the group BioinfoCIPF on 2007-05-08 11:18:44 as **
  • Nonrandom variations in human cancer ESTs indicate that mRNA heterogeneity increases during carcinogenesis
    PNAS, Vol. 104, No. 18. (1 May 2007), pp. 7522-7527.
    by Marie Brulliard, Dalia Lorphelin, Olivier Collignon, Walter Lorphelin, Benoit Thouvenot, Emmanuel Gothie, Sandrine Jacquenet, Virginie Ogier, Olivier Roitel, Jean-Marie Monnez, Pierre Vallois, Frances T Yen, Olivier Poch, Marc Guenneugues, Gilles Karcher, Pierre Oudet, Bernard E Bihain
    posted to transcription mrna human est cancer by ealloza to the group BioinfoCIPF on 2007-05-02 16:31:27 as **
  • MicroRNAs as tumor suppressors
    Nature Genetics, Vol. 39, No. 5., pp. 582-583.
    by Scott M Hammond
    posted to tumor supressor microrna human expression cancer by ealloza to the group BioinfoCIPF on 2007-04-26 15:13:56 as ** along with 1 person tardigrade
  • Interpretation of microarray data in cancer
    British Journal of Cancer, Vol. aop, No. current. (06 March 2007)
    by S Michiels, S Koscielny, C Hill
    posted to validation review prediction microarray expression cancer by ealloza to the group BioinfoCIPF on 2007-04-19 15:05:07 as ** along with 4 people frohike laral jfr bioyang
  • Characterization of microRNA expression levels and their biological correlates in human cancer cell lines.
    Cancer Res, Vol. 67, No. 6. (15 March 2007), pp. 2456-2468.
    by A Gaur, DA Jewell, Y Liang, D Ridzon, JH Moore, C Chen, VR Ambros, MA Israel
    posted to signature microrna human expression cancer by ealloza to the group BioinfoCIPF on 2007-04-12 11:11:07 as ** along with 2 people jfr elzodw
  • On the relationship between sequence and structure similarities in proteomics
    Bioinformatics, Vol. 23, No. 6. (15 March 2007), pp. 717-723.
    by K Evgeny
    posted to sequence-structure classification bioinformatics by marcius to the group BioinfoCIPF on 2007-04-12 10:48:28 as ** along with 1 person and 1 group penka SGU-CIPF
  • Deleterious SNP prediction: be mindful of your training data!
    Bioinformatics, Vol. 23, No. 6. (15 March 2007), pp. 664-672.
    by Care, A Matthew, Needham, J Chris, Bulpitt, J Andrew, Westhead, R David
    posted to snp bioinformatics by marcius to the group BioinfoCIPF on 2007-04-12 10:45:50 as ** along with 3 people and 1 group penka Yumyai happy_manatee SGU-CIPF
  • MicroRNAs and cancer
    British Journal of Surgery, Vol. 94, No. 1. (January 2007), pp. 23-30.
    by Wijnhoven, , Michael, , Watson,
    posted to review microrna microarray human expression cancer by ealloza to the group BioinfoCIPF on 2007-04-10 15:55:07 as ** along with 2 people tardigrade Garamonfok
  • Mapping biomedical concepts onto the human genome by mining literature on chromosomal aberrations.
    Nucleic Acids Res (1 April 2007)
    by Steven Van Vooren, Bernard Thienpont, Björn Menten, Frank Speleman, Bart De D Moor, Joris Vermeesch, Yves Moreau
    posted to mining human chromosome aberration by ealloza to the group BioinfoCIPF on 2007-04-10 12:39:45 as ** along with 1 person jyuh
  • Regulatory circuit of human microRNA biogenesis
    PLoS Computational Biology, Vol. preprint, No. 2007. (1 February 2007), e67.eor.
    by Ji Lee, Zhihua Li, Rachel Brower-Sinning, Bino John
    posted to regulation microrna human by ealloza to the group BioinfoCIPF on 2007-04-10 11:22:54 as ** along with 3 people Garamonfok maralena ale
  • Meta-analysis of several gene lists for distinct types of cancer: A simple way to reveal common prognostic markers
    BMC Bioinformatics, Vol. 8 (06 April 2007), 118.
    by Xinan Yang, Xiao Sun
    posted to microarray meta_analysis human gene_list_analysis expression cancer by ealloza to the group BioinfoCIPF on 2007-04-10 11:16:58 as ** along with 4 people jfr shigepong ugengma srp33
  • Initial results from the HARP experiment at CERN
    (20 Oct 2004)
    by JJ Gomez-Cadenas
    posted to harp by jordibc to the group BioinfoCIPF on 2007-04-07 01:12:39 as **
  • Measurement of the production cross-section of positive pions in p-Al collisions at 12.9 GeV/c
    (14 Oct 2005)
    by HARP Collaboration
    posted to harp by jordibc to the group BioinfoCIPF on 2007-04-07 01:08:38 as **
  • Evidence for muon neutrino oscillation in an accelerator-based experiment
    (2 Sep 2005)
    by K2k Collaboration, E Aliu
    posted to neutrino k2k by jordibc to the group BioinfoCIPF on 2007-04-07 00:59:49 as **
  • Oscillation Physics with a Neutrino Factory
    (13 Oct 2002)
    by M Apollonio
    posted to neutrino by jordibc to the group BioinfoCIPF on 2007-04-07 00:55:43 as **
  • Measurement of Neutrino Oscillation by the K2K Experiment
    (25 Dec 2006)
    by K2k Collaboration, MH Ahn
    posted to thesis neutrino k2k by jordibc to the group BioinfoCIPF on 2007-04-07 00:39:17 as **
  • Additional gene ontology structure for improved biological reasoning.
    Bioinformatics, Vol. 22, No. 16. (15 August 2006), pp. 2020-2027.
    by S Myhre, H Tveit, T Mollestad, A Laegreid
    posted to ontology by ealloza to the group BioinfoCIPF on 2007-03-29 16:35:00 as ** along with 3 people leechuck sgoetz AlexanderPico
  • Chromosome aberrations in solid tumors have a stochastic nature
    Mutation Research/Fundamental and Molecular Mechanisms of Mutagenesis, Vol. 600, No. 1-2. (30 August 2006), pp. 150-164.
    by Mauro A Castro, Tor G Onsten, Jose C Moreira, Rita M de Almeida
    posted to human chromosome cancer aberration by ealloza to the group BioinfoCIPF on 2007-03-27 17:32:17 as **
  • Evidence of spatially bound gene regulation in Mus musculus: Decreased gene expression proximal to microRNA genomic location.
    Proc Natl Acad Sci U S A (12 March 2007)
    by Hidenori Inaoka, Yutaka Fukuoka, Isaac S S Kohane
    posted to regulation mus_musculus microrna gene_order expression by ealloza to the group BioinfoCIPF on 2007-03-21 11:50:34 as ** along with 4 people and 3 groups andersbj dchughes bootsy heliopais microRNA G4ID Genetics-of-Gambling
  • Chromosome aberrations in solid tumors.
    Nat Genet, Vol. 34, No. 4. (August 2003), pp. 369-376.
    by DG Albertson, C Collins, F McCormick, JW Gray
    posted to aberration cancer chromosome human review by ealloza to the group BioinfoCIPF on 2007-03-08 13:09:03 as ** along with 2 people jfr Garamonfok
  • Multiple structural alignment and clustering of RNA sequences.
    Bioinformatics (25 February 2007)
    by Elfar Torarinsson, Jakob H H Havgaard, Jan Gorodkin
    posted to clustering rna secondary_structure structure_alignment by marcius to the group BioinfoCIPF on 2007-03-01 12:29:48 as ** along with 7 people and 1 group eckart_bindewald eweaver ppgardne ilh zwang dunnp zhouyu SGU-CIPF
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