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xingxu's bioinformatics [20 articles]

Recent papers added to xingxu's library classified by the tag bioinformatics. You can also see everyone's bioinformatics.
  • A supervised hidden Markov model framework for efficiently segmenting tiling array data in transcriptional and ChIP-chip experiments: systematically incorporating validated biological knowledge.
    Bioinformatics (12 October 2006)
    by Jiang Du, Joel S S Rozowsky, Jan O O Korbel, Zhengdong D D Zhang, Thomas E E Royce, Martin H H Schultz, Michael Snyder, Mark Gerstein
    posted to transcriptome tiling methods bioinformatics by xingxu on 2008-05-06 20:13:09 as ** along with 7 people and 2 groups miguel tuck eckart_bindewald djkt SeungjoonOh blobbybirdman inesdesantiago Bioinformatics UH - Computational Biology
  • A practical guide to the art of RNA gene prediction
    Brief Bioinform (4 May 2007), bbm011.
    by Irmtraud M Meyer
    posted to transcriptome bioinformatics by xingxu on 2008-05-06 20:12:16 as ** along with 4 people penka wenhan GustavoLacerda xili03
  • PrediSi: prediction of signal peptides and their cleavage positions.
    Nucleic Acids Res, Vol. 32, No. Web Server issue. (1 July 2004)
    by K Hiller, A Grote, M Scheer, R Münch, D Jahn
    posted to bioinformatics microbiology signal_peptides by xingxu on 2008-03-28 19:09:40 as **
  • Prediction of lipoprotein signal peptides in Gram-negative bacteria
    Protein Sci, Vol. 12, No. 8. (1 August 2003), pp. 1652-1662.
    by Agnieszka S Juncker, Hanni Willenbrock, Gunnar von Heijne, Soren Brunak, Henrik Nielsen, Anders Krogh
    posted to bioinformatics microbiology signal_peptides by xingxu on 2008-03-28 19:07:50 as **
  • CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice.
    Nucleic Acids Res, Vol. 22, No. 22. (11 November 1994), pp. 4673-4680.
    by JD Thompson, DG Higgins, TJ Gibson
    posted to alignment bioinformatics by xingxu on 2008-03-19 23:47:59 as ** along with 22 people and 1 group jmw greger_halltorp jshapiro mercaptan evaf caldavis miguel onlyrey bjorns aprasad RMGraze moborg arcticrasta dullhunk caporaso ahanora Haggan BioNica leelarcombe timflutre adijr hevol biomedical-nlp
  • Multiple sequence alignment with the Clustal series of programs.
    Nucleic Acids Res, Vol. 31, No. 13. (1 July 2003), pp. 3497-3500.
    by R Chenna, H Sugawara, T Koike, R Lopez, TJ Gibson, DG Higgins, JD Thompson
    posted to alignment bioinformatics by xingxu on 2008-03-18 19:10:59 as ** along with 4 people and 1 group miguel chad_davis beatrizfernandez raylim Microbial-Ecology
  • A model recognition approach to the prediction of all-helical membrane protein structure and topology.
    Biochemistry, Vol. 33, No. 10. (15 March 1994), pp. 3038-3049.
    by DT Jones, WR Taylor, JM Thornton
    posted to bioinformatics transmembrane by xingxu on 2008-03-18 16:26:31 as **
  • Improving the accuracy of transmembrane protein topology prediction using evolutionary information
    Bioinformatics, Vol. 23, No. 5. (March 2007), pp. 538-544.
    by Jones, T David
    posted to bioinformatics evolution transmembrane by xingxu on 2008-03-07 18:10:05 as ** along with 2 people lenov dandaman
  • PONGO: a web server for multiple predictions of all-alpha transmembrane proteins.
    Nucleic Acids Res, Vol. 34, No. Web Server issue. (1 July 2006)
    by M Amico, M Finelli, I Rossi, A Zauli, A Elofsson, H Viklund, G von Heijne, D Jones, A Krogh, P Fariselli, P Luigi Martelli, R Casadio
    posted to bioinformatics repository transmembrane by xingxu on 2008-03-07 18:08:42 as **
  • A hidden Markov model for predicting transmembrane helices in protein sequences.
    Proc Int Conf Intell Syst Mol Biol, Vol. 6 (1998), pp. 175-182.
    by EL Sonnhammer, G von Heijne, A Krogh
    posted to bioinformatics hmm transmembrane by xingxu on 2008-03-07 17:45:56 as ** along with 1 person netterpaladin
  • A combined transmembrane topology and signal peptide prediction method.
    J Mol Biol, Vol. 338, No. 5. (14 May 2004), pp. 1027-1036.
    by L Käll, A Krogh, EL Sonnhammer
    posted to bioinformatics transmembrane by xingxu on 2008-03-07 16:54:08 as ** along with 1 person cjeans
  • Evaluation of methods for the prediction of membrane spanning regions.
    Bioinformatics, Vol. 17, No. 7. (July 2001), pp. 646-653.
    by S Möller, MD Croning, R Apweiler
    posted to bioinformatics review transmembrane by xingxu on 2008-03-07 16:24:01 as ** along with 2 people happy_manatee cjeans
  • Prediction of transmembrane alpha-helices in prokaryotic membrane proteins: the dense alignment surface method.
    Protein Eng, Vol. 10, No. 6. (June 1997), pp. 673-676.
    by M Cserzö, E Wallin, I Simon, G von Heijne, A Elofsson
    posted to bioinformatics microbiology transmembrane by xingxu on 2008-03-07 06:09:22 as **
  • Using Likelihood-Free Inference to Compare Evolutionary Dynamics of the Protein Networks of H. pylori and P. falciparum
    PLoS Computational Biology, Vol. 3, No. 11. (1 November 2007), e230.
    by Oliver Ratmann, Ole Jørgensen, Trevor Hinkley, Michael Stumpf, Sylvia Richardson, Carsten Wiuf
    posted to bioinformatics evolution malaria modeling network pylori by xingxu on 2008-01-14 18:04:59 as ** along with 3 people zwang hpaces Ema
  • 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 bioinformatics epistasis by xingxu on 2008-01-11 18:44:58 as ** along with 5 people jyuh balicea cjeans zwang hpaces
  • A systems biology approach for pathway level analysis
    Genome Res. (4 September 2007), gr.6202607.
    by Sorin Draghici, Purvesh Khatri, Adi L Tarca, Kashyap Amin, Arina Done, Calin Voichita, Constantin Georgescu, Roberto Romero
    posted to bioinformatics pathway_analysis systems by xingxu on 2007-12-27 01:10:44 as ** along with 13 people and 3 groups tmmurali dragonrez jfr gurkanbebek grahamc shigepong zwang cabbagezs cerami shikin idonaldson Pao-Yang thomaskelder Bioinformatics ParkinsonLab_at_MaRS OPIG
  • The human disease network
    PNAS, Vol. 104, No. 21. (22 May 2007), pp. 8685-8690.
    by Kwang-Il Goh, Michael E Cusick, David Valle, Barton Childs, Marc Vidal, Albert-Laszlo Barabasi
    posted to bioinformatics genomics interactions by xingxu on 2007-12-04 18:15:08 as ** along with 21 people and 8 groups mingzhi Yanno jyuh aalibes cannin kuhn jfr yas balicea neveaire bundschu raiyar grahamc joepickrell leSyl henning dejori winterschlaefer naegele shikin nolodie GomezLab Biostatistics Computational-Genomics Bioinformatics Neuroscience steinmetzlab ic4 generif_paper
  • PseudoPipe: an automated pseudogene identification pipeline.
    Bioinformatics, Vol. 22, No. 12. (15 June 2006), pp. 1437-1439.
    by Z Zhang, N Carriero, D Zheng, J Karro, PM Harrison, M Gerstein
    posted to bioinformatics pseudogene by xingxu on 2007-08-17 17:29:35 as ** along with 3 people operon alexl Jporci
  • Imputation-Based Analysis of Association Studies: Candidate Regions and Quantitative Traits
    PLoS Genetics, Vol. 3, No. 7. (1 July 2007), e114.
    by Bertrand Servin, Matthew Stephens
    posted to bioinformatics by xingxu on 2007-08-02 16:32:46 as ** along with 2 people brant dmc
  • Genetic Association Mapping via Evolution-Based Clustering of Haplotypes
    PLoS Genetics, Vol. 3, No. 7. (1 July 2007), e111.
    by Ioanna Tachmazidou, Claudio J Verzilli, Maria D Iorio
    posted to bioinformatics gwa by xingxu on 2007-08-02 16:30:53 as *** along with 2 people zwang dmc
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