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di neils bioinformatics [108 articles]

Articoli aggiunti di recente alla biblioteca di neils classificati sotto il tag bioinformatics. You can also see everyone's bioinformatics.
  • Deducing topology of protein-protein interaction networks from experimentally measured sub-networks
    BMC Bioinformatics, Vol. 9, No. 1. (2008)
    by Ling Yang, Thomas Vondriska, Zhangang Han, Robb Maclellan, James Weiss, Zhilin Qu
    posted to topology protein-protein networks interaction bioinformatics by neils on 2008-07-04 00:29:49 as ** along with 2 people brianb renatomilani
  • Global investigation of protein-protein interactions in yeast Saccharomyces cerevisiae using re-occurring short polypeptide sequences
    Nucl. Acids Res. (27 June 2008), gkn390.
    by S Pitre, C North, M Alamgir, M Jessulat, A Chan, X Luo, JR Green, M Dumontier, F Dehne, A Golshani
    posted to yeast protein-protein prediction peptides interaction bioinformatics by neils on 2008-06-28 03:28:18 as ** along with 3 people renatomilani brianb pansapiens
  • Protein complex identification by supervised graph local clustering
    Bioinformatics, Vol. 24, No. 13. (1 July 2008), pp. i250-268.
    by Yanjun Qi, Fernanda Balem, Christos Faloutsos, Judith Klein-Seetharaman, Ziv Bar-Joseph
    posted to protein-protein interaction graph complexes clustering bioinformatics by neils on 2008-06-28 01:53:59 as ** along with 1 person chad_davis
  • GMODWeb: a web framework for the generic model organism database
    Genome Biology, Vol. 9, No. 6. (2008)
    by Brian O'Connor, Allen Day, Scott Cain, Olivier Arnaiz, Linda Sperling, Lincoln Stein
    posted to software perl gmod genomics framework bioinformatics by neils on 2008-06-21 03:05:23 as ** along with 4 people jyuh jamselem dullhunk tharris
  • Phosphorylation-Specific MS/MS Scoring for Rapid and Accurate Phosphoproteome Analysis
    J. Proteome Res. (19 June 2008)
    by Samuel H Payne, Margaret Yau, Marcus B Smolka, Stephen Tanner, Huilin Zhou, Vineet Bafna
    posted to scoring proteome phosphorylation phosphoproteins ms-ms bioinformatics by neils on 2008-06-19 09:14:49 as ** along with 1 person brianb
  • Colander: A Probability-Based Support Vector Machine Algorithm for Automatic Screening for CID Spectra of Phosphopeptides Prior to Database Search
    J. Proteome Res. (19 June 2008)
    by Bingwen Lu, Cristian I Ruse, John R Yates
    posted to svm spectrometry phosphopeptides mass machine-learning database cid bioinformatics by neils on 2008-06-19 09:10:38 as **
  • The Landscape of Human Proteins Interacting with Viruses and Other Pathogens
    PLoS Pathog, Vol. 4, No. 2. (Feb 2008)
    by Matthew D Dyer, Murali, Bruno W Sobral
    posted to virus protein-protein pathogen interaction human database bioinformatics by neils on 2008-06-18 13:51:04 as **
  • PURE: a webserver for the prediction of domains in unassigned regions in proteins
    BMC Bioinformatics, Vol. 9 (14 June 2008), 281.
    by Chilamakuri CS Reddy, Shameer Khader, Bernard O Offmann, Ramanthan Sowdhamini
    posted to webserver regions protein prediction domain bioinformatics by neils on 2008-06-15 10:50:02 as ** along with 1 person niallhaslam
  • NeAT: a toolbox for the analysis of biological networks, clusters, classes and pathways
    Nucl. Acids Res. (4 June 2008), gkn336.
    by Sylvain Brohee, Karoline Faust, Gipsi Lima-Mendez, Olivier Sand, Rekin's Janky, Gilles Vanderstocken, Yves Deville, Jacques van Helden
    posted to webserver software pathways networks cluster bioinformatics by neils on 2008-06-05 02:58:50 as ** along with 2 people balicea brianb
  • Large-scale analysis of gene clustering in bacteria
    Genome Res., Vol. 18, No. 6. (1 June 2008), pp. 949-956.
    by Qingwu Yang, Sing-Hoi Sze
    posted to prediction operon genetics clustering bioinformatics bacteria by neils on 2008-06-03 02:29:35 as **
  • iTools: A Framework for Classification, Categorization and Integration of Computational Biology Resources
    PLoS ONE, Vol. 3, No. 5. (May 2008)
    by Ivo D Dinov, Daniel Rubin, William Lorensen, Jonathan Dugan, Jeff Ma, Shawn Murphy, Beth Kirschner, William Bug, Michael Sherman, Aris Floratos, David Kennedy, HV Jagadish, Jeanette Schmidt, Brian Athey, Andrea Califano, Mark Musen, Russ Altman, Ron Kikinis, Isaac Kohane, Scott Delp, Stott D Parker, Arthur W Toga
    posted to tools software framework computational-biology bioinformatics by neils on 2008-05-31 13:42:35 as **
  • poolHiTS: A Shifted Transversal Design based pooling strategy for high-throughput drug screening
    BMC Bioinformatics, Vol. 9, No. 1. (2008)
    by Raghunandan Kainkaryam, Peter Woolf
    posted to screening prediction drug bioinformatics by neils on 2008-05-31 03:53:47 as ** along with 2 people jyuh reyez
  • PROMALS3D web server for accurate multiple protein sequence and structure alignments
    Nucl. Acids Res. (24 May 2008), gkn322.
    by Jimin Pei, Ming Tang, Nick V Grishin
    posted to webserver structure sequence protein bioinformatics alignment by neils on 2008-05-29 04:29:21 as **
  • PIE: an online prediction system for protein-protein interactions from text
    Nucl. Acids Res. (28 May 2008), gkn281.
    by Sun Kim, Soo-Yong Shin, In-Hee Lee, Soo-Jin Kim, Ram Sriram, Byoung-Tak Zhang
    posted to webserver text-mining protein-protein prediction interaction bioinformatics by neils on 2008-05-29 03:02:27 as ** along with 1 person tharris
  • ENDEAVOUR update: a web resource for gene prioritization in multiple species
    Nucl. Acids Res. (28 May 2008), gkn325.
    by Leon-Charles Tranchevent, Roland Barriot, Shi Yu, Steven V Vooren, Peter V Loo, Bert Coessens, Bart D Moor, Stein Aerts, Yves Moreau
    posted to webserver selection genes function candidate bioinformatics by neils on 2008-05-29 02:58:21 as ** along with 1 person jyuh
  • Unravelling the genomic mosaic of a ubiquitous genus of marine cyanobacteria
    Genome Biology, Vol. 9, No. 5. (2008)
    by Alexis Dufresne, Martin Ostrowski, David Scanlan, Laurence Garczarek, Sophie Mazard, Brian Palenik, Ian Paulsen, Nicole T de Marsac, Patrick Wincker, Carole Dossat, Steve Ferriera, Justin Johnson, Anton Post, Wolfgang Hess, Frederic Partensky
    posted to genomics cyanobacteria comparative bioinformatics analysis by neils on 2008-05-28 12:00:23 as ** along with 1 person bcondon
  • Prediction of enzyme function by combining sequence similarity and protein interactions
    BMC Bioinformatics, Vol. 9, No. 1. (2008)
    by Jordi Espadaler, Narayanan Eswar, Enric Querol, Francesc Aviles, Andrej Sali, Marc M Renom, Baldomero Oliva
    posted to sequence protein-protein prediction interaction function enzyme bioinformatics by neils on 2008-05-28 01:05:07 as **
  • Predikin and PredikinDB: a computational framework for the prediction of protein kinase peptide specificity and an associated database of phosphorylation sites
    BMC Bioinformatics, Vol. 9 (26 May 2008), 245.
    by Neil FW Saunders, Ross I Brinkworth, Thomas Huber, Bruce E Kemp, Bostjan Kobe
    posted to substrate specificity predikin prediction kinases bioinformatics by neils on 2008-05-27 05:06:18 as **
  • The statistical significance of nucleotide position-weight matrix matches
    Comput. Appl. Biosci., Vol. 12, No. 5. (1 October 1996), pp. 431-439.
    by Jean-Michel Claverie, Stephane Audic
    posted to statistics pwm nucleotide matrix bioinformatics by neils on 2008-05-14 06:41:04 as ** along with 2 people and 2 groups samal bsmagic Bioinformatics bioinplant
  • Estimating the size of the human interactome
    Proceedings of the National Academy of Sciences (12 May 2008), 0708078105.
    by Michael P Stumpf, Thomas Thorne, Eric de Silva, Ronald Stewart, Hyeong J An, Michael Lappe, Carsten Wiuf
    posted to protein-protein prediction network interactome interaction human bioinformatics by neils on 2008-05-14 04:39:31 as ** along with 18 people chad_davis Evangelia balicea marck paolomarcatili sanchezbuelna cabbagesofdoom xingxu mjoach jyuh chrissp100 zwang roys brianb friendpine Ema tmmurali phoenixzxl
  • The Predikin webserver: improved prediction of protein kinase peptide specificity using structural information
    Nucl. Acids Res. (13 May 2008), gkn279.
    by Neil F Saunders, Bostjan Kobe
    posted to webserver specificity predikin prediction peptide kinases bioinformatics by neils on 2008-05-14 03:57:42 as **
  • Biocomputational prediction of small non-coding RNAs in Streptomyces
    BMC Genomics, Vol. 9, No. 1. (2008)
    by Josef Panek, Jan Bobek, Karel Mikulik, Marek Basler, Jiri Vohradsky
    posted to streptomyces prediction ncrna bioinformatics bacteria by neils on 2008-05-13 13:09:48 as **
  • notes In pursuit of virtual lead optimization: The role of the receptor structure and ensembles in accurate docking
    Proteins: Structure, Function, and Bioinformatics, Vol. 9999, No. 9999. (2008), NA.
    by Bolstad, Amy C Anderson
    posted to virtual screening optimisation lead docking bioinformatics by neils on 2008-05-13 09:16:16 as **
  • Comprehensive inventory of protein complexes in the Protein Data Bank from consistent classification of interfaces
    BMC Bioinformatics, Vol. 9, No. 1. (2008)
    by Andrew Bordner, Andrey Gorin
    posted to protein-protein pdb interface interaction complexes bioinformatics by neils on 2008-05-13 00:10:20 as ** along with 1 person phoenixzxl
  • An online database for the detection of novel archaeal sequences in human ESTs.
    Bioinformatics (Oxford, England), Vol. 20, No. 15. (12 October 2004), pp. 2361-2362.
    by NF Saunders, PM Curmi, R Cavicchioli
    posted to pathogen genomics est database bioinformatics archaea by neils on 2008-05-11 10:26:19 as **
  • Mechanisms of thermal adaptation revealed from the genomes of the Antarctic Archaea Methanogenium frigidum and Methanococcoides burtonii.
    Genome Res, Vol. 13, No. 7. (July 2003), pp. 1580-1588.
    by NF Saunders, T Thomas, PM Curmi, JS Mattick, E Kuczek, R Slade, J Davis, PD Franzmann, D Boone, K Rusterholtz, R Feldman, C Gates, S Bench, K Sowers, K Kadner, A Aerts, P Dehal, C Detter, T Glavina, S Lucas, P Richardson, F Larimer, L Hauser, M Land, R Cavicchioli
    posted to psychrophily methanogenium methanococcoides genomics bioinformatics antarctic by neils on 2008-05-11 10:24:46 as ** along with 1 person bpb
  • Serpins in unicellular Eukarya, Archaea, and Bacteria: sequence analysis and evolution.
    Journal of molecular evolution, Vol. 59, No. 4. (October 2004), pp. 437-447.
    by TH Roberts, J Hejgaard, NF Saunders, R Cavicchioli, PM Curmi
    posted to serpin sequence evolution bioinformatics analysis by neils on 2008-05-11 10:11:58 as **
  • Predicted roles for hypothetical proteins in the low-temperature expressed proteome of the Antarctic archaeon Methanococcoides burtonii.
    Journal of proteome research, Vol. 4, No. 2. (r 2005), pp. 464-472.
    by NF Saunders, A Goodchild, M Raftery, M Guilhaus, PM Curmi, R Cavicchioli
    posted to psychrophily proteins prediction methanococcoides function bioinformatics archaea antarctic by neils on 2008-05-11 10:09:25 as **
  • Discovering sequence motifs with arbitrary insertions and deletions.
    PLoS computational biology, Vol. 4, No. 4. (April 2008)
    by MC Frith, NF Saunders, B Kobe, TL Bailey
    posted to sequences motifs glam2 discovery bioinformatics by neils on 2008-05-09 13:29:46 as ** along with 5 people Ema dquest Stew gjuggler cabbagesofdoom
  • Fast protein tertiary structure retrieval based on global surface shape similarity
    Proteins: Structure, Function, and Bioinformatics, Vol. 9999, No. 9999. (xx 2008)
    by Lee Sael, Bin Li, David La, Yi Fang, Karthik Ramani, Raif Rustamov, Daisuke Kihara
    posted to structure retrieval protein prediction bioinformatics by neils on 2008-05-09 10:19:56 as **
  • The minimum information about a genome sequence (MIGS) specification
    Nat Biotech, Vol. 26, No. 5. (May 2008), pp. 541-547.
    by Dawn Field, George Garrity, Tanya Gray, Norman Morrison, Jeremy Selengut, Peter Sterk, Tatiana Tatusova, Nicholas Thomson, Michael J Allen, Samuel V Angiuoli, Michael Ashburner, Nelson Axelrod, Sandra Baldauf, Stuart Ballard, Jeffrey Boore, Guy Cochrane, James Cole, Peter Dawyndt, Paul De Vos, Claude Depamphilis, Robert Edwards, Nadeem Faruque, Robert Feldman, Jack Gilbert, Paul Gilna, Frank O Glockner, Philip Goldstein, Robert Guralnick, Dan Haft, David Hancock, Henning Hermjakob, Christiane Hertz-Fowler, Phil Hugenholtz, Ian Joint, Leonid Kagan, Matthew Kane, Jessie Kennedy, George Kowalchuk, Renzo Kottmann, Eugene Kolker, Saul Kravitz, Nikos Kyrpides, Jim Leebens-Mack, Suzanna E Lewis, Kelvin Li, Allyson L Lister, Phillip Lord, Natalia Maltsev, Victor Markowitz, Jennifer Martiny, Barbara Methe, Ilene Mizrachi, Richard Moxon, Karen Nelson, Julian Parkhill, Lita Proctor, Owen White, Susanna-Assunta Sansone, Andrew Spiers, Robert Stevens, Paul Swift, Chris Taylor, Yoshio Tateno, Adrian Tett, Sarah Turner, David Ussery, Bob Vaughan, Naomi Ward, Trish Whetzel, Ingio San Gil, Gareth Wilson, Anil Wipat
    posted to standards sequencing information genomics bioinformatics by neils on 2008-05-09 00:35:47 as ** along with 5 people jfr tharris jyuh jamselem dullhunk
  • Genome analysis of the platypus reveals unique signatures of evolution
    Nature, Vol. 453, No. 7192. (May 2008), pp. 175-183.
    posted to platypus genome evolution bioinformatics by neils on 2008-05-08 00:43:58 as ** along with 9 people pbull Tominator ealloza hpaces lp2 natstreet cabbagesofdoom gjuggler fhsantanna
  • SCPRED: Accurate prediction of protein structural class for sequences of twilight-zone similarity with predicting sequences
    BMC Bioinformatics, Vol. 9, No. 1. (2008)
    by Lukasz Kurgan, Krzysztof Cios, Ke Chen
    posted to structure sequence protein prediction bioinformatics by neils on 2008-05-02 00:27:57 as **
  • A Quick Guide for Computer-Assisted Instruction in Computational Biology and Bioinformatics
    PLoS Comput Biol, Vol. 4, No. 4. (Apr 2008)
    by Manuel J Costa, Eduardo Galembeck, Guilherme A Marson, Bayardo B Torres
    posted to teaching computer-assisted bioinformatics by neils on 2008-04-28 06:38:52 as **
  • An evaluation of automated homology modelling methods at low target template sequence similarity
    Bioinformatics, Vol. 23, No. 15. (1 August 2007), pp. 1901-1908.
    by James A Dalton, Richard M Jackson
    posted to structure protein prediction modelling homology evaluation bioinformatics by neils on 2008-04-26 12:05:56 as ** along with 3 people pansapiens chad_davis biehl
  • NetworKIN: a resource for exploring cellular phosphorylation networks
    Nucl. Acids Res., Vol. 36 (2008), pp. D695-699.
    by Rune Linding, Lars J Jensen, Adrian Pasculescu, Marina Olhovsky, Karen Colwill, Peer Bork, Michael B Yaffe, Tony Pawson
    posted to transduction signal prediction phosphorylation networks bioinformatics by neils on 2008-04-24 16:22:01 as **
  • Genome-wide subcellular localization of putative outer membrane and extracellular proteins in Leptospira interrogans serovar Lai genome using bioinformatics approaches
    BMC Genomics, Vol. 9, No. 1. (2008)
    by Wasna Viratyosin, Supawadee Ingsriswang, Eakasit Pacharawongsakda, Prasit Palittapongarnpim
    posted to bacteria bioinformatics genomics leptospira localisation membrane pathogen prediction protein scl secretion by neils on 2008-04-21 05:05:55 as ** along with 1 person sitake
  • Functional Maps of Protein Complexes from Quantitative Genetic Interaction Data
    PLoS Comput Biol, Vol. 4, No. 4. (Apr 2008)
    by Sourav Bandyopadhyay, Ryan Kelley, Nevan J Krogan, Trey Ideker
    posted to bioinformatics complexes genetic interaction networks prediction protein-protein by neils on 2008-04-21 03:13:52 as **
  • Predicting Co-Complexed Protein Pairs from Heterogeneous Data
    PLoS Comput Biol, Vol. 4, No. 4. (Apr 2008)
    by Jian Qiu, William S Noble
    posted to bioinformatics complexes interaction kernels prediction protein-protein by neils on 2008-04-21 03:12:15 as ** along with 1 person brianb
  • Indicators from archaeal secretomes.
    Microbiological research (11 April 2008)
    by Mazen Saleh, Catharine Song, Sabah Nasserulla, L G G Leduc
    posted to analysis archaea bioinformatics genomics prediction secretion by neils on 2008-04-18 12:25:45 as **
  • Identification of Proteins Secreted by Malaria Parasite into Erythrocyte using SVM and PSSM profiles
    BMC Bioinformatics, Vol. 9, No. 1. (2008)
    by Ruchi Verma, Ajit Tiwari, Sukhwinder Kaur, Grish Varshney, Gajendra Raghava
    posted to bioinformatics erythrocyte machine-learning malaria prediction proteins pssm secretion svm by neils on 2008-04-17 00:31:17 as ** along with 1 person arNQ
  • Identification of Phosphorylation Sites in Protein Kinase A Substrates Using Artificial Neural Networks and Mass Spectrometry
    J. Proteome Res., Vol. 3, No. 3. (14 June 2004), pp. 426-433.
    by M Hjerrild, A Stensballe, TE Rasmussen, CB Kofoed, N Blom, T Sicheritz-Ponten, MR Larsen, S Brunak, ON Jensen, S Gammeltoft
    posted to article-predikin bioinformatics mass netphosk neural-network phosphorylation prediction spectrometry by neils on 2008-04-16 04:05:30 as **
  • Python - All a Scientist Needs
    (12 Mar 2008)
    by Julius B Lucks
    posted to arxiv bioinformatics programming python by neils on 2008-04-15 03:31:52 as ** along with 1 person brianb
  • A Systematic Assessment of MHC Class II Peptide Binding Predictions and Evaluation of a Consensus Approach
    PLoS Comput Biol, Vol. 4, No. 4. (Apr 2008)
    by Peng Wang, John Sidney, Courtney Dow, Bianca Mothé, Alessandro Sette, Bjoern Peters
    posted to affinity binding bioinformatics evaluation mhc peptide prediction by neils on 2008-04-15 03:01:11 as **
  • Ligand binding affinity prediction by linear interaction energy methods
    Journal of Computer-Aided Molecular Design, Vol. 12, No. 1. (1 January 1998), pp. 27-35.
    by Tomas Hansson, John Marelius, Johan Åqvist
    posted to affinity binding bioinformatics lie ligand prediction by neils on 2008-04-15 02:18:54 as **
  • Analysis of Aspergillus nidulans metabolism at the genome-scale
    BMC Genomics, Vol. 9, No. 1. (2008)
    by Helga David, Ilknur Ozcelik, Gerald Hofmann, Jens Nielsen
    posted to aspergillus bioinformatics fungi genomics metabolomics orfan pathways by neils on 2008-04-11 10:07:46 as **
  • Gene identification and protein classification in microbial metagenomic sequence data via incremental clustering
    BMC Bioinformatics, Vol. 9, No. 1. (2008)
    by Shibu Yooseph, Weizhong Li, Granger Sutton
    posted to bioinformatics classification clustering genomics metagenomics microbial sequences by neils on 2008-04-11 01:50:41 as ** along with 1 person alexl
  • Analyzing Protein Interaction Networks Using Structural Information
    Annual Review of Biochemistry, Vol. 77, No. 1. (2008)
    by Christina Kiel, Pedro Beltrao, Luis Serrano
    posted to bioinformatics interaction network protein-protein structure by neils on 2008-04-11 01:44:07 as ** along with 3 people paolomarcatili grahamc Evangelia
  • Simple is beautiful: a straightforward approach to improve the delineation of true and false positives in PSI-BLAST searches
    Bioinformatics (2008)
    by Marianne M Lee, Michael K Chan, Ralf Bundschuh
    posted to analysis bioinformatics psi-blast sequence statistics by neils on 2008-04-11 01:32:11 as **
  • Analysis of the residue-residue coevolution network and the functionally important residues in proteins
    Proteins: Structure, Function, and Bioinformatics, Vol. 9999, No. 9999. (2008), NA.
    by Byung-Chul Lee, Keunwan Park, Dongsup Kim
    posted to acids amino bioinformatics coevolution function network residues by neils on 2008-04-10 13:28:46 as ** along with 7 people and 2 groups wilbur friendpine barry sobolevnrm mingzhi penpen926 scienbox structural_bioinformatics baker-group
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