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kshameer's library [35 articles]

Recent papers added to kshameer's library.
RIS BibTeX RTF/PDF
  • A semantic web management model for integrative biomedical informatics.
    PLoS ONE, Vol. 3, No. 8. (2008)
    by HF Deus, R Stanislaus, DF Veiga, C Behrens, II Wistuba, JD Minna, HR Garner, SG Swisher, JA Roth, AM Correa, B Broom, K Coombes, A Chang, LH Vogel, JS Almeida
    posted to semantic database data-mining data-integration by kshameer on 2009-01-09 09:12:25 as *** along with 7 people fgibson josowski druvus lifidea dullhunk guhjy sherdim
  • Ten Simple Rules for Selecting a Postdoctoral Position
    PLoS Computational Biology, Vol. 2, No. 11. (1 November 2006), e121.
    by Philip E Bourne, Iddo Friedberg
    posted to no-tag by kshameer on 2009-01-08 17:41:54 as ** along with 13 people and 4 groups pengchy monkare abellogin Zephyrus ansobol cmalek apaydin garyfeng hirachi gane5h totolee noby Torsten_Holmer Roswell Cancer Crosstalk ReadingLab Knowledge_Management Social_Learning_Software_Lab
  • Comparative proteome analysis of psychrophilic versus mesophilic bacterial species: Insights into the molecular basis of cold adaptation of proteins
    BMC Genomics, Vol. 10, No. 1. (2009)
    by Raghu, Boojala
    posted to analysis by kshameer on 2009-01-08 16:50:36 as ** along with 1 person neils
  • Gene ontology: tool for the unification of biology. The Gene Ontology Consortium.
    Nature Genetics, Vol. 25, No. 1. (May 2000), pp. 25-29.
    by M Ashburner, CA Ball, JA Blake, D Botstein, H Butler, JM Cherry, AP Davis, K Dolinski, SS Dwight, JT Eppig, MA Harris, DP Hill, L Issel-Tarver, A Kasarskis, S Lewis, JC Matese, JE Richardson, M Ringwald, GM Rubin, G Sherlock
    posted to go gene-ontology by kshameer on 2009-01-01 19:58:12 as ** along with 44 people and 7 groups coela fbristow anthropomorphism nolodie dagmar Robinder verdicchio raistrick vertikalist aalibes miguel dragonrez lfriedl chad_davis yas balajis indigoviolet benny dullhunk nirfriedman fisherp caporaso helliontroy zlu gurkanbebek djkt massivemayhem incovoma leechuck aconesa sgoetz javamint bootsy PunkRock natstreet naegele CitoJam pablomendes carlk marck dgront roys rvosa fongenae BTS-PT-AS-CS kdl Bioinformatics EisenLab T_lab biomedical-nlp FAB-lab
  • The quest for orthologs: finding the corresponding gene across genomes
    Trends in Genetics (24 September 2008)
    by A Kuzniar, R Vanham, S Pongor, J Leunissen
    posted to ortholog by kshameer on 2008-12-31 08:19:32 as ** along with 9 people carlk guhjy natstreet druvus treangen skembel gjuggler dchughes operon
  • The meaning of alignment: lessons from structural diversity
    BMC Bioinformatics, Vol. 9, No. 1. (2008)
    by Walter Pirovano, Anton K Feenstra, Jaap Heringa
    posted to alignment by kshameer on 2008-12-30 13:35:45 as ** along with 9 people treangen markusd j3xucite nuin druvus chad_davis swtimmer taguchi pansapiens
  • SPRINT: A new parallel framework for R
    BMC Bioinformatics, Vol. 9, No. 1. (2008)
    by Jon Hill, Matthew Hambley, Thorsten Forster, Muriel Mewissen, Terence Sloan, Florian Scharinger, Arthur Trew, Peter Ghazal
    posted to r by kshameer on 2008-12-30 13:35:16 as *** along with 10 people and 1 group druvus lptolik paszkows nuin cisevol irinamohorianu kvjanos jmeppley GeeSharpMinor pengchy BergmanLab
  • AAindex: amino acid index database.
    Nucleic Acids Res, Vol. 28, No. 1. (1 January 2000)
    by S Kawashima, M Kanehisa
    posted to database by kshameer on 2008-12-30 06:19:11 as read along with 2 people and 1 group caporaso BioNica biomedical-nlp
  • Evolution of protein domain promiscuity in eukaryotes
    Genome Res. (29 January 2008), gr.6943508.
    by Malay K Basu, Liran Carmel, Igor B Rogozin, Eugene V Koonin
    posted to evolution eukaryotes domain analysis by kshameer on 2008-12-29 05:32:58 as read along with 8 people saket cmzmasek michC neils grahamc zwang carlk dchughes
  • I Am Not a Scientist, I Am a Number
    PLoS Comput Biol, Vol. 4, No. 12. (26 December 2008), e1000247.
    by Philip E Bourne, Lynn J Fink
    posted to opinion by kshameer on 2008-12-27 07:53:46 as ** along with 16 people and 2 groups guano jcaddy demo mmarois Yanno GustavoLacerda allysonlister dswan nuin sebastien_vigneau Zephyrus thomaskelder rs dbk dullhunk stajich Roswell Cancer Crosstalk Berkeley Mycology
  • An algorithm for predicting protein-protein interaction sites: Abnormally exposed amino acid residues and secondary structure elements.
    Protein Sci, Vol. 15, No. 5. (May 2006), pp. 1017-1029.
    by J Hoskins, S Lovell, TL Blundell
    posted to protein-structure protein-protein-interaction protein algorithm by kshameer on 2008-12-27 05:54:24 as read along with 3 people bicko drastic higueruelo
  • Data curation + process curation=data integration + science
    Brief Bioinform (6 December 2008), bbn034.
    by Carole Goble, Robert Stevens, Duncan Hull, Katy Wolstencroft, Rodrigo Lopez
    posted to knowledge-mining data-mining data-integration by kshameer on 2008-12-26 20:18:37 as *** along with 5 people dullhunk nuin Cortel renatomilani druvus
  • Annotation Sketch: a genome annotation drawing library
    Bioinformatics (23 December 2008), btn657.
    by Sascha Steinbiss, Gordon Gremme, Christin Scharfer, Malte Mader, Stefan Kurtz
    posted to genome-analysis by kshameer on 2008-12-24 10:14:59 as *** along with 5 people and 2 groups nuin cisevol Zephyrus jmeppley pkonings BergmanLab Roswell Cancer Crosstalk
  • Data mining in bioinformatics using Weka.
    Bioinformatics, Vol. 20, No. 15. (12 October 2004), pp. 2479-2481.
    by E Frank, M Hall, L Trigg, G Holmes, IH Witten
    posted to machine-learning data-mining analysis by kshameer on 2008-12-24 05:10:24 as ** along with 5 people and 4 groups irenas hampti Cortel beapen ramensky dbk-lab Atopic_and_Seborrhoeic_Dermatitis Skin_Deep Applied_Bimatics
  • PocketMatch: A new algorithm to compare binding sites in protein structures
    BMC Bioinformatics, Vol. 9, No. 1. (2008)
    by Kalidas Yeturu, Nagasuma Chandra
    posted to protein-structure binding-site by kshameer on 2008-12-23 05:06:43 as ** along with 5 people jteyra reyez tny higueruelo druvus
  • Discover protein sequence signatures from protein-protein interaction data
    BMC Bioinformatics, Vol. 6, No. 1. (2005)
    by Jianwen Fang, Ryan Haasl, Yinghua Dong, Gerald Lushington
    posted to protein-protein-interaction by kshameer on 2008-12-21 17:14:50 as **
  • 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 protein-protein-interaction by kshameer on 2008-12-21 15:18:31 as ** along with 9 people and 1 group chad_davis Borelli bicko neils Evangelia grahamc paolomarcatili phoenixzxl zwang structural_bioinformatics
  • GeneVenn - A web application for comparing gene lists using Venn diagrams.
    Bioinformation, Vol. 1, No. 10. (2007), pp. 420-422.
    by M Pirooznia, V Nagarajan, Y Deng
    posted to web-server by kshameer on 2008-12-21 14:13:41 as ** along with 3 people guhjy aalibes virajj
  • GATHER: a systems approach to interpreting genomic signatures
    Bioinformatics, Vol. 22, No. 23. (1 December 2006), pp. 2926-2933.
    by Chang, T Jeffrey, Nevins, R Joseph
    posted to text-mining data-mining by kshameer on 2008-12-20 19:30:16 as read
  • Complex fate of paralogs
    BMC Evolutionary Biology, Vol. 8, No. 1. (2008)
    by Radek Szklarczyk, Martijn Huynen, Berend Snel
    posted to protein-protein paralogs interaction analysis by kshameer on 2008-12-19 05:39:30 as *** along with 1 person phoenixzxl
  • Computational prediction of host-pathogen protein protein interactions
    Bioinformatics, Vol. 23, No. 13. (1 July 2007), pp. i159-166.
    by Matthew D Dyer, TM Murali, Bruno W Sobral
    posted to host-pathogen bioinformatics by kshameer on 2008-12-18 13:32:30 as ** along with 5 people and 1 group behindtherabbit operon GustavoLacerda carlk cerca Bioinformatics
  • Genome-wide survey of prokaryotic serine proteases: Analysis of distribution and domain architectures of five serine protease families in prokaryotes
    BMC Genomics, Vol. 9, No. 1. (2008)
    by Lokesh Tripathi, Ramanathan Sowdhamini
    posted to genome-wide-survey genome-analysis bioinformatics by kshameer on 2008-12-18 13:27:20 as read along with 2 people zwang neils
  • Predicting Pathway Membership via Domain Signatures
    Bioinformatics (1 August 2008), btn403.
    by Holger Frohlich, Mark Fellmann, Holger Sultmann, Annemarie Poustka, Tim Beissbarth
    posted to svm pathway kegg function bioinformatics by kshameer on 2008-12-18 13:07:59 as read along with 7 people jameswasmuth jfr barriot ptrobajo mdstobbe phoenixzxl guhjy
  • Bioinformatics: alive and kicking
    Genome Biology, Vol. 9 (17 December 2008), 114.
    by Lincoln D Stein
    posted to opinion by kshameer on 2008-12-18 11:26:21 as read along with 5 people dullhunk allysonlister fgibson neils druvus
  • MODPROPEP: a program for knowledge-based modeling of protein-peptide complexes.
    Nucleic Acids Res, Vol. 35, No. Web Server issue. (1 July 2007)
    by N Kumar, D Mohanty
    posted to structure protein-protein protein-peptide bioinformatics by kshameer on 2008-12-18 10:46:52 as read along with 1 person neils
  • Prediction of enzyme function based on 3D templates of evolutionarily important amino acids
    BMC Bioinformatics, Vol. 9, No. 1. (2008)
    by David Kristensen, Matthew R Ward, Andreas M Lisewski, Serkan Erdin, Brian Chen, Viacheslav Fofanov, Marek Kimmel, Lydia Kavraki, Olivier Lichtarge
    posted to structure protein interaction bioinformatics annotation by kshameer on 2008-12-17 18:36:24 as *** along with 2 people and 1 group neils sobolevnrm baker-group
  • On ontologies for biologists: the Gene Ontology--untangling the web.
    Novartis Found Symp, Vol. 247 (2002)
    by M Ashburner, S Lewis
    posted to ontology function annotation by kshameer on 2008-12-04 11:20:19 as **** along with 2 people ziquje skhadar
  • BioMart and Bioconductor: a powerful link between biological databases and microarray data analysis.
    Bioinformatics, Vol. 21, No. 16. (15 August 2005), pp. 3439-3440.
    by S Durinck, Y Moreau, A Kasprzyk, S Davis, B De Moor, A Brazma, W Huber
    posted to biomart by kshameer on 2008-11-28 12:20:36 as ** along with 3 people dullhunk fisherp incovoma
  • iPfam: visualization of protein-protein interactions in PDB at domain and amino acid resolutions
    Bioinformatics, Vol. 21, No. 3. (01 February 2005), 410.
    by Robert D Finn, Mhairi Marshall, Alex Bateman
    posted to protein-protein interaction domain-domain domain data-integration bioinformatics by kshameer on 2008-11-28 05:18:11 as *** along with 7 people and 2 groups mdimmic barry chad_davis choonpeng massivemayhem antonkratz kintoki structural_bioinformatics Bioinformatics
  • Advanced Genomic Data Mining
    PLoS Comput Biol, Vol. 4, No. 9. (2008), e1000121.
    by Xosé M Fernández-Suárez, Ewan Birney
    posted to mining integration data bioinformatics by kshameer on 2008-11-27 11:46:21 as ***** along with 17 people and 1 group daforerog jfr guhjy taguchi giovenko inesdesantiago usagi-kirin fgibson cisevol rdiaz aramesh2 sunhwan druvus mitko jandot jameswasmuth dullhunk BergmanLab
  • Domain-swapped dimerization of ZO-1 PDZ2 generates specific and regulatory connexin43-binding sites
    The EMBO journal (November 2008)
    posted to swapping pdz domain by kshameer on 2008-11-15 16:13:38 as **
  • Experience using web services for biological sequence analysis.
    Briefings in bioinformatics (11 July 2008)
    by Heinz Stockinger, Teresa Attwood, Shahid Nadeem N Chohan, Richard Côté, Philippe Cudré-Mauroux, Laurent Falquet, Pedro Fernandes, Robert D D Finn, Taavi Hupponen, Eija Korpelainen, Alberto Labarga, Aurelie Laugraud, Tania Lima, Evangelos Pafilis, Marco Pagni, Steve Pettifer, Isabelle Phan, Nazim Rahman
    posted to webservices sequence analysis by kshameer on 2008-11-12 13:49:16 as ** along with 7 people alaninmcr jmeppley Cortel guhjy druvus dullhunk nuin
  • Methods in Microarray Normalization. Edited by Phillip Stafford
    Brief Bioinform (18 August 2008), bbn033.
    by JJ Daudin
    posted to statistics normalization microarray by kshameer on 2008-11-12 13:49:02 as ***
  • Evaluation of GO-based functional similarity measures using S. cerevisiae protein interaction and expression profile data
    BMC Bioinformatics, Vol. 9, No. 1. (2008)
    by Tao Xu, Linfang Du, Yan Zhou
    posted to methods go comparison bmc bioinformatics by kshameer on 2008-11-11 12:56:28 as *** along with 4 people cgaugain saket barriot phoenixzxl
  • PConPy - a Python module for generating 2D protein maps
    Bioinformatics (31 October 2008), btn566.
    by Hui K Ho, Michael J Kuiper, Ramamohanarao Kotagiri
    posted to python by kshameer on 2008-11-06 14:00:57 as **
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