TY  - JOUR
A1  - Ferino G
A1  - González-Díaz H
A1  - Delogu G
A1  - Podda G
A1  - Uriarte E
T1  - Using spectral moments of spiral networks based on PSA/mass spectra outcomes to derive quantitative proteome-disease relationships (QPDRs) and predicting prostate cancer
JO  - Biochem Biophys Res Commun
Y1  - 2008
SP  - 320
EP  - 5
VL  - 372
IS  - 2
UR  - http://dx.doi.org/10.1016/j.bbrc.2008.05.071
ER  - 

TY  - JOUR
A1  - Hu J
A1  - Yan C
T1  - A method for discovering transmembrane beta-barrel proteins in Gram-negative bacterial proteomes
JO  - Comput Biol Chem
Y1  - 2008/04/1
SP  - 
EP  - 
VL  - 
IS  - 
UR  - http://dx.doi.org/10.1016/j.compbiolchem.2008.03.010
ER  - 

TY  - JOUR
A1  - Ishtiaq Ahmad
A1  - Wajahat M. Qazi
A1  - Ahmed Khurshid
A1  - Munir Ahmad
A1  - Daniel C. Hoessli
A1  - Iffat Khawaja
A1  - M. Iqbal Choudhary
A1  - Abdul R. Shakoori
A1  - Nasir-ud-Din
T1  - MAPRes: Mining association patterns among preferred amino acid residues in the vicinity of amino acids targeted for post-translational modifications
JO  - PROTEOMICS
Y1  - 2008
SP  - 1954
EP  - 1958
VL  - 8
IS  - 10
UR  - http://dx.doi.org/10.1002/pmic.200700657
ER  - 

TY  - JOUR
A1  - Ozgun Babur
A1  - Recep Colak
A1  - Emek Demir
A1  - Ugur Dogrusoz
T1  - PATIKAmad: Putting microarray data into pathway context
JO  - PROTEOMICS
Y1  - 2008
SP  - 2196
EP  - 2198
VL  - 8
IS  - 11
UR  - http://dx.doi.org/10.1002/pmic.200700769
ER  - 

TY  - JOUR
A1  - Ruth C. Lovering
A1  - Emily Dimmer
A1  - Varsha K. Khodiyar
A1  - Daniel G. Barrell
A1  - Peter Scambler
A1  - Mike Hubank
A1  - Rolf Apweiler
A1  - Philippa J. Talmud
T1  - Cardiovascular GO Annotation Initiative Year 1 Report: Why Cardiovascular GO?
JO  - PROTEOMICS
Y1  - 2008
SP  - 1950
EP  - 1953
VL  - 8
IS  - 10
UR  - http://dx.doi.org/10.1002/pmic.200800078
ER  - 

TY  - JOUR
A1  - Samuel Patient
A1  - Daniela Wieser
A1  - Michael Kleen
A1  - Ernst Kretschmann
A1  - Maria Jesus Martin
A1  - Rolf Apweiler
T1  - UniProtJAPI: a remote API for accessing UniProt data
JO  - Bioinformatics
Y1  - 2008
SP  - 1321
EP  - 1322; doi:10.1093/bioinformatics/btn122
VL  - 24
IS  - 10
UR  - http://bioinformatics.oxfordjournals.org/cgi/content/abstract/24/10/1321?etoc
ER  - 

TY  - JOUR
A1  - Janosch Hennig
A1  - Klaus D. M. Hennig
A1  - Maria Sunnerhagen
T1  - MTMDAT: Automated analysis and visualization of mass spectrometry data for tertiary and quaternary structure probing of proteins
JO  - Bioinformatics
Y1  - 2008
SP  - 1310
EP  - 1312; doi:10.1093/bioinformatics/btn116
VL  - 24
IS  - 10
UR  - http://dx.doi.org/bioinformatics/btn116
ER  - 

TY  - JOUR
A1  - Chen S
A1  - Chinnaswamy A
A1  - Biswas SK
A1  - Goryachev AB
A1  - Yap CK
A1  - Lam KY
A1  - Tay CP
A1  - Low HS
A1  - Pokhilko A
A1  - Da-Jun T
A1  - Mishra SK
T1  - Cell interaction knowledgebase: an online database for innate immune cells, cytokines and chemokines
JO  - In Silico Biol
Y1  - 2007
SP  - 569
EP  - 74
VL  - 7
IS  - 6
UR  - http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=18467769&dopt=Abstract
ER  - 

TY  - JOUR
A1  - Rossille D
A1  - Burgun A
A1  - Pangault-Lorho C
A1  - Fest T
T1  - Integrating clinical, gene expression, protein expression and preanalytical data for in silico cancer research
JO  - Stud Health Technol Inform
Y1  - 2008
SP  - 455
EP  - 60
VL  - 136
IS  - 
UR  - http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=18487773&dopt=Abstract
ER  - 

TY  - JOUR
A1  - Miller CS
A1  - Eisenberg D
T1  - Using inferred residue contacts to distinguish between correct and incorrect protein models
JO  - Bioinformatics
Y1  - 2008/05/29
SP  - 
EP  - 
VL  - 
IS  - 
UR  - http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=18511466&dopt=Abstract
ER  - 

TY  - JOUR
A1  - McHugh L
A1  - Arthur JW
T1  - Computational methods for protein identification from mass spectrometry data
JO  - 
Y1  - 
SP  - 
EP  - 
VL  - 
IS  - 
UR  - http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=18463710&dopt=Abstract
ER  - 

TY  - JOUR
A1  - Roland A. Pache
A1  - Patrick Aloy
T1  - Incorporating high-throughput proteomics experiments into structural biology pipelines: Identification of the low-hanging fruits
JO  - PROTEOMICS
Y1  - 2008
SP  - 1959
EP  - 1964
VL  - 8
IS  - 10
UR  - http://dx.doi.org/10.1002/pmic.200700966
ER  - 

TY  - JOUR
A1  - Alexei L. Krasnoselsky
A1  - Vitor M. Faca
A1  - Sharon J. Pitteri
A1  - Qing Zhang
A1  - Samir M. Hanash
T1  - Isoform Analysis of LC−MS/MS Data from Multidimensional Fractionation of the Serum Proteome
JO  - JOURNAL OF PROTEOME RESEARCH
Y1  - 2008
SP  - 2546
EP  - 2552
VL  - 7
IS  - 06
UR  - http://dx.doi.org/10.1021/pr7007219
ER  - 

TY  - JOUR
A1  - Arthur JW
T1  - Identification and characterization of microbial proteins using peptide mass fingerprinting strategies
JO  - Methods Mol Med
Y1  - 2008
SP  - 257
EP  - 70
VL  - 141
IS  - 
UR  - http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=18453094&dopt=Abstract
ER  - 

TY  - JOUR
A1  - Xiuxia Du
A1  - Feng Yang
A1  - Nathan P. Manes
A1  - David L. Stenoien
A1  - Matthew E. Monroe
A1  - Joshua N. Adkins
A1  - David J. States
A1  - Samuel O. Purvine
A1  - David G. Camp
A1  - II
A1  - Richard D. Smith
T1  - Linear Discriminant Analysis-Based Estimation of the False Discovery Rate for Phosphopeptide Identifications
JO  - JOURNAL OF PROTEOME RESEARCH
Y1  - 2008
SP  - 2195
EP  - 2203
VL  - 7
IS  - 06
UR  - http://dx.doi.org/10.1021/pr070510t
ER  - 

TY  - JOUR
A1  - Lee
A1  - Kyoungrim; Lee
A1  - Joo-Woon
T1  - Computational Approaches to Protein-Protein Docking
JO  - Current Proteomics
Y1  - 2008
SP  - 10
EP  - 19
VL  - 5
IS  - 1
UR  - http://dx.doi.org/http://www.ingentaconnect.com/content/ben/cp/2008/00000005/00000001/art00002 
ER  - 

TY  - JOUR
A1  - Rahul Singh
T1  - A review of algorithmic techniques for disulfide-bond determination
JO  - Brief Funct Genomic Proteomic
Y1  - 2008
SP  - 157
EP  - 172; doi:10.1093/bfgp/eln008
VL  - 7
IS  - 2
UR  - http://bfgp.oxfordjournals.org/cgi/content/abstract/7/2/157?etoc
ER  - 

TY  - JOUR
A1  - Crossett B
A1  - Edwards AV
A1  - White MY
A1  - Cordwell SJ
T1  - Statistical analysis of image data provided by two-dimensional gel electrophoresis for discovery proteomics
JO  - Methods Mol Med
Y1  - 2008
SP  - 271
EP  - 85
VL  - 141
IS  - 
UR  - http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=18453095&dopt=Abstract
ER  - 

TY  - JOUR
A1  - Hongying Du
A1  - Xiaoyun Zhang
A1  - Jie Wang
A1  - Xiaojun Yao
A1  - Zhide Hu
T1  - Novel approaches to predict the retention of histidine-containing peptides in immobilized metal-affinity chromatography
JO  - PROTEOMICS
Y1  - 2008
SP  - 2185
EP  - 2195
VL  - 8
IS  - 11
UR  - http://dx.doi.org/10.1002/pmic.200700788
ER  - 

TY  - JOUR
A1  - Lundegaard C
A1  - Lamberth K
A1  - Harndahl M
A1  - Buus S
A1  - Lund O
A1  - Nielsen M
T1  - NetMHC-3.0: accurate web accessible predictions of human, mouse and monkey MHC class I affinities for peptides of length 8-11
JO  - Nucleic Acids Res
Y1  - 2008/05/7
SP  - 
EP  - 
VL  - 
IS  - 
UR  - http://dx.doi.org/10.1093/nar/gkn202
ER  - 

TY  - JOUR
A1  - Lefranc MP
T1  - IMGT((R)), the International ImMunoGeneTics Information System((R) )for Immunoinformatics : Methods for Querying IMGT((R)) Databases, Tools, and Web Resources in the Context of Immunoinformatics
JO  - Mol Biotechnol
Y1  - 2008/05/8
SP  - 
EP  - 
VL  - 
IS  - 
UR  - http://dx.doi.org/10.1007/s12033-008-9062-7
ER  - 

TY  - JOUR
A1  - Justin Newberg and Robert F. Murphy
T1  - A Framework for the Automated Analysis of Subcellular Patterns in Human Protein Atlas Images
JO  - JOURNAL OF PROTEOME RESEARCH
Y1  - 2008
SP  - 2300
EP  - 2308
VL  - 7
IS  - 06
UR  - http://dx.doi.org/10.1021/pr7007626
ER  - 

TY  - JOUR
A1  - Isserlin R
A1  - Emili A
T1  - Interpretation of large-scale quantitative shotgun proteomic profiles for biomarker discovery
JO  - Curr Opin Mol Ther
Y1  - 2008
SP  - 231
EP  - 42
VL  - 10
IS  - 3
UR  - http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=18535930&dopt=Abstract
ER  - 

TY  - JOUR
A1  - Brunetti S
A1  - Lodi E
A1  - Mori E
A1  - Stella M
T1  - PARPST: a PARallel algorithm to find peptide sequence tags
JO  - 
Y1  - 
SP  - 
EP  - 
VL  - 
IS  - 
UR  - http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=18460172&dopt=Abstract
ER  - 

TY  - JOUR
A1  - Lobley AE
A1  - Nugent T
A1  - Orengo CA
A1  - Jones DT
T1  - FFPred: an integrated feature-based function prediction server for vertebrate proteomes
JO  - Nucleic Acids Res
Y1  - 2008/05/7
SP  - 
EP  - 
VL  - 
IS  - 
UR  - http://dx.doi.org/10.1093/nar/gkn193
ER  - 

TY  - JOUR
A1  - Jayapal KP
A1  - Philp RJ
A1  - Kok YJ
A1  - Yap MG
A1  - Sherman DH
A1  - Griffin TJ
A1  - Hu WS
T1  - Uncovering genes with divergent mRNA-protein dynamics in Streptomyces coelicolor
JO  - 
Y1  - 
SP  - 
EP  - 
VL  - 
IS  - 
UR  - http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=18461186&dopt=Abstract
ER  - 

TY  - JOUR
A1  - Brick K
A1  - Pizzi E
T1  - A novel series of compositionally biased substitution matrices for comparing Plasmodium proteins
JO  - 
Y1  - 
SP  - 
EP  - 
VL  - 
IS  - 
UR  - http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=18485187&dopt=Abstract
ER  -