Improving large-scale proteomics by clustering of mass spectrometry data.
by Beer I, Barnea E, Ziv T, Admon A.
Affliation: IBM Haifa Research Lab, Haifa, Israel. beer@il.ibm.com
Journal: Proteomics. 4(4):950-60
Publication Date: Monday, March 29, 2004
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A computational method for assessing peptide- identification reliability in tandem mass spectrometry analysis with SEQUEST.
by Razumovskaya J, Olman V, Xu D, Uberbacher EC, VerBerkmoes NC, Hettich RL, Xu Y.
Affliation: Life Sciences Division, Oak Ridge National Laboratory, TN, USA.
Journal: Proteomics. 4(4):961-9
Publication Date: Monday, March 29, 2004
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Global analysis of bacterial transcription factors to predict cellular target processes.
by Doerks T, Andrade MA, Lathe W, von Mering C, Bork P.
Affliation: EMBL, 69117 Heidelberg, Meyerhofstr 1, Germany. doerks@email.de
Journal: Trends Genet. 20(3):126-31
Publication Date: Monday, March 29, 2004
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The cell-centered database: a database for multiscale structural and protein localization data from light and electron microscopy.
by Martone ME, Zhang S, Gupta A, Qian X, He H, Price DL, Wong M, Santini S, Ellisman MH.
Affliation: Department of Neurosciences, University of California at San Diego, San Diego, CA, USA. mmartone@ucsd.edu
Journal: Neuroinformatics. 1(4):379-95
Publication Date: Friday, March 26, 2004
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Experimentally based topology models for E. coli inner membrane proteins.
by Rapp M, Drew D, Daley DO, Nilsson J, Carvalho T, Melén K, De Gier JW, Von Heijne G.
Affliation: Department of Medical Biochemistry and Biophysics, Karolinska Institutet, SE-171 77 Stockholm, Sweden.
Journal: Protein Sci. 13(4):937-45
Publication Date: Friday, March 26, 2004
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Intermediates and the folding of proteins L and G.
by Brown S, Head-Gordon T.
Affliation: Department of Bioengineering, 472 Donner Laboratory, University of California, Berkeley, Berkeley, CA 94720-1762, USA.
Journal: Protein Sci. 13(4):958-70
Publication Date: Friday, March 26, 2004
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WebQTL: web-based complex trait analysis.
by Wang J, Williams RW, Manly KF.
Affliation: Department of Molecular & Cellular Biology, Roswell Park Cancer Institute, Buffalo, NY, USA.
Journal: Neuroinformatics. 1(4):299-308
Publication Date: Friday, March 26, 2004
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EMAP and EMAGE: a framework for understanding spatially organized data.
by Baldock RA, Bard JB, Burger A, Burton N, Christiansen J, Feng G, Hill B, Houghton D, Kaufman M, Rao J, Sharpe J, Ross A, Stevenson P, Venkataraman S, Waterhouse A, Yang Y, Davidson DR.
Affliation: MRC Human Genetics Unit, Western General Hospital, Crewe Road, Edinburgh, UK. Richard.Baldock@hgu.mrc.ac.uk
Journal: Neuroinformatics. 1(4):309-25
Publication Date: Friday, March 26, 2004
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Informatics center for mouse genomics: the dissection of complex traits of the nervous system.
by Rosen GD, La Porte NT, Diechtiareff B, Pung CJ, Nissanov J, Gustafson C, Bertrand L, Gefen S, Fan Y, Tretiak OJ, Manly KF, Park MR, Williams AG, Connolly MT, Capra JA, Williams RW.
Affliation: Department of Neurology, Division of Behavioral Neurology, Beth Israel Deaconess Medical Center, Harvard Medical School, Boston, MA 02215, USA. grosen@bidmc.harvard.edu
Journal: Neuroinformatics. 1(4):327-42
Publication Date: Friday, March 26, 2004
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The informatics of a C57BL/6J mouse brain atlas.
by MacKenzie-Graham A, Jones ES, Shattuck DW, Dinov ID, Bota M, Toga AW.
Affliation: Laboratory of Neuro Imaging, Department of Neurology, University of California, Los Angeles, CA, USA.
Journal: Neuroinformatics. 1(4):397-410
Publication Date: Friday, March 26, 2004
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Sharing the mighty mouse.
by Shepherd GM.
Affliation: Department of Neurobiology, Yale University School of Medicine, New Haven, CT, USA. gordon.shepherd@yale.edu
Journal: Neuroinformatics. 1(4):411-3
Publication Date: Friday, March 26, 2004
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A thermostable manganese-containing superoxide dismutase from pathogen Chlamydia pneumoniae.
by Yu J, Yu X, Liu J.
Affliation: College of Life Sciences and Technology, Shanghai Jiaotong University, 1954 Hua-shan Road, Shanghai 200030, PR China.
Journal: FEBS Lett. 562(1-3):22-6
Publication Date: Friday, March 26, 2004
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Identification of a novel class of annexin genes.
by Khalaj V, Smith L, Brookman J, Tuckwell D.
Affliation: F2G Ltd., P.O. Box 1, Lankro Way, Eccles, Manchester M30 0BH, UK.
Journal: FEBS Lett. 562(1-3):79-86
Publication Date: Friday, March 26, 2004
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Computational lipidomics: a multiplexed analysis of dynamic changes in membrane lipid composition during signal transduction.
by Forrester JS, Milne SB, Ivanova PT, Brown HA.
Affliation: Department of Pharmacology, Vanderbilt Instituteof Chemichal Biology, Vanderbilt University School of Medicine, Nashville, TN 37232-6600, USA.
Journal: Mol Pharmacol. 65(4):813-21
Publication Date: Friday, March 26, 2004
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Orientational potentials extracted from protein structures improve native fold recognition.
by Buchete NV, Straub JE, Thirumalai D.
Affliation: Department of Chemistry, Boston University, Boston, MA 02215, USA. straub@bu.edu
Journal: Protein Sci. 13(4):862-74
Publication Date: Friday, March 26, 2004
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Prediction of functional sites by analysis of sequence and structure conservation.
by Panchenko AR, Kondrashov F, Bryant S.
Affliation: Computational Biology Branch, NCBI, Bldg. 38A, Rm. 8N805, NIH, Bethesda, MD 20894, USA. panch@ncbi.nlm.nih.gov
Journal: Protein Sci. 03 2004;13(4):884-92
Publication Date: Friday, March 26, 2004
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The human plasma proteome: a nonredundant list developed by combination of four separate sources.
by Anderson NL, Polanski M, Pieper R, Gatlin T, Tirumalai RS, Conrads TP, Veenstra TD, Adkins JN, Pounds JG, Fagan R, Lobley A.
Affliation: The Plasma Proteome Institute, Washington DC 20009-3450, USA. leighanderson@plasmaproteome.org
Journal: Mol Cell Proteomics. 01 2004;3(4):311-26
Publication Date: Friday, March 26, 2004
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How industry is approaching the search for new diagnostic markers and biomarkers.
by Zolg JW, Langen H.
Affliation: Roche Diagnostics GmbH, Centralized Diagnostics, Nonnenwald 2, D-82377 Penzberg, Germany. werner.zolg@roche.com
Journal: Mol Cell Proteomics. 01 2004;3(4):345-54
Publication Date: Friday, March 26, 2004
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Tissue transglutaminase acylation: Proposed role of conserved active site Tyr and Trp residues revealed by molecular modeling of peptide substrate binding.
by Chica RA, Gagnon P, Keillor JW, Pelletier JN.
Affliation: Département de chimie, Université de Montréal, 2900 Edouard-Montpetit, Montréal, Québec, Canada H3C 3J7. joelle.pelletier@umontreal.ca
Journal: Protein Sci. 03 2004;13(4):979-91
Publication Date: Friday, March 26, 2004
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Structure-based assembly of protein complexes in yeast.
by Aloy P, Böttcher B, Ceulemans H, Leutwein C, Mellwig C, Fischer S, Gavin AC, Bork P, Superti-Furga G, Serrano L, Russell RB.
Affliation: European Molecular Biology Laboratory, Structural and Computational Biology Programme, 1, 69117 Heidelberg, Germany.
Journal: Science. 303(5666):2026-9
Publication Date: Friday, March 26, 2004
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