Modelling proteomes An integrated computational framework for systems biology research Ram Samudrala University of Washington How does the genome of an organism
... David Wishart, Zhiyong Lu, Brett Poulin, Roman Eisner, John Anvik,Cam Macdonell ... my wife, Jen. Contact. http://www.cs.ualberta.ca/~bioinfo/PA. poulin@cs. ...
Title: Transkriptom a proteom Author: fischer Last modified by: fischerl Created Date: 10/8/2003 7:57:34 AM Document presentation format: P edv d n na obrazovce ...
Title: No Slide Title Author: Lukas A. Huber Last modified by: Lukas A. Huber Created Date: 9/5/2001 12:07:00 PM Document presentation format: On-screen Show
Ito et al. (2001) PNAS 98: 4569-4574. Uetz et al. (2000). Nature 403: 623-631 ... Gavin et al. (1999). Nature 415: 141-147. Network of complexes. Gavin et al. (1999) ...
Dr. Hans Briem Einf hrung in die Arzneimittelforschung - Vorlesung WS 2000/2001 ... Cut out individual spots. and determine their. amino acid sequence ...
'My lab would never submit an erroneous sequence...' Krawetz 1987 survey 1 in 300 nt ... Charge vs. size vs. hydrophobicity. Information about the fraction ...
Dr. Hans Briem Einf hrung in die Arzneimittelforschung - Vorlesung WS 2001/2002 ... Cut out individual spots. and determine their. amino acid sequence ...
'Drosophila Proteome Project' Harvard, Berkeley, Cellzome (Heidelberg), TATA Institute ... Tag a protein (cDNA), express, affinity purify protein and associated ...
To know when, where and how much ... To understand the transcriptional and translational regulation of RNA and ... Liquid chromatograph Mass Spectrometry ...
Duane Szafron, Paul Lu, Russell Greiner, David Wishart, ... Eisner, John Anvik,Cam Macdonell, Gary Van Domselaar, Chris Upton, Alona ... Biogenesis ...
Title: Faster, More Sensitive Peptide ID by Sequence DB Compression Last modified by: Nathan John Edwards Created Date: 12/6/2004 12:44:14 AM Document presentation format
What is the importance /function of genes. Can we learn all ... Hydrophobicity. Catalytic, structural, regulatory. Complexes. Dynamic. Arabidopsis. Plant Cell ...
Development & Validation of Biomarkers. Links with Other HUPO Initiatives. Reference Specimens. Technology Platforms--Separation and Identification. Serum vs Plasma ...
Predicting phyico-chemical properties of protein (ProtParam) ... frog A chick A mouse A. mouse B chick B frog B. paralogs. orthologs orthologs. gene duplication ...
Title: Faster, More Sensitive Peptide ID by Sequence DB Compression Last modified by: Nathan John Edwards Created Date: 12/6/2004 12:44:14 AM Document presentation format
Proteins used as an indicator of a specific state (such as a disease) ... Remove plasma, leave cells behind. Serum: Allow blood to clot. Remove supernatant = serum ...
Lecture in the bioinformatics course 'Gene expression and cell models' April 20, 2005 ... Image analysis of 2-D gels ... the measurement of one protein ...
Disease proteomics: androgen-induced effects in prostate cancer ... androgen androgen. Dealing with the data. Data acquisition. Raw data processing ...
These are new technologies - not simple to use or analyse. Robust study design ... Mammoth effort. Could we do the same for proteomics? Less mature technology ...
Time-Of-Flight (TOF) Quadrapole. Ion-Trap. Electron ... Cheap, fast, coding. Single sequencing reads of mRNA. Sequence from. 5' or 3' end. No 'assembly' ...
Brochures, web sites, videos can all be 'content analyzed' for the effectiveness ... Consider your pledge (no tech talk to lay audience) When you explain, focus on ...
MS/MS spectra provide evidence for the amino-acid sequence of functional proteins. ... Post-translational modifications vs. amino-acid substitution ...
Number of proteins searched. Database search parameters. Search engine name and version ... Peak list exports for a variety of formats (MGF, DTA, PKL, etc) ...
Proteomic Characterization of Alternative Splicing and Coding Polymorphism. Nathan Edwards ... Evidence for SNPs and alternative splicing stops with transcription ...
Sub PROTEOMA of roots (adventitious and storage) ... 2-DE gel map at the level of organ (adventitious and storage root) ... Adventitious root. Number of protein ...
Ariel Fern ndez and R. Stephen Berry. PNAS, 2004, (101) 13460-13465 ... Structure-based identification of dehydrons ... dehydron in wild-type human hemoglobin ...
... for management and analysis of large amounts of proteomic data ... database that contains data and technology protocols generated ... for open dates ...
Isoelectric point (pI) Staining. Birds-eye view of protein abundance. 2D Gel-Electrophoresis ... mass spectrometry doesn't discriminate against novel peptides...
A C library for structural annotation of proteins. Integrative Genome ... Viper cluster-BII. Scientific Exchange. Titech (Japan) Condor pool. GridSpeed ...
... better understanding of pathways of melanin synthesis and melanosome biogenesis. ... at different stages of melanosome biogenesis can be identified in combination ...
... of non small cell lung cancer. Interested in lung cancer because: ... increasing lung cancer incidence despite aggressive approaches to treatment and research ...
... von Mering, Ivica Letunic, David Torrents, Mikita Suyama, Richard R. Copley, ... George Dimopoulos, John H. Law, Michael A. Wells, Ewan Birney, Rosane Charlab, ...
Integrated Genomic and Proteomic Analyses of a Systematically Perturbed Metabolic Network ... Included some double mutants and used for epistasis analysis ...
Congestive heart failure. 1IGJ. A Reverse Engineering Approach to ... and tolcapone are used as COMT inhibitors in Parkinson's disease treatment. Hypothesis: ...
2 Division of Biotechnology,Centre of Basic Research, ... 1st Department of Obstetrics & Gynecology, Athens University School of Medicine, Athens, Greece. ...