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Lecture23 - Bioinformatics Data Sources Lecture 23...

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Lecture 23: Proteomics and Mass Spectrometry § Overview of Proteomics § Mass Spectrometry Technology § Ionization Sources • MALDI • Electrospray Ionization (ESI) § Mass Analyzers • Time of Flight (TOF) Adapted from slides originally created by Dr. James Bruce Genomics : Collection of genome sequence info Transcriptomics : Collection of gene expression info (mRNA levels) Proteomics : Collection of protein information Other ‘omics’: metabolomics, interactomics, phenomics….. Bioinformatics Data Sources Why do we need proteomics? We know the genome We can measure transcriptome (gene expression) What is left? Alternative splicing: One gene can produce more than one protein Promoter Open reading frame (ORF) ATG Stop .... exon intron GT AG RNA mRNA #1 AAAAAA mRNA #2 Transcription Splicing Alternative Splicing AAAAAA
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One protein can have several functional roles Function resultant from protein complexes Proteins can be posttranslationally modified Function #1 Function #2 Function #1 Function #2 Complex #1 Complex #2 Additionally, protein expression may or may not be well represented by gene expression measurements Post-translational modifications and protein-protein interaction information not inherent in genome or transcriptome. Need to make measurements at protein level What are the challenges of proteomics? Information content much more complex No Watson-Crick pairing for proteins Limited prediction of specific binding One protein may participate in many complexes (functional roles) Proteins each have characteristic physical properties 6.5 % 99.1326
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