'Protein database' diaporamas de présentation

Protein Database

Protein Database. David Shiuan Department of Life Science Institute of Biotechnology Interdisciplinary Program of Bioinformatics National Dong Hwa University. Proteome Bioinformatics/Databases. 1. Protein sequence databases

1.82k views • 76 slides

Protein sequence databases

550 views • 38 slides

BLAST

BLAST. B asic L ocal A lignment S earch T ool developed at NCBI by Altschul and collaborators also uses matching of words to table for each sequence as starting point uses a quantitative cutoff rather than strict identity.

472 views • 37 slides

Introduction to Programming for Biology

Introduction to Programming for Biology. ???. Discussing & Grading. Project Select a direction: Gene finding, DNA Sequence alignment, Cluster Write a program for your problem Schedule 8 th week: the direction and the first progress report 18 th week: final progress report.

553 views • 36 slides

Sequence based searching

427 views • 28 slides

Welcome to the Protein Database Tutorial

Welcome to the Protein Database Tutorial. This tutorial will describe how to navigate the section of Gramene that provides collective information on proteins from grasses (family Poaceae/Gramineae) . The protein entries are annotated by associating the following ontology concepts if known:

396 views • 21 slides

PlantGDB: Annotation Principles & Procedures

PlantGDB: Annotation Principles & Procedures. Genome Annotation. Computational gene modeling Ab initio approaches (Markov models) Spliced alignment Constrained gene prediction. GeneSeqer. Genomic Sequence. Fast Search. Spliced Alignment. EST or protein database

319 views • 18 slides

In-Gel Digestion Why In-Gel Digest? Difficult / impossible to extract intact proteins from the gel

1.07k views • 17 slides

Lauren Ivey Laura McCoy

Characterization of Resveratrol Binding Sites in ATP Synthase Through Molecular Analysis of Candidate Subunits. Lauren Ivey Laura McCoy. Resveratrol. Polyphenol found in most plants at varying quantities Grapes, blueberries, tomatoes, corn

306 views • 17 slides

In-Gel Digestion Why In-Gel Digest? Difficult / impossible to extract intact proteins from the gel

405 views • 17 slides

Entrez

Entrez. Global Query Cross-Database Search System. Basics. Location: http://www.ncbi.nlm.nih.gov/ Entrez is connected to 23 databases which are part of the National Center for Biotechnology (NCBI) A single search ran on the main page will search all of databases simultaneously

1.13k views • 16 slides

Welcome to the Protein Database Tutorial.

Welcome to the Protein Database Tutorial. This tutorial will describe how to navigate the section of Gramene that provides collective information on proteins from rice ( Oryza sp.) . The protein entries are annotated by associating the following three concepts of Gene Ontology (GO) :

363 views • 16 slides

Searching the NCBI Databases

Searching the NCBI Databases. Search for CFTR[gene] in the Protein database. What is it?. Limit to genes in human only CFTR[gene] AND human[orgn]. How many?. Restrict to RefSeq. How many?. RefSeq records can also be filtered using the Limits tab. Examine the NP_000483 record

282 views • 14 slides

Predicting protein stability changes from sequences using support vector machines

251 views • 13 slides

The European Bioinformatics Institute (EBI) Toolbox ebi.ac.uk/Tools/

The European Bioinformatics Institute (EBI) Toolbox http://www.ebi.ac.uk/Tools/. Julie Pellegrini Introduction to Bioinformatics. What does the Toolbox include?. Homology and Similarity Programs Protein Functional Analysis Structural Analysis Sequence Analysis

378 views • 12 slides

The European Bioinformatics Institute (EBI) Toolbox ebi.ac.uk/Tools/

The European Bioinformatics Institute (EBI) Toolbox http://www.ebi.ac.uk/Tools/. Julie Pellegrini Introduction to Bioinformatics. What does the Toolbox include?. Homology and Similarity Programs Protein Functional Analysis Structural Analysis Sequence Analysis

350 views • 12 slides

Introduction to Practical 1 Biological databases

322 views • 12 slides

EMBOSS (2)

EMBOSS (2). Dinesh Gupta ICGEB. Exercises. Are you able to run tfm ? Can you find a program to: Display multiple alignments. Find ORFs (Open Reading Frames). Translate a sequence. Find restriction enzyme sites Find the isoelectric point of a protein. Do global alignments.

231 views • 6 slides

MS/MS Data

MS/MS Data. Protein Database. Sipros configurations: Peptide/Protein identification Post-translational modification Amino acid mutation Stable isotope probing. Database searching MPI/OpenMP. Sipros. Filtering/Assembly. ProRata configurations: Label-free quantification

183 views • 2 slides

2 DGE

MALDI TOF-TOF. Digest Complex Protein Mixture. Protein Spot In-gel Digestion. MDLC. 2 DGE. MS/MS Spectra. Allow for PTM. In-House MASCOT Search ( Macaca Mulatta ). Protein ID. No PTM. Deconvolute. No PTM. De novo Sequence. PEAKS De novo. No Protein ID. Allow for PTM.

168 views • 1 slides