'Blast search' presentation slideshows

BLAST ( B asic L ocal A lignment S earch T ool)

BLAST ( B asic L ocal A lignment S earch T ool). In addition to the exact word, BLAST considers related words based on BLOSUM62: the neighborhood . Once a word is aligned, gapped and un-gapped extensions are initiated, tallying the cumulative score

1.82k views • 115 slides

UniProtKB

Sandra Orchard. UniProtKB. Importance of reference protein sequence databases. Completeness and minimal redundancy A non redundant protein sequence database, with maximal coverage including splice isoforms, disease variant and PTMs.

746 views • 61 slides

GROUP MEMBERS: MUHAMMAD KHAIRULANWAR IZZAT BIN HUSSIN AC100076

GROUP MEMBERS: MUHAMMAD KHAIRULANWAR IZZAT BIN HUSSIN AC100076 MURNIYANTI BINTI MALIK AC100078 NG SHEE TING AC100079 SCHEE XIN LIN AC100086 AW MEI YEE AC100062. INTRODUCTION. @Ng Shee Ting. INTRODUCTION(cont..).

761 views • 59 slides

Annotation Presentation Week 7

Annotation Presentation Week 7. Enzymatic Function Module (KEGG, MetaCyc, and EC Numbers). Provide contextual information about your gene as component of pathway or cellular structure. Provides information about the class to which an enzyme belongs: oxidoreductases transferases

591 views • 45 slides

Sequence Based Analysis Tutorial

Sequence Based Analysis Tutorial. March 26, 2004 NIH Proteomics Workshop Lai-Su L. Yeh, Ph.D. Protein Science Team Lead Protein Information Resource at Georgetown University Medical Center. Retrieval, Sequence Search & Classification Methods. Retrieve protein info by text / UID

519 views • 38 slides

Classifying the protein universe

Synapse-Associated Protein 97. Classifying the protein universe. Wu et al, 2002. EMBO J 19:5740-5751. Domain Analysis and Protein Families. Introduction What are protein families? Protein families Description & Definition Motifs and Profiles The modular architecture of proteins

523 views • 37 slides

Basics bioinformatics

536 views • 37 slides

Basics bioinformatics

589 views • 37 slides

Sequence Based Analysis Tutorial

Sequence Based Analysis Tutorial. NIH Proteomics Workshop Lai-Su Yeh, Ph.D. Protein Information Resource at Georgetown University Medical Center. Retrieval, Sequence Search & Classification Methods. Retrieve protein info by text / UID Sequence Similarity Search

516 views • 35 slides

BLAST and Psi-BLAST and MSA

BLAST and Psi-BLAST and MSA. Nov. 1, 2012 Workshop-Use BLAST2 to determine local sequence similarities. Homework #6 due Nov 8 Chapter 5, Problem 8 Chapter 6, Problems 1 and 4. What are the different BLAST programs?. blastp

979 views • 30 slides

Local alignment, BLAST and Psi-BLAST

Local alignment, BLAST and Psi-BLAST. October 25, 2012 Local alignment Quiz 2 Learning objectives-Learn the basics of BLAST and Psi-BLAST Workshop-Use BLAST2 to determine local sequence similarities. Homework #6 due Nov 1 Chapter 5, Problem 8 Chapter 6, Problems 1 and 4. Local Alignment.

654 views • 22 slides

MICB 405 Bioinformatics Mini-Lab #2 - BLAST

368 views • 21 slides

Sequence Alignment

Sequence Alignment. Two general methods for sequence alignment:. Global alignment: considers similarity across the full extent of the sequences, e.g. MegAlign Local alignment: focuses on regions of similarity in parts of the sequences only, e.g. BLAST programs. Questions:

288 views • 17 slides

Scc-3

266 views • 12 slides

Searching Sequence Databases

222 views • 8 slides

BLAST

452 views • 8 slides

Sketch the phylogeny, showing all base changes.

Sketch the phylogeny, showing all base changes. 1 ATACCGATAACCGTAGGAACGTGCG. 2 ATACCAATTAGCGTAGGAAGGTACG. 3 ATACCGATTAGCGTAGGAACGTACG. 4 AAATCGATAACCGTAGAAACGTGCG. BLAST Search.

96 views • 3 slides

TOM1 Array

SGN Database. TOM1 Array. Use all spot positions (e.g. 1.2.3.4) to query SGN database, for Unigenes. Predicted protein sequences. Unigene List

136 views • 2 slides

helix1

Additional File 3. Atypical bHLHs from Nelumbo. A. Similar to P1R1 (At5g57780). helix1. helix2. B. Similar to LONESOME HIGHWAY (At2g27230). helix1. helix2. C. Similar to PAR1/ PAR2 (At2g42870/At3g58850). helix1. helix2. D. Similar to KIDARI (At1g26945). helix1. helix2.

109 views • 1 slides

GATC

1) Retrieval of chromosomal locus matched the EST sequence by Blast search. EST sequence (mRNA). AAAAAAAAA. GATC. M. genomic DNA. 2) Search for the nearest Pst I site from MboI site of EST. P. M. 3) Design of the primers from Pst I site to fit defined conditions. P.

144 views • 1 slides