Teórica 3

Búsquedas de secuencias en bases de datos

Algoritmos heurísticos de búsqueda de secuencias similares en bases de datos. BLAST. FASTA.

Estadística de las búsquedas y significancia de los hits y alineamientos identificados. E-values, distribución de valores extremos.

Bioinformatics (2020). Edited by Baxevanis, Bader, Wishart. 4^th Edition, Wiley. Hay copia en el laboratorio de Bioinformática (IIB)
The Statistics of Sequence Similarity Scores
Karlin S, Altschul SF. Methods for assessing the statistical significance of molecular sequence features by using general scoring schemes (1990). Proc Natl Acad Sci U S A. 87(6):2264-8. doi: 10.1073/pnas.87.6.2264. PMID: 2315319; PMCID: PMC53667.
Pearson WR, Lipman DJ. Improved tools for biological sequence comparison (1988). Proc Natl Acad Sci U S A. 85(8):2444-8. doi: 10.1073/pnas.85.8.2444. PMID: 3162770; PMCID: PMC280013.
Selecting the Right Similarity-Scoring Matrix. Pearson, W. R. (2013) Curr. Prot. Bioinformatics Chapter 3: Unit 3.5
Having a BLAST with bioinformatics (and avoiding BLASTphemy). Pertsemlidis, A., Fondon, J.W. (2001) Genome Biol 2, reviews2002.1
An Introduction to Similarity ("Homology") Searching. Pearson, W. R. (2013) Curr. Prot. Bioinformatics Chapter 3: Unit 3.1
The FASTA package of programs (W. R. Pearson and D. J. Lipman (1988)
Download BLAST Software and Databases (NCBI)
A Novel algorithm for identifying low-complexity regions in a protein sequence. Xuehui Li, Tamer Kahveci (2006) Bioinformatics 22: 2980--2987
Software to detect low complexity regions