Domain enhanced lookup time accelerated BLAST. (Q34236167)

31 July 2017

Domain enhanced lookup time accelerated BLAST. (English)

1 reference

31 July 2017

5

David J Lipman

1 reference

31 July 2017

2

Alejandro A Schäffer

1 reference

31 July 2017

Grzegorz M Boratyn

1

1 reference

31 July 2017

Richa Agarwala

series ordinal

3

1 reference

31 July 2017

Stephen F Altschul

series ordinal

4

1 reference

31 July 2017

Thomas L Madden

series ordinal

6

1 reference

31 July 2017

17 April 2012

1 reference

31 July 2017

1 reference

31 July 2017

7

1 reference

31 July 2017

12

1 reference

https://scigraph.springernature.com/pub.10.1186/1745-6150-7-12

31 July 2017

0 references

cites work

Protein sequence alignment with family-specific amino acid similarity matrices

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3438057

CDD: a Conserved Domain Database for the functional annotation of proteins

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3438057

Database resources of the National Center for Biotechnology Information

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3438057

A new generation of homology search tools based on probabilistic inference

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3438057

Sequence context-specific profiles for homology searching

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3438057

Detecting remote homologues using scoring matrices calculated from the estimation of amino acid substitution rates of beta-barrel membrane proteins

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3438057

PSI-BLAST pseudocounts and the minimum description length principle.

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3438057

Protein subfamily assignment using the Conserved Domain Database

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3438057

The identification of complete domains within protein sequences using accurate E-values for semi-global alignment

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3438057

The ASTRAL Compendium in 2004

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3438057

A comparison of position-specific score matrices based on sequence and structure alignments

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3438057

Non-symmetric score matrices and the detection of homologous transmembrane proteins

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3438057

Improving the accuracy of PSI-BLAST protein database searches with composition-based statistics and other refinements

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3438057

IMPALA: matching a protein sequence against a collection of PSI-BLAST-constructed position-specific score matrices

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3438057

Comparison of sequence profiles. Strategies for structural predictions using sequence information

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3438057

Gleaning non-trivial structural, functional and evolutionary information about proteins by iterative database searches

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3438057

Gapped BLAST and PSI-BLAST: a new generation of protein database search programs

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3438057

A protein alignment scoring system sensitive at all evolutionary distances

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3438057

A mutation data matrix for transmembrane proteins

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3438057

Detection of conserved segments in proteins: iterative scanning of sequence databases with alignment blocks

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3438057

SCOP: a structural classification of proteins database for the investigation of sequences and structures

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3438057

Use of the ‘Perceptron’ algorithm to distinguish translational initiation sites inE. coli

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3438057

Computer methods to locate signals in nucleic acid sequences

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3438057

Systematic method for the detection of potential lambda Cro-like DNA-binding regions in proteins.

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3438057

Selection of DNA binding sites by regulatory proteins. Statistical-mechanical theory and application to operators and promoters.

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3438057

Information content of binding sites on nucleotide sequences

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3438057

Profile analysis: detection of distantly related proteins

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3438057

Detecting homology of distantly related proteins with consensus sequences.

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3438057

Improved tools for biological sequence comparison

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3438057

Selection of DNA binding sites by regulatory proteins. II. The binding specificity of cyclic AMP receptor protein to recognition sites

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3438057

Methods for assessing the statistical significance of molecular sequence features by using general scoring schemes

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3438057

Basic local alignment search tool

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3438057

Amino acid substitution matrices from an information theoretic perspective

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3438057

Analysis of periodic patterns in amino acid sequences: collagen

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3438057

PHAT: a transmembrane-specific substitution matrix. Predicted hydrophobic and transmembrane

6 July 2018

1 reference

https://api.crossref.org/works/10.1186%2F1745-6150-7-12

Aligning protein sequence and analysing substitution pattern using a class-specific matrix

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1745-6150-7-12

Periodic distributions of hydrophobic amino acids allows the definition of fundamental building blocks to align distantly related proteins.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1745-6150-7-12

Analysis of gene duplication repeats in the myosin rod.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1745-6150-7-12

Use of receiver operating characteristic (ROC) analysis to evaluate sequence matching.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1745-6150-7-12

Large-scale comparison of protein sequence alignment algorithms with structure alignments

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1745-6150-7-12

Subfamily hmms in functional genomics.

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3438057

Identification of protein sequence homology by consensus template alignment

28 October 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/22510480

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

SABmark--a benchmark for sequence alignment that covers the entire known fold space

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/22510480

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1186/1745-6150-7-12

1 reference

Dimensions Publication ID

31 July 2017

0 references

1 reference

31 July 2017

1 reference