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Items: 1 to 20 of 150

1.

Sequence clustering strategies improve remote homology recognitions while reducing search times.

Li W, Jaroszewski L, Godzik A.

Protein Eng. 2002 Aug;15(8):643-9.

PMID:
12364578
2.
3.

ProClust: improved clustering of protein sequences with an extended graph-based approach.

Pipenbacher P, Schliep A, Schneckener S, Schönhuth A, Schomburg D, Schrader R.

Bioinformatics. 2002;18 Suppl 2:S182-91.

PMID:
12386002
4.

SVM-Fold: a tool for discriminative multi-class protein fold and superfamily recognition.

Melvin I, Ie E, Kuang R, Weston J, Stafford WN, Leslie C.

BMC Bioinformatics. 2007 May 22;8 Suppl 4:S2.

5.
6.

Efficient recognition of protein fold at low sequence identity by conservative application of Psi-BLAST: application.

Stevens FJ, Kuemmel C, Babnigg G, Collart FR.

J Mol Recognit. 2005 Mar-Apr;18(2):150-7.

PMID:
15593246
7.

Profile-based string kernels for remote homology detection and motif extraction.

Kuang R, Ie E, Wang K, Wang K, Siddiqi M, Freund Y, Leslie C.

J Bioinform Comput Biol. 2005 Jun;3(3):527-50.

PMID:
16108083
8.

Protein domain identification and improved sequence similarity searching using PSI-BLAST.

George RA, Heringa J.

Proteins. 2002 Sep 1;48(4):672-81.

PMID:
12211035
9.

Assessment of a rigorous transitive profile based search method to detect remotely similar proteins.

Sandhya S, Chakrabarti S, Abhinandan KR, Sowdhamini R, Srinivasan N.

J Biomol Struct Dyn. 2005 Dec;23(3):283-98.

PMID:
16218755
10.

Improved detection of remote homologues using cascade PSI-BLAST: influence of neighbouring protein families on sequence coverage.

Kaushik S, Mutt E, Chellappan A, Sankaran S, Srinivasan N, Sowdhamini R.

PLoS One. 2013;8(2):e56449. doi: 10.1371/journal.pone.0056449.

11.
12.

Database similarity searches.

Plewniak F.

Methods Mol Biol. 2008;484:361-78. doi: 10.1007/978-1-59745-398-1_24.

PMID:
18592192
13.

Benchmarking PSI-BLAST in genome annotation.

Müller A, MacCallum RM, Sternberg MJ.

J Mol Biol. 1999 Nov 12;293(5):1257-71.

PMID:
10547299
14.

Protein structural similarity search by Ramachandran codes.

Lo WC, Huang PJ, Chang CH, Lyu PC.

BMC Bioinformatics. 2007 Aug 23;8:307.

15.

The POPPs: clustering and searching using peptide probability profiles.

Wise MJ.

Bioinformatics. 2002;18 Suppl 1:S38-45.

PMID:
12169529
16.

BAliBASE 3.0: latest developments of the multiple sequence alignment benchmark.

Thompson JD, Koehl P, Ripp R, Poch O.

Proteins. 2005 Oct 1;61(1):127-36.

18.

ProFAT: a web-based tool for the functional annotation of protein sequences.

Bradshaw CR, Surendranath V, Habermann B.

BMC Bioinformatics. 2006 Oct 23;7:466.

19.

Realm of PD-(D/E)XK nuclease superfamily revisited: detection of novel families with modified transitive meta profile searches.

Knizewski L, Kinch LN, Grishin NV, Rychlewski L, Ginalski K.

BMC Struct Biol. 2007 Jun 20;7:40.

20.

Deciphering a novel thioredoxin-like fold family.

Kinch LN, Baker D, Grishin NV.

Proteins. 2003 Aug 15;52(3):323-31.

PMID:
12866046

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