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BBH-LS specifications

Information


Unique identifier OMICS_28744
Name BBH-LS

Taxon


  • Primates
    • Homo sapiens
  • Rodents
    • Mus musculus
    • Rattus norvegicus

Maintainer


This tool is not maintained anymore.

Publication for BBH-LS

BBH-LS citations

 (4)
library_books

Altered expression profiles of microRNA families during de etiolation of maize and rice leaves

2017
BMC Res Notes
PMCID: 5324284
PMID: 28235420
DOI: 10.1186/s13104-016-2367-x

[…] y.cau.edu.cn/PlantGSEA/). Conserved lncRNAs were predicted by the following steps: (1) Identifying ortholog gene pairs that are syntenically conserved across Z. mays, O. sativa and Setaria italica by BBH-LS with default parameters []; (2) aligning the intergenic regions between ortholog gene pair with BLAST setting e-value cutoff to be 1e−6 []; (3) checking if any reads were mapped to this region […]

library_books

Systems analysis of cis regulatory motifs in C4 photosynthesis genes using maize and rice leaf transcriptomic data during a process of de etiolation

2016
J Exp Bot
PMCID: 5014158
PMID: 27436282
DOI: 10.1093/jxb/erw275

[…] y a combination of tools including BBH-LS (), orthoMCL (), Inparanoid (), MSOAR2 (), and the Ensembl database (). The results were organized based on the following principles. First, the results from BBH-LS, which is the most stringent method (), were used as the basis. Second, if a particular ortholog pair was not reported by BBH-LS but was by other methods, we retained the results of the other m […]

library_books

Stringent homology based prediction of H. sapiens M. tuberculosis H37Rv protein protein interactions

2014
Biol Direct
PMCID: 4022245
PMID: 24708540
DOI: 10.1186/1745-6150-9-5

[…] PIs). Therefore when predicting the H. sapiens–M. tuberculosis H37Rv PPIs we only need to identify the prokaryotic homologs between template and targeted species in this situation. We identify, using BBH-LS (strength threshold β≥0.01), the homologs between M.tuberculosis H37Rv and the 10 bacteria from the PATRIC database. Here in this work we use the “consensus score” (the number of supporting tem […]

library_books

Modelling biological systems from molecules to dynamical networks

2012
BMC Syst Biol
PMCID: 3403002
PMID: 23046669
DOI: 10.1186/1752-0509-6-S1-S1

[…] that identifying corresponding genes (orthologs) in different species is an important step in genome-wide comparative analysis. Melvin Zhang and Hon Wai Leong presented a simple yet effective method (BBH-LS) for the identification of positional homologs from the comparative analysis of two genomes and integrated sequence similarity and gene context similarity in order to get more accurate ortholog […]

Citations

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BBH-LS institution(s)
School of Computing, National University of Singapore, Singapore
BBH-LS funding source(s)
Supported in part by the National University of Singapore under ARF Grant R252-000-361-112 and R252-000-461-112.

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