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GHOSTZ specifications

Information


Unique identifier OMICS_07991
Name GHOSTZ
Software type Package/Module
Interface Command line interface
Restrictions to use None
Output format GHOSTZ outputs search results in the format similar to BLAST-tabular format.
Operating system Unix/Linux
Computer skills Advanced
Version 1.0.0
Stability Stable
Requirements
gcc
Maintained Yes

Versioning


No version available

Maintainer


  • person_outline Yutaka Akiyama

Publication for GHOSTZ

GHOSTZ citations

 (3)
library_books

Genome Sequence of the Freshwater Yangtze Finless Porpoise

2018
Genes
PMCID: 5924555
PMID: 29659530
DOI: 10.3390/genes9040213

[…] pseudogenes in the genome (). The protein sequences predicted from the Yangtze finless porpoise genome were aligned with entries in the Swiss-Prot and TrEMBL databases with E-values < 1 × 10−5 using Ghostz []. We used InterProScan v5.25-64.0 to annotate detected motifs and domains by searching public databases (Pfam, ProDom, SMART, PRINTS, and PANTHER), and the Kyoto Encyclopedia of Genes and Gen […]

library_books

Evolution of Chemosensory Gene Families in Arthropods: Insight from the First Inclusive Comparative Transcriptome Analysis across Spider Appendages

2016
Genome Biol Evol
PMCID: 5381604
PMID: 28028122
DOI: 10.1093/gbe/evw296

[…] larity- and profile-based searches against general big databases, such as the NCBI-nr, very problematic, especially when using the free version of some software suites (e.g., BLAST2GO). Here, we used GHOSTZ instead of BLAST when searching against NCBI-nr, considerably reducing the computational time of the functional annotation step in >100 times, which is a relevant feature when testing assembler […]

library_books

GPU Acceleration of Sequence Homology Searches with Database Subsequence Clustering

2016
PLoS One
PMCID: 4970815
PMID: 27482905
DOI: 10.1371/journal.pone.0157338

[…] To evaluate the search sensitivity of GHOSTZ-GPU, we ran GHOSTZ-GPU, GHOSTZ, RAPSearch (version 2.12), and DIAMOND (version 0.7.9). The sensitivity of the homology search for the different query sequences was estimated using the search re […]


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GHOSTZ institution(s)
Graduate School of Information Science and Engineering, Tokyo Institute of Technology, Tokyo, Japan
GHOSTZ funding source(s)
This work was supported by a Grant-in-Aid for the Japan Society for the Promotion of Science (JSPS) Fellows [Grant number 248766], the Strategic Programs for Innovative Research (SPIRE) Field 1 Supercomputational Life Science of the Ministry of Education, Culture, Sports, Science and Technology (MEXT) in Japan and Cancer Research Development funding from the National Cancer Center, Japan.

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