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SilkPathDB specifications

Information


Unique identifier OMICS_16465
Name SilkPathDB
Restrictions to use None
Database management system MySQL, PostgreSQL
Community driven No
Data access File download, Browse
User data submission Allowed
Version 1.0
Maintained Yes

Maintainer


  • person_outline Ze-Yang Zhou

Publication for SilkPathDB

SilkPathDB citations

 (4)
library_books

The Genome of Nosema sp. Isolate YNPr: A Comparative Analysis of Genome Evolution within the Nosema/Vairimorpha Clade

2016
PLoS One
PMCID: 5012567
PMID: 27598992
DOI: 10.1371/journal.pone.0162336

[…] ed using custom PERL scripts written in our lab.The final genome and predicted protein-coding genes for Nosema sp. YNPr are deposited in NCBI (Project PRJNA325422) and the Silkworm Pathogen Database (SilkPathDB, http://silkpathdb.swu.edu.cn/). The Illumina data generated for Nosema sp. YNPr is available in the NCBI SRA (accession number SRR3673305). […]

library_books

The Ordospora colligata Genome: Evolution of Extreme Reduction in Microsporidia and Host To Parasite Horizontal Gene Transfer

2015
MBio
PMCID: 4313915
PMID: 25587016
DOI: 10.1128/mBio.02400-14

[…] For phylogenomic inferences, the microsporidian protein sequences were retrieved from the MicrosporidiaDB (), SilkPathDB (http://silkpathdb.swu.edu.cn/silkpathdb/), and GenBank databases. Orthologous sequences were identified by BLASTP searches at an E value cutoff of 1E-20 using the O. colligata proteins as […]

library_books

Microsporidian Genomes Harbor a Diverse Array of Transposable Elements that Demonstrate an Ancestry of Horizontal Exchange with Metazoans

2014
Genome Biol Evol
PMCID: 4202319
PMID: 25172905
DOI: 10.1093/gbe/evu178

[…] .1), Ham. tvaerminnensis OER-3-3 (ACSZ00000000.1), Nematocida parisii ERTm1 (AEFF00000000.2), Ne. parisii ERTm3 (AEOO00000000.1), Nematocida sp. 1 ERTm2 (AERB00000000.1), Nosema antheraeae YY (http://silkpathdb.swu.edu.cn/silkpathdb/ftpserver, last accessed September 1, 2014), Nosema apis BRL 01 (ANPH00000000.1), Nosema bombycis CQ1 (ACJZ00000000.1), Nosema ceranae BRL01 (NZ_ACOL00000000.1), Sprag […]

library_books

Genome Wide Transcriptional Response of Silkworm (Bombyx mori) to Infection by the Microsporidian Nosema bombycis

2013
PLoS One
PMCID: 3875524
PMID: 24386341
DOI: 10.1371/journal.pone.0084137

[…] e silkworm gene sequences can be retrieved from the Silkworm Genome Database (SilkDB, http://silkworm.swu.edu.cn/silkdb/). The sequence of Nbserpins can be downloaded from Silkworm Pathogen Database (SilkPathDB, http://silkpathdb.swu.edu.cn/silkpathdb/). The microarray data and probe sequences were obtained from the Bombyx mori Microarray Database (BmMDB, http://www.silkdb.org/microarray/). Genes […]

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SilkPathDB funding source(s)
This work was supported by the Natural Science Foundation of China (31472151, 31272504 and 31001036), the National Basic Research Program of China (2012CB114604), the Fundamental Research Funds for the Central Universities (XDJK2015A010).

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