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ASRP specifications

Information


Unique identifier OMICS_03263
Name ASRP
Alternative name Arabidopsis Small RNA Project
Restrictions to use None
Database management system MySQL
Community driven No
Data access Browse
User data submission Not allowed
Maintained No

Taxon


  • Plants and Fungi
    • Arabidopsis thaliana

Maintainer


This tool is not available anymore.

Publications for Arabidopsis Small RNA Project

ASRP citations

 (8)
library_books

Translational genomics for plant breeding with the genome sequence explosion

2015
Plant Biotechnol J
PMCID: 5042036
PMID: 26269219
DOI: 10.1111/pbi.12449

[…] NA methylation on gene regulation and inheritance enables us to regard them as important genomic resources for crop breeding. Several public RNA‐related databases have been constructed, including the Arabidopsis Small RNA Project Database, the Cereal Small RNAs Database and SoyKb (Table ).The functionally identified genes are valuable resources for translational genomics and crop breeding. The fun […]

library_books

High throughput sequencing of small RNA transcriptomes reveals critical biological features targeted by microRNAs in cell models used for squamous cell cancer research

2013
BMC Genomics
PMCID: 3870990
PMID: 24160351
DOI: 10.1186/1471-2164-14-735

[…] l miRNA database with sequences from databases designated by NRDR [] as containing miRNAs. Sequences from 15 different databases were included [], miRBase [], miRNAMap [], microRNA.org [], Argonaute, ASRP [], CSRDB [], fRNAdb [], ncRNAdb [], NONCODE [], RFAM [], RNAdb [], smiRNAdb [], TarBase [], UCSC Genome Browser human miRNAs []. Similarity search was performed using WU-BLAST v.2.2.6 with the D […]

library_books

Evolution of MicroRNA Genes in Oryza sativa and Arabidopsis thaliana: An Update of the Inverted Duplication Model

2011
PLoS One
PMCID: 3237417
PMID: 22194805
DOI: 10.1371/journal.pone.0028073

[…] cine max, Selaginella moellendorffii, Pinus taeda, Physcomitrella patens and Sorghum bicolor. miRNA expression data of A. thaliana, comprising of three tissues by 454 sequencing, were downloaded from ASRP database. For each miRNA, the mean of these three values were estimated and used. DNA methylation data of A. thaliana were downloaded from Annoj (http://neomorph.salk.edu/epigenome.html). We adop […]

library_books

Expression profile of small RNAs in Acacia mangium secondary xylem tissue with contrasting lignin content potential regulatory sequences in monolignol biosynthetic pathway

2011
BMC Genomics
PMCID: 3333172
PMID: 22369296
DOI: 10.1186/1471-2164-12-S3-S13

[…] particular miRNA family. Following this, the target genes of the identified miRNAs sequences were further validated using two public resources which were miR Base (http://microrna.sanger.ac.uk/) and ASRP (http://asrp.cgrb.oregonstate.edu/). miR Base provides a list of all the mature miRNAs and their precursor sequences in plant species [,]. We further compared all our 12 highly conserved mature m […]

library_books

Analysis of the melon (Cucumis melo) small RNAome by high throughput pyrosequencing

2011
BMC Genomics
PMCID: 3163571
PMID: 21812964
DOI: 10.1186/1471-2164-12-393

[…] wo mismatches. The following databases and sequences were searched: Transfer RNA Database (version 2009) [], Plant Small Nucleolar RNA Database (v1.2) [], SILVA (ribosomal RNA database, v100) [], The Arabidopsis Small RNA Project (ASRP) Database [], Rfam Database 10.0 [], miRBase (release 16) [], The Plant Repeat Database [], Cucumis melo chloroplast genome (unpublished data), Cucumis melo mitocho […]

library_books

Internet Resources for Gene Expression Analysis in Arabidopsis thaliana

2008
Curr Genomics
PMCID: 2691667
PMID: 19506727
DOI: 10.2174/138920208785699535

[…] at, depending on the system analysed, as much as 50% of all genes may be post-transcriptionally regulated []. To learn which Arabidopsis genes are targets for small RNA-mediated mRNA degradation, the Arabidopsis Small RNA Project (ASRP) database can be employed (Table ) []. AthaMap was recently complemented with predicted target sites from an Arabidopsis thaliana small RNA transcriptome screening […]


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ASRP institution(s)
Center for Genome Research and Biocomputing, Oregon State University, Corvallis, OR, USA; Department of Botany and Plant Pathology, Oregon State University, Corvallis, OR, USA; Molecular and Cellular Biology Program, Oregon State University, Corvallis, OR, USA

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