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Protocols

DRA specifications

Information


Unique identifier OMICS_01027
Name DRA
Alternative name DDBJ Sequence Read Archive
Restrictions to use None
Maintained Yes

DRA citations

 (58)
library_books

Artemisinin Resistant Plasmodium falciparum with High Survival Rates, Uganda, 2014–2016

2018
PMCID: 5875287
PMID: 29553316
DOI: 10.3201/eid2404.170141

[…] Sample Prep Kit (Illumina). We obtained ≈1–1.5 Gb of data per sample, consisting of paired-end reads 100 or 150 bp long by using Illumina instruments (Miseq and Hiseq2000). Data are available at the DDBJ Sequence Read Archive (http://trace.ddbj.nig.ac.jp/dra/index.html) under accession nos. DRA005346, DRA005347, and DRA005348.For comparative analyses, we obtained raw sequence data (fastq files) o […]

library_books

Multiplex PCR Targeted Amplicon Sequencing (MTA Seq): Simple, Flexible, and Versatile SNP Genotyping by Highly Multiplexed PCR Amplicon Sequencing

2018
Front Plant Sci
PMCID: 5876661
PMID: 29628929
DOI: 10.3389/fpls.2018.00201

[…] ural accessions Bd1-1 (SRS190935), Bd3-1 (SRS290395), Bd21-3 (SRP010886), Bd30-1 (SRS190910), BdTR12c (SRS190847), and Koz-3 (SRS190848) described previously (Gordon et al., ) were retrieved from the DDBJ Sequence Read Archive (Table ). The sequence reads were trimmed using Trimmomatic (version 0.32) (Bolger et al., ) with the following settings: -threads 8, -phred33, LEADING: 20, TRAILING: 20, SL […]

library_books

Root Associated Fungi Shared Between Arbuscular Mycorrhizal and Ectomycorrhizal Conifers in a Temperate Forest

2018
Front Microbiol
PMCID: 5858530
PMID: 29593682
DOI: 10.3389/fmicb.2018.00433

[…] much lower than that of forward sequences, only forward sequences were used after removing low-quality 3'-ends using Claident: the sequencing data are available on the DNA Data Bank of Japan (DDBJ) (DDBJ Sequence Read Archive accession; DRA006340). Noisy reads (Tanabe, ) were subsequently discarded and then 2,177,205 ITS and 92,013 rbcL filtered reads were obtained.For the analysis of the ITS reg […]

library_books

Dietary glucoraphanin prevents the onset of psychosis in the adult offspring after maternal immune activation

2018
Sci Rep
PMCID: 5794794
PMID: 29391571
DOI: 10.1038/s41598-018-20538-3

[…] Ingenuity, Redwood City, CA, USA)(http://www.ingenuity.com) and gene set enrichment analysis (GSEA)(http://software.broadinstitute.org/gsea/index.jsp). RNA sequencing data have been deposited to the DDBJ Sequence Read Archive (DRA) and are available at the accession number DRA006055. […]

call_split

Root tip mediated inhibition of hydrotropism is accompanied with the suppression of asymmetric expression of auxin inducible genes in response to moisture gradients in cucumber roots

2018
PLoS One
PMCID: 5764274
PMID: 29324818
DOI: 10.1371/journal.pone.0189827
call_split See protocol

[…] Sample Prep Kit provided by Illumina, San Diego, CA, USA). All RNA-Seq was conducted on an Illumina HiSeq™ 2500. The resulting RNA-Seq data in this article can be found in the DNA Data Bank of Japan (DDBJ) Sequence Read Archive (DRA) under DRA Accession number DRA006032 for cucumber root hydrotropism data and DRA Accession number DRA003914 for cucumber root gravitropism data. After obtaining the s […]

library_books

Guanylate binding protein 1 is a potential new therapeutic target for triple negative breast cancer

2017
BMC Cancer
PMCID: 5688804
PMID: 29115931
DOI: 10.1186/s12885-017-3726-2

[…] November 10, 2016, from legacy database. Cell line RNA-Seq data (accession codes GSE58135 [] and GSE48213 []) were obtained from the Gene Expression Omnibus [] by downloading raw FASTQ files from the DDBJ Sequence Read Archive [] (DRA) or NCBI Sequence Read Archive (SRA) []. FastQC [] was used to evaluate the quality of the reads. Reads presenting a mean quality score below 30 were removed. Those […]


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