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Data released on February 21, 2013

Raw data, assembly and annotation results for: “Ultra-deep sequencing enables high-fidelity recovery of biodiversity for bulk arthropod samples without PCR amplification”

Fu, R; Li, J; Li, Y; Liu, S; Su, X; Tang, M; Yang, Q; Zhou, L (2013): Raw data, assembly and annotation results for: “Ultra-deep sequencing enables high-fidelity recovery of biodiversity for bulk arthropod samples without PCR amplification” GigaScience Database. http://dx.doi.org/10.5524/100045 RIS BibTeX Text

The following data comes from the study “Ultra-deep sequencing enables high-fidelity recovery of biodiversity for bulk arthropod samples without PCR amplification”, which is the first systematic meta-barcoding study sequencing the total DNA from insect communities independent of PCR amplification. Following mitochondrial enrichment using differential centrifugation, a preliminary sample and a formal sample are achieved respectively with 2.2G and 13.2G from the Illumina HiSeq 2000 platform using 100 bp paired-end (PE) sequencing, following manufacturer’s instructions. The data was assembled using SOAPdenovo2 and annotated using the MT_annotation_BGI pipeline (tools and pipelines available here: doi:10.5524/100046). Further details are available in the published paper and the metadata provided in the MIMS formatted table.

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Related manuscripts:

doi:10.1186/2047-217X-2-4 (PubMed: 23587339)

Related datasets:

doi:10.5524/100045 IsSupplementedBy doi:10.5524/100046

Accessions (data included in GigaDB):

SRA: SRA067357

Genomic

http://gigadb.org/images/data/cropped/100045_NGS_Biodiversity.jpg

Samples: Table Settings

Columns:

Common Name
Scienfic Name
Sample Attributes
Taxonomic ID
Genbank Name

Sample IDTaxonomic IDCommon NameGenbank NameScientific NameSample Attributes
FormalSample6656ArthropodsarthropodsArthropoda
PreliminarySample6656ArthropodsarthropodsArthropoda
Displaying 1-2 of 2 Sample(s).

Files: (FTP site) Table Settings

Columns:

File Description
Sample ID
File Type
File Format
Size
Release Date
Download Link
File Attributes

File NameSample IDFile TypeFile FormatSizeRelease Date 
FormalSampleSequence assemblyFASTA41.24 MB2013-02-21
PreliminarySampleSequence assemblyFASTA3.4 MB2013-02-21
OtherEXCEL30 KB2013-02-21
FormalSampleAnnotationGFF122.68 KB2013-02-21
PreliminarySampleAnnotationGFF68.89 KB2013-02-21
ReadmeTEXT0.51 KB2013-02-21
FormalSampleGenome sequenceFASTQ5.48 GB2013-02-21
PreliminarySampleGenome sequenceFASTQ823.21 MB2013-02-21
Genome sequenceFASTQ5.51 GB2013-02-21
PreliminarySampleGenome sequenceFASTQ815.49 MB2013-02-21
Displaying 1-10 of 10 File(s).

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