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Data released on July 28, 2016

Supporting data for "INC-Seq: accurate single molecule reads using nanopore sequencing"

Boey, E, J; Chng, K; Li, C; Nagarajan, N; Ng, A, H; Wilm, A (2016): Supporting data for "INC-Seq: accurate single molecule reads using nanopore sequencing" GigaScience Database. http://dx.doi.org/10.5524/100208 RIS BibTeX Text

Nanopore sequencing provides a rapid, cheap and portable real-time sequencing platform with the potential to revolutionize genomics. However, several applications are limited by relatively high single-read error rates (>10%), including RNA-seq, haplotype sequencing and 16S sequencing. We developed the Intramolecular-ligated Nanopore Consensus Sequencing (INC-Seq) as a strategy for obtaining long and accurate nanopore reads, starting with low input DNA. Applying INC-Seq for 16S rRNA-based bacterial profiling generated full-length amplicon sequences with a median accuracy >97%. INC-Seq reads enabled accurate species-level classification, identification of species at 0.1% abundance and robust quantification of relative abundances, providing a cheap and effective approach for pathogen detection and microbiome profiling on the MinION system.

Contact Submitter

Related manuscripts:

doi:10.1186/s13742-016-0140-7
doi:10.1186/s13742-016-0140-7

Additional information:

https://github.com/CSB5/INCSeq

Accessions (data included in GigaDB):

BioProject: PRJEB12294

Keywords:

nanopore sequencing rolling circle amplification consensus long and accurate reads 

Genomic

http://gigadb.org/images/data/cropped/100208.jpg

Samples: Table Settings

Columns:

Common Name
Scienfic Name
Sample Attributes
Taxonomic ID
Genbank Name

Sample IDTaxonomic IDCommon NameGenbank NameScientific NameSample Attributes
synthetic - ladder256318metagenome Alternative accession-SRA_sample:ERS1027759
Alternative names:gis-csb5-incseq-2
Description:Ladder community with 10 bacteria.
synthetic - simple256318metagenome Alternative accession-SRA_sample:ERS1028051
Alternative names:gis-csb5-incseq-1
Description:Simple community with 3 bacteria.
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 
DirectoryUNKNOWN404 KB2016-07-17
DirectoryUNKNOWN12 MB2016-07-17
GitHub archivearchive641 KB2016-07-17
imagePNG90 KB2016-07-17
DirectoryTAR1.6 GB2016-07-17
GitHub archivearchive52 KB2016-07-17
DirectoryUNKNOWN17 MB2016-07-17
ReadmeTEXT0.75 KB2016-07-17
tabular dataUNKNOWN13 MB2016-07-17
tabular dataUNKNOWN1.8 MB2016-07-17
Displaying 1-10 of 14 File(s).

History:

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