Mountain View
biomedical and healthCAre Data Discovery Index Ecosystem
help Advanced Search
Title: Supporting data for "Calculating quality of public high-throughput sequencing data to obtain suitable subset for reanalysis from the Sequence Read Archive"      
dateReleased:
04-17-2017
privacy:
not applicable
aggregation:
instance of dataset
dateCreated:
04-17-2017
refinement:
curated
ID:
doi:10.5524/100304
creators:
,
Nakazato, Takeru
Bono, Hidemasa
availability:
available
types:
sequence
description:
It is important for public data repositories to promote the reuse of archived data. In the growing field of omics science, however, the increasing number of submissions of high-throughput sequencing (HTSeq) data to public repositories prevents users from choosing a suitable data set from among the large number of search results. Repository users need to be able to set a threshold to reduce the number of results to obtain a suitable subset of high-quality data for reanalysis. We calculated the quality of sequencing data archived in a public data repository, the Sequence Read Archive (SRA), by using the quality control software FastQC. We obtained quality values for 1,171,313 experiments, which can be used to evaluate the suitability of data for reuse. We also visualized the data distribution in SRA by integrating the quality information and metadata of experiments and samples. We provide quality information of all of the archived sequencing data which enable users to obtain sufficient quality sequencing data for reanalyses. The calculated quality data are available to the public in various formats. Our data also provide an example of enhancing the reuse of public data by adding metadata to published research data by a third party.
accessURL: https://doi.org/10.5524/100304
storedIn:
GigaScience Database
qualifier:
not compressed
format:
HTML
accessType:
landing page
primary:
true
authentication:
none
authorization:
none
abbreviation:
GigaDB
homePage: http://gigadb.org/
ID:
SCR:006565
name:
Giga Science Database

Feedback?

If you are having problems using our tools, or if you would just like to send us some feedback, please post your questions on GitHub.