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GigaDB specifications


Unique identifier OMICS_20684
Name GigaDB
Restrictions to use None
Community driven No
Data access Browse
User data submission Allowed
Content license CC0 license
Maintained Yes


  • person_outline Christopher Hunter
  • person_outline GigaDB Team

Publications for GigaDB

GigaDB citations


Novel sequences, structural variations and gene presence variations of Asian cultivated rice

Sci Data
PMCID: 5931083
PMID: 29718005
DOI: 10.1038/sdata.2018.79

[…] were sequenced using HiSeq 2000 platform with 500 bp DNA fragment libraries and a total of 17 trillion bases were generated. The sequencing data of the 3,024 rice accessions were freely available at GigaDB (Data Citation 1), NCBI SRA (Data Citation 2), Amazon cloud ( and Aliyun cloud ( We have previously reported […]


Genome Wide Identification, Evolutionary, and Expression Analysis of VQ Genes from Two Pyrus Species

PMCID: 5924566
PMID: 29690608
DOI: 10.3390/genes9040224

[…] Predicted proteomes from P. bretschneideri ( and P. communis ( were selected and downloaded. The VQ motif-containing genes of A. thaliana were obtained from The Arabidopsis Information Resource (TAIR) da […]


Genome Annotation Generator: a simple tool for generating and correcting WGS annotation tables for NCBI submission

PMCID: 5887294
PMID: 29635297
DOI: 10.1093/gigascience/giy018

[…] Snapshots of the software and accompanying files are available from the GigaScience GigaDB database [], and the algorithm is also accessible in the Code Ocean cloud-based computational reproducibility platform [] […]


Piggy: a rapid, large scale pan genome analysis tool for intergenic regions in bacteria

PMCID: 5890482
PMID: 29635296
DOI: 10.1093/gigascience/giy015

[…] ailable from the NCBI. The E. coli ST131 dataset was from a previously published study [] and is available at []. An archival copy of the Piggy source code is available via the GigaScience repository GigaDB []. […]


Mammalian genomic regulatory regions predicted by utilizing human genomics, transcriptomics, and epigenetics data

PMCID: 5838836
PMID: 29618048
DOI: 10.1093/gigascience/gix136

[…] ction from the CSIRO BitBucket []. These codes can be used to perform all steps from mapping to filtering and scoring regulatory SNPs. Supporting data are also available via the GigaScience database, GigaDB [].All human databases used for prediction are publically available (). Results of predicted regulatory regions, including the Universal Datasets and the Filtered Datasets for cattle and pig, a […]


The invasive MED/Q Bemisia tabaci genome: a tale of gene loss and gene gain

BMC Genomics
PMCID: 5778671
PMID: 29357812
DOI: 10.1186/s12864-018-4448-9

[…] Data from two recently published B.tabaci genomes data set, MEAM1/B,, v1, [] and MED/Q, [] were downloaded. In order to study the syntenic blocks between these two sequences, an alignment of MED/Q and MEAD1/B draft assemblies in fa […]


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GigaDB institution(s)
Department of Genetics, Stanford University, CA, USA; GigaScience team, BGI HK Research Institute, Tai Po Industrial Estate, Hong Kong, China
GigaDB funding source(s)
Supported the BGI HK Research Institute and the China National Gene Bank (CNGB).

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