Published December 1, 2017 | Version 2
Journal article Open

The Mongo database for the analysis of transcription factor binding site alterations (MANTA)

Authors/Creators

  • 1. University of British Columbia
  • 2. University of Oslo

Description

The MongoDB for the ANalysis of Transcription factor (TF)-binding site (TFBS) Alterations (MANTA) was originally created in 2015 to study the impact of regulatory mutations in B-cell lymphomas (Mathelier et al. 2015). This second release of the database, MANTA2, stores TFBSs predicted in the human genome by combining ChIP-seq regions from ReMap and JASPAR profiles, as well as the potential impact scores for all possible single nucleotide variants (SNVs) at these TFBSs. Specifically, it houses >48 million TFBS predictions for 225 TFs, covering 255,918,025 bp (~8%) of the human genome (hg38). Here we provide a MongoDB dump of MANTA2 comprising the files experiments.bson, experiments.metadata.json, system.indexes.bson, tfbs_snvs.bson, and tfbs_snvs.metadata.json.

Notes

The MANTA2 source code is deposited in GitHub (https://github.com/wassermanlab/MANTA2). Instructions on the installation and usage of MANTA2 are also provided in the GitHub repository. The MANTA2 database can also be accessed via a dedicated web server at http://manta.cmmt.ubc.ca/manta2. Please cite: Fornes, O. et al. MANTA2, update of the Mongo database for the analysis of transcription factor binding site alterations. Sci. Data 5:180141 doi: 10.1038/sdata.2018.141 (2018).

Files

Files (6.6 GB)

Name Size Download all
md5:f3501a9eddff55cb7885e7f9a7f44fd9
6.6 GB Download

Additional details

Related works

Is new version of
10.1186/s13059-015-0648-7 (DOI)
Is part of
10.1038/sdata.2018.141 (DOI)