2. Academic Validation
  3. HISTome2: a database of histone proteins, modifiers for multiple organisms and epidrugs

HISTome2: a database of histone proteins, modifiers for multiple organisms and epidrugs

  • Epigenetics Chromatin. 2020 Aug 3;13(1):31. doi: 10.1186/s13072-020-00354-8.
Sanket G Shah 1 2,  Tushar Mandloi 3,  Pooja Kunte 1 4,  Abhiram Natu 1 2,  Mudasir Rashid 1 2,  Divya Reddy 1 2 5,  Nikhil Gadewal 6,  Sanjay Gupta 7 8
Affiliations

Affiliations

  • 1 Epigenetics and Chromatin Biology Group, Gupta Laboratory, Cancer Research Institute, Advanced Centre for Treatment, Research and Education in Cancer, Tata Memorial Centre, Kharghar, Navi Mumbai, MH, 410210, India.
  • 2 Homi Bhabha National Institute, Training School Complex, Anushakti Nagar, Mumbai, MH, 400085, India.
  • 3 Bioinformatics Centre, Advanced Centre for Treatment, Research and Education in Cancer, Tata Memorial Centre, Kharghar, Navi Mumbai, MH, 410210, India.
  • 4 Diabetes Unit, King Edward Memorial Hospital Research Centre, Rasta Peth, Pune, Maharashtra, 411 011, India.
  • 5 Stowers Institute for Medical Research, Kansas City, MO, 64110, USA.
  • 6 Bioinformatics Centre, Advanced Centre for Treatment, Research and Education in Cancer, Tata Memorial Centre, Kharghar, Navi Mumbai, MH, 410210, India. ngadewal@actrec.gov.in.
  • 7 Epigenetics and Chromatin Biology Group, Gupta Laboratory, Cancer Research Institute, Advanced Centre for Treatment, Research and Education in Cancer, Tata Memorial Centre, Kharghar, Navi Mumbai, MH, 410210, India. sgupta@actrec.gov.in.
  • 8 Homi Bhabha National Institute, Training School Complex, Anushakti Nagar, Mumbai, MH, 400085, India. sgupta@actrec.gov.in.
PMID: 32746900 DOI: 10.1186/s13072-020-00354-8
Abstract

Background: Epigenetics research is progressing in basic, pre-clinical and clinical studies using various model systems. Hence, updating the knowledge and integration of biological data emerging from in silico, in vitro and in vivo studies for different epigenetic factors is essential. Moreover, new drugs are being discovered which target various epigenetic proteins, tested in pre-clinical studies, clinical trials and approved by the FDA. It brings distinct challenges as well as opportunities to update the existing HIstome database for implementing and applying enormous data for biomedical research.

Results: HISTome2 focuses on the sub-classification of histone proteins as variants and isoforms, post-translational modifications (PTMs) and modifying Enzymes for humans (Homo sapiens), rat (Rattus norvegicus) and mouse (Mus musculus) on one interface for integrative analysis. It contains 232, 267 and 350 entries for histone proteins (non-canonical/variants and canonical/isoforms), PTMs and modifying Enzymes respectively for human, rat, and mouse. Around 200 EpiDrugs for various classes of epigenetic modifiers, their clinical trial status, and pharmacological relevance have been provided in HISTome2. The additional features like 'Clustal omega' for multiple sequence alignment, link to 'FireBrowse' to visualize TCGA expression data and 'TargetScanHuman' for miRNA targets have been included in the database.

Conclusion: The information for multiple organisms and EpiDrugs on a common platform will accelerate the understanding and future development of drugs. Overall, HISTome2 has significantly increased the extent and diversity of its content which will serve as a 'knowledge Infobase' for biologists, pharmacologists, and clinicians. HISTome2: The HISTone Infobase is freely available on http://www.actrec.gov.in/histome2/ .

Keywords

Enzymes; Epidrugs; Histones; PTMs.

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