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International Journal of Current Microbiology and Applied Sciences (IJCMAS)
IJCMAS is now DOI (CrossRef) registered Research Journal. The DOIs are assigned to all published IJCMAS Articles.
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National Academy of Agricultural Sciences (NAAS)
NAAS Score: *5.38 (2020)
[Effective from January 1, 2020]
For more details click here

ICV 2019: 96.39
Index Copernicus ICI Journals Master List 2019 - IJCMAS--ICV 2019: 96.39
For more details click here

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Original Research Articles

PRINT ISSN : 2319-7692
Online ISSN : 2319-7706
Issues : 12 per year
Publisher : Excellent Publishers
Email : editorijcmas@gmail.com / submit@ijcmas.com
Editor-in-chief: Dr.M.Prakash
Index Copernicus ICV 2018: 95.39
NAAS RATING 2020: 5.38

Int.J.Curr.Microbiol.App.Sci.2017.6(7): 1580-1586
DOI: https://doi.org/10.20546/ijcmas.2017.607.190


HRE Finder: A Tool for Quarrying Hypoxia-Response Element in Genomic Sequences
Iliyas Rashid1,2, Naresh Sahebrao Nagpure3, Prachi Srivastava2, Ajey Kumar Pathak1*, Ravindra Kumar1, Vishwamitra Singh Baisvar1, Mahender Singh1 and Basdeo Kushwaha1
1Molecular Biology and Biotechnology Division, ICAR- National Bureau of Fish Genetic Resources, Lucknow- 226 002, Uttar Pradesh, India
2AMITY Institute of Biotechnology, AMITY University Uttar Pradesh, Lucknow-226 028,Uttar Pradesh, India
3Fish Genetics and Biotechnology Division, ICAR- Central Institute of Fisheries Education, Mumbai-400 061, Maharashtra, India
*Corresponding author
Abstract:

During hypoxia, the hypoxia inducible factor (HIF) binds to hypoxia-response elements (HRE) and induces the expression of hypoxia-inducible genes (HIG). A functionally active HRE typically contains an adjacent hypoxia ancillary sequence (HAS) in its downstream within the space of 7-15 nt. Here, a computational tool 'HRE Finder' is discussed using an example data set. The tool provides the ability for mining canonical HREs and predicting functional HREs in the upstream region of genes, which can be an indispensable tool for genome-wide analysis and identification of hypoxia inducible genes in vertebrates.


Keywords: Database, Hypoxia inducible factor, Hypoxia response element, Hypoxia, Transcription, Gene, Enhancer, Search algorithm.
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How to cite this article:

Iliyas Rashid, Naresh Sahebrao Nagpure, Prachi Srivastava, Ajey Kumar Pathak, Ravindra Kumar, Vishwamitra Singh Baisvar, Mahender Singh and Basdeo Kushwaha. 2017. HRE Finder: A Tool for Quarrying Hypoxia-Response Element in Genomic Sequences.Int.J.Curr.Microbiol.App.Sci. 6(7): 1580-1586. doi: https://doi.org/10.20546/ijcmas.2017.607.190