"Structural and functional analysis of disordered regions in unbound and bound protein-protein and protein-nucleic acid complexes" - DST Start up grant of 21.16 lakhs
Teachings
BTech:
BTC01 Life Science
BTC601 Bioinformatics
BTS652 Bioinformatics Laboratory
BTE719 Molecular Modelling and Drug Design
BTS754 Vocational Training /Summer Internship and Seminar
MTech:
BT2001 Genomics, Proteomics and Bioinformatics
BT2053 Omics & Bioinformatics Laboratory
MSc:
BT2101 Omics & Bioinformatics
BT2151 Omics & Bioinformatics Laboratory
BT9115 Programming for Biologists
UG / PG Students
Prakriti Singh
Prakriti Singh
Prerna Jha
Prerna Jha
Shishodiya Akash
Shishodiya Akash
Santam Roy Choudhury
Santam Roy Choudhury
Sagnik Pal
Sagnik Pal
Ananya Ayaskant
Ananya Ayaskant
Paramveer Yadav
Pursuing PhD at IIT Guwahati
Paramveer Yadav
Pursuing PhD at IIT Guwahati
Madhabendra Mohan Kar
Madhabendra Mohan Kar
Srijini Pal
Srijini Pal
Menakha T
MTech (Completed)
Menakha T
MTech (Completed)
Buti Singh
Buti Singh
Akash Chowbey
Akash Chowbey
Bharath Raj
Bharath Raj
Ankit Kumar
Ankit Kumar
Shatakshi Bhattacherjee
Pursuing PhD at IIT Delhi
Shatakshi Bhattacherjee
Pursuing PhD at IIT Delhi
Debnath Kayal
BTech (Completed)
Study of physico-chemical features of bacterial small non-coding RNAs
Debnath Kayal
BTech (Completed)
Study of physico-chemical features of bacterial small non-coding RNAs
Nisha Bharti
BTech (Completed)
Analysis of binding interfaces in RNA binding proteins of bacteria
Nisha Bharti
BTech (Completed)
Analysis of binding interfaces in RNA binding proteins of bacteria
Doctoral Students
Prachi Bhargava
PhD
Prachi Bhargava
PhD
Projects
Sl.No.
Title
Name of the PI
Name of the CoPIs
Funding Agency
Amount (Rs.)
Project Type
Project Status
Date of Initiation
Date of Completion
1
Structural and functional analysis of disordered regions in unbound and bound protein-protein and protein-nucleic acid complexes
Barik A.
NA
DST-SERB
2,116,000
Sponsored
Completed
2021
2023
Projects
Sl.No.
Title
Name of the PI
Name of the CoPIs
Funding Agency
Amount (Rs.)
Project Type
Project Status
Date of Initiation
Date of Completion
1
Structural and functional analysis of disordered regions in unbound and bound protein-protein and protein-nucleic acid complexes
1. DEPICTER: intrinsic disorder and disorder function prediction server (Link) Amita Barik; Akila Katuwawala; Jack Hanson; Kuldip Paliwal; Yaoqi Zhou; Lukasz Kurgan Journal of Molecular Biology
432: 3379-3387
SCI
NA
2019
2017
2. A comparative study of sequence- and structure- based features of small RNAs and other RNAs of bacteria. (Link) Amita Barik , Santasabuj Das RNA Biology
15:95-103
SCI
Taylor and Francis
2017
2015
3. A repressor activator protein1 homologue from an oleaginous strain of Candida tropicalis increases storage lipid production in Saccharomyces cerevisiae. (Link) Atrayee Chattopadhyay , Prabuddha Dey , Amita Barik , Ranjit P Bahadur , Mrinal K Maiti FEMS Yeast Research
15:1-11.
SCI
NA
2015
2015
4. Molecular architecture of protein-RNA recognition sites. (Link) Amita Barik, Nithin C, Smita P. Pilla & Ranjit Prasad Bahadur Journal of Biomolecular Structure and Dynamics
33:2738-2751.
SCI
NA
2015
2015
5. Probing binding hot spots at protein-RNA recognition sites. (Link) Amita Barik, Chandran Nithin, Naga Bhushana Rao Karampudi, Sunandan Mukherjee, Ranjit Prasad Bahadur Nucleic Acids Research
44:1-9
SCI
NA
2015
2014
6. Hydration of protein-RNA recognition sites.(Link) Amita Barik, Ranjit Prasad Bahadur Nucleic Acids Research
42:10148–10160.
SCI
NA
2014
2012
7. A protein-RNA docking benchmark (I): nonredundant cases. (Link) Amita Barik, Nithin C, Manasa P, Ranjit Prasad Bahadur Proteins: Structure, Function and Bioinformatics
80:1866–1871.
SCI
NA
2012
2012
8. PRince: a web server for structural and physicochemical analysis of Protein-RNA interface. (Link) Amita Barik, Abhishek Mishra, Ranjit Prasad Bahadur Nucleic Acids Research
40:W440–W444.
SCI
NA
2012
2011
9. Identification of single exon genes and their encoded proteins in rice (Oryza sativa L.) genome: an in silico approach. (Link) Ashutosh Kumar, Amita Barik, Megha Kumari, Ambarish S. Vidyarthi, Dev Mani Pandey International Journal of Bioinformatics Research and Applications
7:376-389
SCI
Inderscience
2011
Conferences
ID
Details
Year
2020
1.Ghadermarzi S, Katuwawala A, Oldfield CJ, Barik A, & Kurgan L. Disordered Function Conjunction: On the in-silico function annotation of intrinsically disordered regions. Pacific Symposium on Biocomputing (3rd-7th Jan, 2020).
Hawaii, USA
2020
2020
2.DEPICTER: A center for predictors of disordered regions and their functions by Barik A, Katuwawala A and Kurgan L. Poster presented in the 12th Young Investigators' Meeting (YIM) 2020 (14th-18th Feb 2020).
Mahabalipuram, Chennai
2020
2019
3.Prediction of small RNAs in bacteria and deciphering their interactions with proteins by Sengupta P and Barik A. Poster presented in Advances in Computational Biology Conference, Fostering Collaboration among Women Scientists (28th- 29th Nov, 2019).
Barcelona, Spain
2019
2019
4.Computational analysis of protein-RNA interactions by Barik A and Bahadur RP. Poster presented in “ Young Scientists’ Conference” (5th-7th, Nov 2019).
Biswa Bangla Convention Centre, Kolkata
2019
2015
5.Probing binding hot spots at protein-RNA recognition sites by Barik A, Nithin C, Rao KNB and Bahadur RP. Poster presented in “National Symposium on Biophysics & Golden Jubilee Meeting of Indian Biophysical Society” (14th -17th Feb 2015).
Jamia Millia Islamia, New Delhi
2015
2014
6.A comprehensive analysis of hydration of protein-RNA recognition sites by Barik A & Bahadur RP. Poster presented in “Annual Conference of Indian Biophysical Society entitled Molecular Architecture, Dynamics and Assembly in Living Systems” (7th-10th Feb 2014).
Saha Institute of Nuclear Physics, Kolkata
2014
2013
7.PRince: a web server for structural and physicochemical analysis of Protein-RNA interface by Barik A, Mishra A & Bahadur RP. Poster presented in “100th Indian Science Congress” (3rd -7th Jan 2013).
Kolkata
2013
2013
8.A structural analysis of protein-RNA interactions: Development of docking benchmark and implementation of PRince webserver by Barik A, Nithin C, Manasa P, Mishra A & Bahadur RP. Poster presented in “International Conference on Biomolecular Forms and Functions-A celebration of 50 years of the Ramachandran Map” (8th -11th Jan 2013).
IISC Bangalore
2013
2011
9.A protein-RNA docking benchmark. Barik A, Nithin C, Manasa P & Bahadur RP. Poster presented in “International Interdisciplinary Science Conference 2011” (15th -17th Nov 2011).
Jamia Millia Islamia, New Delhi
2011
Books
ID
Title
Barik A & Kurgan L (2019) A comprehensive overview of sequence-based protein-binding residue predictions for structured and disordered regions in “Protein Interactions: Computational Methods, Analysis and Applications” pp 33-49, World Scientific Pub Co., Editor: M Michael Gromiha ISBN-13: 978-9811211867 (Link).
1.
Barik A & Kurgan L (2019) A comprehensive overview of sequence-based protein-binding residue predictions for structured and disordered regions in “Protein Interactions: Computational Methods, Analysis and Applications” pp 33-49, World Scientific Pub Co., Editor: M Michael Gromiha ISBN-13: 978-9811211867 (Link).
Patents
ID
Details
Patent Filed Year
Awards and Recognitions
Utkal University Topper in Botany Hons. (2004-2007).
National Eligibility Test for Lectureship (NET), jointly conducted by Council of Scientific and Industrial Research and University Grant Commission, India, December-2008.
Graduate Aptitude Test in Engineering (GATE)-2009 with 99.52 Percentile and All India Rank - 61.
1st rank in M.Sc. Bioinformatics-2009 at Birla Institute of Technology, Mesra, Ranchi.
Council of Scientific and Industrial Research (CSIR)- Senior Research Fellowship, 2013-2014.
Nominated for INSA Young Scientist’s award, 2020, 2022.
BIRD Award 2023.
Administrative Responsibilities
Warden of Hall 13- Sarojini Naidu Hall of Residence (2019-2022).
Warden of Hall 6- Rishi Aurobindo Hall of Residence (2023-2024).
ERP