Department of
Email : ali@aliah.ac.in
Address : Clinical and Applied Genomics (CAG) Lab, IIA/27 Aliah University, Newtown Kolkata 700160
Room No : Faculty Room, 8th Floor Left Block
Joined : 20/09/2017
Clinical and Applied Genomics (CAG) Lab
My research groups focus has been viral genomics at three levels. First, the analysis of repeat sequences or microsatellites which are present as a unique signature in each genome. They are distributed ubiquitously across coding and non coding regions and exploring their impact on genome function, regulation and evolution forms the essence of our groups' work. The viral genome provides for an unique candidate for comparative, functional and evolutionary genomics owing to its relatively small size, high mutation rate and rapid evolutionary aspects. The second aspect has been understanding the evolution of emerging pathogens like SARS-CoV-2 and Monkeypox virus through pholo-geo-network analyses and deciphering clinical correlations with sequence alterations at the protein level. Lastly, we are trying to decipher the genome dynamics of satellite viruses.
Further, we are also exploring the interplay of various genetic factors related to hemoglobinopathies, PCOS and arsenic genotoxicity in India.
Students with any valid JRF (DBT/CSIR/UGC/ICMR) interested to join the research journey in our lab can mail their CV.
PhD
PG
UG
Viral Genomics, Evolution and Host Divergence; Clinical Genetics (Hemoglobinopathies, PCOS and Diabetes); Arsenic Genotoxicity
Recent Publications (*Corresponding Author)
2025
Alam SSM, Samanta A, Ali S, Hoque M Structural insights into the impacts of non-synonymous single nucleotide polymorphisms in CD274 gene on the PD-1/PD-L1 interaction: An in silico approach (2025) Biochemical and Biophysical Research Communications DOI 10.1016/j.bbrc.2025.152679. ISSN 1090-2104 IF 2.2
Samanta, A., Karim, A., Ahamed, A, Hassan, MK., Alam SSM, Ali S, Hoque M. Damaging non-synonymous mutations in the extracellular domain of HER2 potentially alter the efficacy of Herceptin-mediated breast cancer therapy (2025) Egypt J Med Hum Genet 26, 149. https://doi.org/10.1186/s43042-025-00775-8 ISSN 2090-2441 IF 1.2
Nasrin T, Hoque M, Ali S. A bibliometric analysis of the Hepatitis D virus and its therapeutic options. (2025) Discover Viruses (In Press) ISSN No 3005-0960
Alam SSM, Mir SA, Samanta A, Nayak B, Ali S, Hoque M. Immunoinformatics based designing of a multi epitope cancer vaccine targeting programmed cell death ligand-1 (2025) Scientific Reports (In Press) ISSN No 2045-2322 IF 3.8
Vishwakarma A, Nasrin T, Hoque M, Ali S*. Elucidating the Microsatellite Signature of the Tri-Partite Genomes of the Viral Family Peribunyaviridae. (2025) Current Microbiology, 82:191. ISSN 1432-0991 IF 2.3 DOI: 10.1007/s00284-025-04177-2
2024
2023
2022
2021
Book Chapters
1. Jilani MG, Hoque M, Ali S (2024) The genetic basis of neurodegenerative disorders: Implications in Alzheimer's disease. Book Title: A New Era in Alzheimer's Research. Elsevier ISBN 9780443155406
2. Hassan MS; Nasrin T; Vishwakarma A; Hoque M, Ali S. (2024) Systems Biology at a Glance. Book Title: Systems Biology and In-Depth Applications for Unlocking Diseases. Elsevier ISBN: 9780443223266
3. Ahamed A; Samanta A; Alam SSM; Jamil Z; Ali S; Hoque M. (2024) High Throughput Data: Single Nucleotide Polymorphisms (SNP) in depth. Book Title: Systems Biology and In-Depth Applications for Unlocking Diseases. Elsevier ISBN: 9780443223266
4. Nasrin T; Hassan MS; Vishwakarma A; Hoque M; Ali S. (2024) Systems Virology. Book Title: Systems Biology and In-Depth Applications for Unlocking Diseases. Elsevier ISBN: 9780443223266
5. Alam SSM; Samana A; Jamil Z; Ali S; Hoque M. (2024) Systems Vaccinology. Book Title: Systems Biology and In-Depth Applications for Unlocking Diseases. Elsevier ISBN: 9780443223266
6. Jamil Z; Ahamed A; Samanta A; Alam SSM; Ali S; Hoque M. (2024) Systems Biology of Cancer. Book Title: Systems Biology and In-Depth Applications for Unlocking Diseases. Elsevier ISBN: 9780443223266
7. Syed Sahajada Mahafujul Alam, Arijit Samanta, Zakia Sultana, Zarnain Jamil, Safdar Ali, Mehboob Hoque (2023) Liposome-based nanomedicines for cancer immunotherapy. Nanomedicine in Cancer Immunotherapy. ISBN 978-0-443-18770-4, DOI: 10.1016/B978-0-443-18770-4.00017-2
8. Zakia Sultana, Zarnain Jamil, Arijit Samanta, Syed Sahajada Mahafujul Alam, Safdar Ali, Mehboob Hoque (2023) Current status, challenges, and future perspectives of nanomedicine-based cancer immunotherapy Nanomedicine in Cancer Immunotherapy ISBN 978-0-443-18770-4, DOI: 10.1016/B978-0-443-18770-4.00015-9
9. Taslima Nasrin, Md Samim Hassan, Arijit Samanta, Mehboob Hoque and Safdar Ali (2023). The historical aspects of the SARS-CoV-2 virus and the ensuing pandemic. Linking Neuroscience and Behavior in COVID-19. https://doi.org/10.1016/B978-0-323-95650-5.00035-5
10. Arijit Samanta, Md Samim Hassan, Taslima Nasrin, Syed Sahajada Mahafujul Alam, Zarnain Jamil, Harpal S. Buttar, Safdar Ali and Mehboob Hoque (2023) Different variants of SARS-CoV-2. Linking Neuroscience and Behavior in COVID-19. https://doi.org/10.1016/B978-0-323-95650-5.00053-7
11. Mirajul Islam, Taslima Nasrin, Arijit Samanta, Safdar Ali, Harpal S. Buttar and Mehboob Hoque (2023) Lateral flow assay for SARS-CoV-2 infection: Uses and limitations. Linking Neuroscience and Behavior in COVID-19. https://doi.org/10.1016/B978-0-323-95650-5.00039-2.
12. Safdar Ali, Sher Ali (2011) Differential Gene Expression and Its Possible Therapeutic Implications. Book Title: Gene Therapy - developments and future perspectives. Edited by Dr. Chunsheng Kang, INTECH Open Access Publisher ISBN 978-953-307-617-1. (1565 Downloads) doi: 10.5772/18932 Citations 2 (Google Scholar)
Degree Awarded
Dr. Md Gulam Jilani (Enrol No BIO181608) Thesis Title: Assessment of Microsatellite as a Potential Biomarker for Viral Evolution and Host Divergence. [Presently working as Assistant Professor, SVIMS, Kolkata]
Dr. Rezwanuzzaman Laskar (Enrol No BIO181607) Thesis Title: Studying the Viral Genome Evolution and its Impact on Viral Proteins of SARS-CoV-2. [Presently working as Post Doctoral Fellow at The Francis Crick Institute, London, UK]
Ongoing
MSc Supervision
Completed Research Projects as Principal Investigator
Resource Person
Completed 2nd Refresher Course in Indian Knowledge Tradition Ethics & Human Values (Interdisciplinary), organized by the MMTTC, Jawaharlal Nehru University from 28 02 2024 to 13 03 2024.
Completed One-Week Online National Faculty Development Program on Cancer Awareness from 21st to 28th August 2023 jointly organized by Indian Cancer Society, Delhi; Delhi School of Public Health, Institute of Eminence, University of Delhi and Guru Angad Dev Teaching Learning Centre, SGTB Khalsa College, University of Delhi under the Pandit Madan Mohan Malaviya National Mission on Teachers and Teaching (PMMMNMTT) of the Ministry of Education, Government of India.
Completed the Online Weeklong Faculty Development Program on Implementation of NEP 2020 in Higher Education Institutions organized by Teaching Learning Centre, Tezpur University during 26 April - 02 May 2023.
Organized
Paper Presentation
Participation
Life Member, Indian Science Congress
Life Member, Indian Biophysical Society
Life Member, World Society of Virology
Editorial Board Member, Scientific Reports, Springer Nature Group
Editorial Board Member, Discover Viruses, Springer Nature Group
Guest Editor, Frontiers in Genetics
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