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AI , Computional Biology and Bio-Informatics Publications by GenterpretR Team

Bioinformatics and Computational Biology
Dr. Sanghamitra Bandyopadhyay .png
Dr. Sanghamitra Bandyopadhyay
Honorary Advisor
Ph.D., Director, Indian Statistical Institute, Kolkata, FNA, FNAE, FNASc, FTWAS, FIAPR, FIEEE 
ujjwal malik.jpg
Dr. Ujjwal Maulik
Honorary Advisor
Prof. Ph.D., Fellow - FNAE, FNASc, FIAPR, FIEEE

1. A. Dey, S. Sen and U. Maulik, “Study of Transcription Factor Druggabilty for Prostate Cancer Using Structure Information Gene Regulatory Networks, and Protein Moonlighting”, Briefings in Bioinformatics, vol. 23(1), 2022

 

2. S. Bose; R. Sur Chowdhury; R. Das; U. Maulik, “Dense Dilated Deep Multiscale Supervised U-Network for Biomedical Image Segmentation”, Computers in Biology and Medicine, vol. 143, Issue C, 2022.

 

3.  A. Dey, S. Sen and U. Maulik, “Unveiling SARS-COV-2 associated Organ Specific Cell Types and Cell Specific Pathway Cascade”, Briefings in Bioinformatics, vol. 22(2), pp. 914-923, 2021. 

 

4. S. Sen, A. Dey, S. Bandyopadhyay, V. N. Uversky and U. Maulik, “Understanding Structural Malleability of the SARS-CoV-2 Proteins and relation to the Comorbidities”, Briefings in Bioinformatics, vol. 22(6), pp. 1-15, 2021

 

5. S. Sen, A. Dey and U. Maulik, “Studying the Effect of Alpha-Synuclein and Parkinson’s Disease Linked Mutants on Inter Pathway Connectivities”, Scientific Reports, vol. 11, Article number: 16365, 2021

 

6. A. Basu, A. Sarkar and U. Maulik, “Molecular docking study of potential phytochemi cals and their effects on the complex of SARS-CoV2 spike protein and human ACE2”, Scientific Reports, 10 (1), 1-15, 2020

 

7.  R. Mitra, X. Chen, E. J Greenawalt, U. Maulik, W. Jiang, Z. Zhao and C. Eischen, “Decoding critical long non-coding RNA in ovarian cancer epithelial-to-mesenchymal transition”, Nature Communications, 8, 1604, 2017

Bioinformatics and Computational Biology
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Dr. Debarka Sengupta
Assoc. Prof., IIIT-Delhi
INSPIRE Faculty Fellow (2016 - 2021)
 

  1. Prashant Gupta, Aashi Jindal, Gaurav Ahuja, Jayadeva*, Debarka Sengupta*, A new deep learning technique reveals the exclusive functional contributions of individual cancer mutations, J Biol Chem. https://doi.org/10.1016/j.jbc.2022.102177
     

  2. Aayushi Mittal, Sanjay Kumar Mohanty, Vishakha Gautam, Sakshi Arora, Sheetanshu Saproo, Ria Gupta, Roshan Sivakumar, Prakriti Garg, Anmol Aggarwal, Padmasini Raghavachary, Nilesh Kumar Dixit, Vijay Pal Singh, Anurag Mehta, Juhi Tayal, Srivatsava Naidu, Debarka Sengupta* & Gaurav Ahuja*, Artificial intelligence uncovers carcinogenic human metabolites, Nature Chem. Bio. https://doi.org/10.1038/s41589-022-01110-7 
     

  3. Krishan Gupta, Princey Yadav, Sidrah Maryam, Gaurav Ahuja*, Debarka Sengupta*, Quantification of Age-Related Decline in Transcriptional Homeostasis, J Mol Biol. 2021 Sep 17;433(19):167179.  https://www.sciencedirect.com/science/article/abs/pii/S0022283621004125?via%3Dihub 
     

  4. Krishan Gupta, Manan Lalit, Aditya Biswas, Chad D. Sanada, Cassandra Greene, Kyle Hukari, Ujjwal Maulik, Sanghamitra Bandyopadhyay, Naveen Ramalingam, Gaurav Ahuja, Abhik Ghosh, Debarka Sengupta*, Modeling expression ranks for noise-tolerant differential expression analysis of scRNA-seq data, Genome Res. 2021 Apr; 31(4): 689–697. https://genome.cshlp.org/content/early/2021/03/05/gr.267070.120 
     

  5. Ria Gupta, Aayushi Mittal, Vishesh Agrawal, Sushant Gupta, Krishan Gupta, Rishi Raj Jain, Prakriti Garg, Sanjay Kumar Mohanty, Riya Sogani, Harshit Singh Chhabra, Vishakha Gautam, Tripti Mishra, Debarka Sengupta, Gaurav Ahuja*, OdoriFy: A conglomerate of artificial intelligence–driven prediction engines for olfactory decoding, J Biol Chem. 2021 Aug;297(2):100956. https://www.sciencedirect.com/science/article/pii/S0021925821007560?via%3Dihub 
     

  6. Krishan Gupta, Sanjay Kumar Mohanty, Aayushi Mittal, Siddhant Kalra, Suvendu Kumar, Tripti Mishra, Jatin Ahuja, Debarka Sengupta*, Gaurav Ahuja*, The Cellular basis of loss of smell in 2019-nCoV-infected individuals, Brief Bioinform. 2021 Mar 22;22(2):873-881. https://academic.oup.com/bib/article/22/2/873/5893433?login=true 
     

  7. Smriti Chawla, Sudhagar Samydurai, Say Li Kong, Zhengwei Wu, Zhenxun Wang, Wai Leong Tam, Debarka Sengupta*, Vibhor Kumar*, UniPath: a uniform approach for pathway and gene-set based analysis of heterogeneity in single-cell epigenome and transcriptome profiles, Nucleic Acids Res. 2021 Feb 22;49(3):e13. https://academic.oup.com/nar/article/49/3/e13/6020193?login=true 
     

  8. Anku Gupta, Mohit Choudhary, Sanjay Kumar Mohanty, Aayushi Mittal, Krishan Gupta, Aditya Arya, Suvendu Kumar, Nikhil Katyayan, Nilesh Kumar Dixit, Siddhant Kalra, Manshi Goel, Megha Sahni, Vrinda Singhal, Tripti Mishra, Debarka Sengupta*, Gaurav Ahuja*, Machine-OlF-Action: A unified framework for developing and interpreting machine-learning models for chemosensory research, Bioinformatics. 2021 Jan 8; btaa1104. https://academic.oup.com/bioinformatics/article/37/12/1769/6070099 
     

  9. Chitrita Goswami, Smriti Chawla, Deepshi Thakral, Himanshu Pant, Pramod Verma, Prabhat Singh Malik, Jayadeva, Ritu Gupta*, Gaurav Ahuja*, Debarka Sengupta*, Molecular signature comprising 11 platelet-genes enables accurate blood-based diagnosis of NSCLC, BMC Genomics. 2020 Oct 27;21(1):744. https://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-020-07147-z 
     

  10. Arvind Iyer, Krishan Gupta, Shreya Sharma, Kishore Hari, Yi Fang Lee, Neevan Ramalingam, Yoon Sim Yap, Jay West, Ali Asgar Bhagat, Balaram Vishnu Subramani, Burhanuddin Sabuwala, Tuan Zea Tan, Jean Paul Thiery, Mohit Kumar Jolly, Naveen Ramalingam*, Debarka Sengupta*, Integrative Analysis and Machine Learning based Characterization of Single Circulating Tumor Cells, J Clin Med. 2020 Apr 22;9(4):1206. https://www.mdpi.com/2077-0383/9/4/1206 
     

  11. Debajyoti Sinha, Pradyumn Sinha, Ritwik Saha, Sanghamitra Bandyopadhyay*, Debarka Sengupta*, Improved dropClust R package with integrative analysis support for scRNA-seq data, Bioinformatics. 2019 Nov 6;btz823. https://academic.oup.com/bioinformatics/article/36/6/1946/5613889 

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