S.No.	Authors	Title	Journal	Volume	Pages	Year
1	#Choudhary, Sahdev#Shanu, Kumari#Hegde, Athrinandan S.#Kesarwani, Veerbhan#Kumar, Raman#shankar, Ravi#Devi, Sarita#Srivatsan, Vidyashankar	Nutritional quality and microbial diversity of Chhurpe from different milk sources: an ethnic fermented food of high-altitude regions of the Western Himalayas	Discover Food	4	10	2024
2	#Singh, Rahul#Bhardwaj, Vijay Kumar#Dolma, Shudh Kirti#Kumar, Sandeep#Reddy, S. G. Eswara#Purohit, Rituraj	Bioactive molecules of Triadica sebifera as eco-friendly antifeedants against Plutella xylostella: a pest management approach	Molecular Systems Design & Engineering	8	1195	2023
3	#Kumar, Pramod#Bhardwaj, Vijay Kumar#Purohit, Rituraj	Unveiling the Intricate Supramolecular Chemistry of γ-Cyclodextrin-Epigallocatechin Gallate Inclusion Complexes	Industrial & Engineering Chemistry Research	63	2544	2024
4	#Sharma, Aakriti#Kaur, Ekjot#Joshi, Robin#Kumari, Pooja#Khatri, Abhishek#Swarnkar, Mohit Kumar#Kumar, Dinesh#Acharya, Vishal#Nadda, Gireesh	Systematic analyses with genomic and metabolomic insights reveal a new species, Ophiocordyceps indica sp. nov. from treeline area of Indian Western Himalayan region	Frontiers in Microbiology	14		2023
5	#Khatri, Abhishek#Thakur, Aman#Lepcha, Ayush#Acharya, Vishal#Kumar, Rakshak	IHM-DB: a curated collection of metagenomics data from the Indian Himalayan Region, and automated pipeline for 16S rRNA amplicon-based analysis (AutoQii2)	Database	2023	baad039	2023
6	#Gupta, Ashish#Purohit, Rituraj	Identification of potent BRD4-BD1 inhibitors using classical and steered molecular dynamics based free energy analysis	Journal of Cellular Biochemistry	125	e30532	2024
7	#Kumar, Neeraj#Acharya, Vishal	Advances in machine intelligence-driven virtual screening approaches for big-data	Medicinal Research Reviews	44	939	2024
8	#Suresh, Patil Shivprasad#Kesarwani, Veerbhan#Kumari, Surekha#Shankar, Ravi#Sharma, Upendra	Flavonoids from aerial parts of Cissampelos pareira L. as antimalarial agents: Computational validation of ethnopharmacological relevance	South African Journal of Botany	163	10	2023
9	#Sharma, Bhanu#Purohit, Rituraj	Structural insights into the lead identification of sub-type selective PDE4B inhibitors from plant bioactive molecule analogues	Journal of Molecular Liquids	390	123039	2023
10	#Gupta, Sagar#Kesarwani, Veerbhan#Bhati, Umesh#Jyoti#Shankar, Ravi	PTFSpot: deep co-learning on transcription factors and their binding regions attains impeccable universality in plants	Briefings in Bioinformatics	25	bbae324	2024
11	#Jyoti#Ritu#Gupta, Sagar#Shankar, Ravi	Comprehensive analysis of computational approaches in plant transcription factors binding regions discovery	Heliyon	10	e39140	2024
12	#Kaur, Ekjot#Acharya, Vishal	Computational prediction of Homo sapiens-Candida albicans protein-protein interactions reveal key virulence factors using dual RNA-Seq data analysis	Archives of Microbiology	207	115	2025
13	#Jose-Santhi, Joel#Sheikh, Firdous Rasool#Kalia, Diksha#Sood, Riya#Kumar, Ravi#Acharya, Vishal#Singh, Rajesh Kumar	Transcriptional dynamics in source-sink tissues identifies molecular factors regulating the corm development process in saffron (Crocus sativus L.)	Physiologia Plantarum	176	e14285	2024
14	#Thakur, Shweta#Punia, Ashwani#Satyakam#Acharya, Vishal#Kumar, Brijesh#Prasad, Amit#Yadav, Sudesh Kumar#Kumar, Rajiv	Bringing bioactive peptides into drug discovery: Challenges and opportunities for medicinal plants	Industrial Crops and Products	222	119855	2024
15	#Nath, Jhilmil#Joshi, Shubham#Gupta, Sagar#Kesarwani, Veerbhan#Shankar, Ravi#Joshi, Rohit	Genome-wide identification of WUSHEL-related homeobox genes reveals their differential regulation during cold stress and in vitro organogenesis in Picrorhiza kurrooa Royle ex Benth.	In Vitro Cellular & Developmental Biology - Plant	60	439	2024
16	#Daroch, Amit#Purohit, Rituraj	MDbDMRP: A novel molecular descriptor-based computational model to identify drug-miRNA relationships	International Journal of Biological Macromolecules	287	138580	2025
17	#Pradhan, Upendra Kumar#Sharma, Nitesh Kumar#Kumar, Prakash#Kumar, Ashwani#Gupta, Sagar#Shankar, Ravi	miRbiom: Machine-learning on Bayesian causal nets of RBP-miRNA interactions successfully predicts miRNA profiles	PLOS ONE	16	e0258550	2021
18	#Sharma, Nitesh Kumar#Gupta, Sagar#Kumar, Ashwani#Kumar, Prakash#Pradhan, Upendra Kumar#Shankar, Ravi	RBPSpot: Learning on appropriate contextual information for RBP binding sites discovery	iScience	24	103381	2021
19	#Kumari, Manglesh#Pradhan, Upendra Kumar#Joshi, Robin#Punia, Ashwani#Shankar, Ravi#Kumar, Rajiv	In-depth assembly of organ and development dissected Picrorhiza kurroa proteome map using mass spectrometry	BMC Plant Biology	21	604	2021
20	#Ritu#Gupta, Sagar#Sharma, Nitesh Kumar#Shankar, Ravi	DeepPlnc: Bi-modal deep learning for highly accurate plant lncRNA discovery	Genomics	114	110443	2022
21	#Rathore, Nikita#Kumar, Prakash#Mehta, Nandita#Swarnkar, Mohit Kumar#Shankar, Ravi#Chawla, Amit	Time-series RNA-Seq transcriptome profiling reveals novel insights about cold acclimation and de-acclimation processes in an evergreen shrub of high altitude	Scientific Reports	12	15553	2022
22	#Bhattacharyya, Paromik#Sharma, Tanvi#Yadav, Abhinandan#Lalthafamkimi, Lucy#Ritu#Swarnkar, Mohit Kumar#Joshi, Robin#Shankar, Ravi#Kumar, Sanjay	De novo transcriptome based insights into secondary metabolite biosynthesis in Malaxis acuminata (Jeevak)–A therapeutically important orchid	Frontiers in Plant Science	13		2022
23	#Suresh, Patil Shivprasad#Kesarwani, Veerbhan#Kumari, Surekha#Shankar, Ravi#Sharma, Upendra	Bisbenzylisoquinolines from Cissampelos pareira L. as Antimalarial Agents: Molecular Docking, Pharmacokinetics Analysis, and Molecular Dynamic Simulation Studies	Computational Biology and Chemistry		107826	2023
24	#Kumar, Neeraj#Acharya, Vishal	Machine intelligence-guided selection of optimized inhibitor for human immunodeficiency virus (HIV) from natural products	Computers in Biology and Medicine	153	106525	2023
25	#Kumar, Neeraj#Acharya, Vishal	Machine intelligence-driven framework for optimized hit selection in virtual screening	Journal of Cheminformatics	14	48	2022
26	#Rattan, Shiv#Kumar, Pankaj#Kaur, Ekjot#Sood, Archit#Acharya, Vishal#Warghat, Ashish R.	Comparative transcriptome and tissue-specific expression analysis of genes reveal tissue-cultured plants as an alternative source for phenylethanoids and phenylpropanoids in Rhodiola imbricata (Edgew.)	Gene	836	146672	2022
27	#Sharma, Meetal#Anand, Prince#Padwad, Yogendra S.#Dogra, Vivek#Acharya, Vishal	DNA damage response proteins synergistically affect the cancer prognosis and resistance	Free Radical Biology and Medicine	178	174	2022
28	#Kumar, Ravi#Khatri, Abhishek#Acharya, Vishal	Deep learning uncovers distinct behavior of rice network to pathogens response	iScience	25		2022
29	#Kumar, Sachin#Bhardwaj, Vijay K.#Singh, Rahul#Das, Pralay#Purohit, Rituraj	Identification of acridinedione scaffolds as potential inhibitor of DENV-2 C protein: An in silico strategy to combat dengue	Journal of Cellular Biochemistry	123	935	2022
30	#kumar Bhardwaj, Vijay#Das, Pralay#Purohit, Rituraj	Identification and comparison of plant-derived scaffolds as selective CDK5 inhibitors against standard molecules: Insights from umbrella sampling simulations	Journal of Molecular Liquids	348	118015	2022
31	#Singh, Rahul#Bhardwaj, Vijay K.#Purohit, Rituraj	Inhibition of nonstructural protein 15 of SARS‐CoV‐2 by golden spice: A computational insight	Cell Biochemistry and Function	40	926	2022
32	#Kumar, Sachin#Bhardwaj, Vijay Kumar#Guleria, Shweta#Purohit, Rituraj#Kumar, Sanjay	Improving the catalytic efficiency and dimeric stability of Cu,Zn superoxide dismutase by combining structure-guided consensus approach with site-directed mutagenesis	Biochimica et Biophysica Acta (BBA) - Bioenergetics	1863	148505	2022
33	#Kumar, Sachin#Bhardwaj, Vijay Kumar#Singh, Rahul#Das, Pralay#Purohit, Rituraj	Evaluation of plant-derived semi-synthetic molecules against BRD3-BD2 protein: a computational strategy to combat breast cancer	Molecular Systems Design & Engineering	7	381	2022
34	#Singh, Rahul#Bhardwaj, Vijay Kumar#Das, Pralay#Bhattacherjee, Dhananjay#Zyryanov, Grigory V.#Purohit, Rituraj	Benchmarking the ability of novel compounds to inhibit SARS-CoV-2 main protease using steered molecular dynamics simulations	Computers in Biology and Medicine	146	105572	2022
35	#Singh, Rahul#Bhardwaj, Vijay Kumar#Das, Pralay#Purohit, Rituraj	Identification of 11β-HSD1 inhibitors through enhanced sampling methods	Chemical Communications	58	5005	2022
36	#Kumar, Ravi#Acharya, Vishal	Deep learning based protocol to construct an immune-related gene network of host-pathogen interactions in plants	STAR protocols	4	101934	2022
37	#Gupta, Sagar#Shankar, Ravi	miWords: transformer-based composite deep learning for highly accurate discovery of pre-miRNA regions across plant genomes	Briefings in Bioinformatics	24	bbad088	2023
38	Gupta, Sagar, Saini, Vishal, Kumar, Rajiv, Shankar, Ravi	Sentences, Words, Attention: A “Transforming” Aphorism for the Discovery of pre-miRNA Regions across Plant Genomes				2022