S.No.	Authors	Title	Journal	Volume	Pages	Year
1	#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
2	#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
3	#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
4	#Ritu#Gupta, Sagar#Sharma, Nitesh Kumar#Shankar, Ravi	DeepPlnc: Bi-modal deep learning for highly accurate plant lncRNA discovery	Genomics	114	110443	2022
5	#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
6	#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
7	#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
8	#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
9	#Kumar, Neeraj#Acharya, Vishal	Machine intelligence-driven framework for optimized hit selection in virtual screening	Journal of Cheminformatics	14	48	2022
10	#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
11	#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
12	#Kumar, Ravi#Khatri, Abhishek#Acharya, Vishal	Deep learning uncovers distinct behavior of rice network to pathogens response	iScience	25		2022
13	#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
14	#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
15	#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
16	#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
17	#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
18	#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
19	#Singh, Rahul#Bhardwaj, Vijay Kumar#Das, Pralay#Purohit, Rituraj	Identification of 11β-HSD1 inhibitors through enhanced sampling methods	Chemical Communications	58	5005	2022
20	#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
21	#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
22	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