ProPred: prediction of HLA-DR binding sites. - Harpreet Singh; G. P. S. Raghava (Bioinform., 2001)

Locating probable genes using Fourier transform approach. - Biju Issac 002; Harpreet Singh; Harpreet Kaur; G. P. S. Raghava (Bioinform., 2002)

BetaTPred: prediction of beta-TURNS in a protein using statistical algorithms. - Harpreet Kaur; G. P. S. Raghava (Bioinform., 2002)

An evaluation of ß-turn prediction methods. - Harpreet Kaur; G. P. S. Raghava (Bioinform., 2002)

MHCBN: a comprehensive database of MHC binding and non-binding peptides. - Manoj Bhasin; Harpreet Singh; G. P. S. Raghava (Bioinform., 2003)

ProPred1: Prediction of Promiscuous MHC Class-I Binding Sites. - Harpreet Singh; G. P. S. Raghava (Bioinform., 2003)

OXBench: A benchmark for evaluation of protein multiple sequence alignment accuracy. - G. P. S. Raghava; Stephen M. J. Searle; Patrick C. Audley; Jonathan D. Barber; Geoffrey J. Barton (BMC Bioinform., 2003)

Bteval: a Server for Evaluation of beta-turn Prediction Methods. - Harpreet Kaur; G. P. S. Raghava (J. Bioinform. Comput. Biol., 2003)

BcePred: Prediction of Continuous B-Cell Epitopes in Antigenic Sequences Using Physico-chemical Properties. - Sudipto Saha; G. P. S. Raghava (ICARIS, 2004)

SVM based method for predicting HLA-DRB1*0401 binding peptides in an antigen sequence. - Manoj Bhasin; G. P. S. Raghava (Bioinform., 2004)

A neural network method for prediction of ?-turn types in proteins using evolutionary information. - Harpreet Kaur; G. P. S. Raghava (Bioinform., 2004)

Spectral Repeat Finder (SRF): identification of repetitive sequences using Fourier transformation. - Deepak Sharma; Biju Issac 002; G. P. S. Raghava; Ramakrishna Ramaswamy (Bioinform., 2004)

GPCRpred: an SVM-based method for prediction of families and subfamilies of G-protein coupled receptors. - Manoj Bhasin; G. P. S. Raghava (Nucleic Acids Res., 2004)

ESLpred: SVM-based method for subcellular localization of eukaryotic proteins using dipeptide composition and PSI-BLAST. - Manoj Bhasin; G. P. S. Raghava (Nucleic Acids Res., 2004)

PSLpred: prediction of subcellular localization of bacterial proteins. - Manoj Bhasin; Aarti Garg; G. P. S. Raghava (Bioinform., 2005)

Correlation and prediction of gene expression level from amino acid and dipeptide composition of its protein. - Gajendra P. S. Raghava; Joon H. Han (BMC Bioinform., 2005)

GPCRsclass: a web tool for the classification of amine type of G-protein-coupled receptors. - Manoj Bhasin; G. P. S. Raghava (Nucleic Acids Res., 2005)

Pcleavage: an SVM based method for prediction of constitutive proteasome and immunoproteasome cleavage sites in antigenic sequences. - Manoj Bhasin; G. P. S. Raghava (Nucleic Acids Res., 2005)

BhairPred: prediction of ß-hairpins in a protein from multiple alignment information using ANN and SVM techniques. - Manish Kumar 005; Manoj Bhasin; Navjot K. Natt; G. P. S. Raghava (Nucleic Acids Res., 2005)

HaptenDB: a comprehensive database of haptens, carrier proteins and anti-hapten antibodies. - Mahender Kumar Singh; Shilpy Srivastava; G. P. S. Raghava; Grish C. Varshney (Bioinform., 2006)

Machine learning techniques in disease forecasting: a case study on rice blast prediction. - Rakesh Kaundal; Amar S. Kapoor; Gajendra P. S. Raghava (BMC Bioinform., 2006)

Quantification of the variation in percentage identity for protein sequence alignments. - G. P. S. Raghava; Geoffrey J. Barton (BMC Bioinform., 2006)

VICMpred: An SVM-based Method for the Prediction of Functional Proteins of Gram-negative Bacteria Using Amino Acid Patterns and Composition. - Sudipto Saha; G. P. S. Raghava (Genom. Proteom. Bioinform., 2006)

VGIchan: Prediction and Classification of Voltage-Gated Ion Channels. - Sudipto Saha; Jyoti Zack; Balvinder Singh; G. P. S. Raghava (Genom. Proteom. Bioinform., 2006)

Prediction of Cα-H·O and Cα-H·π Interactions in Proteins Using Recurrent Neural Network. - Harpreet Kaur; Gajendra P. S. Raghava (Silico Biol., 2006)

AlgPred: prediction of allergenic proteins and mapping of IgE epitopes. - Sudipto Saha; G. P. S. Raghava (Nucleic Acids Res., 2006)

Prediction of subcellular localization of proteins using pairwise sequence alignment and support vector machine. - Jong Kyoung Kim; G. P. S. Raghava; Sung Yang Bang; Seungjin Choi (Pattern Recognit. Lett., 2006)

Identification of DNA-binding proteins using support vector machines and evolutionary profiles. - Manish Kumar 005; M. Michael Gromiha; Gajendra P. S. Raghava (BMC Bioinform., 2007)

Analysis and prediction of antibacterial peptides. - Sneh Lata; B. K. Sharma; G. P. S. Raghava (BMC Bioinform., 2007)

Support Vector Machine-based method for predicting subcellular localization of mycobacterial proteins using evolutionary information and motifs. - Mamoon Rashid 003; Sudipto Saha; Gajendra P. S. Raghava (BMC Bioinform., 2007)

Oxypred: Prediction and Classification of Oxygen-Binding Proteins. - S. Muthukrishnan; Aarti Garg; G. P. S. Raghava (Genom. Proteom. Bioinform., 2007)

Prediction of Neurotoxins Based on Their Function and Source. - Sudipto Saha; Gajendra P. S. Raghava (Silico Biol., 2007)

BTXpred: Prediction of Bacterial Toxins. - Sudipto Saha; Gajendra P. S. Raghava (Silico Biol., 2007)

ESLpred2: improved method for predicting subcellular localization of eukaryotic proteins. - Aarti Garg; Gajendra P. S. Raghava (BMC Bioinform., 2008)

Identification of Proteins Secreted by Malaria Parasite into Erythrocyte using SVM and PSSM profiles. - Ruchi Verma; Ajit Tiwari; Sukhwinder Kaur; Grish C. Varshney; Gajendra P. S. Raghava (BMC Bioinform., 2008)

A Machine Learning Based Method for the Prediction of Secretory Proteins Using Amino Acid Composition, Their Order and Similarity-Search. - Aarti Garg; Gajendra P. S. Raghava (Silico Biol., 2008)

COPid: Composition Based Protein Identification. - Manish Kumar 005; Varun Thakur; Gajendra P. S. Raghava (Silico Biol., 2008)

Prediction of guide strand of microRNAs from its sequence and secondary structure. - Firoz Ahmed; Hifzur Rahman Ansari; Gajendra P. S. Raghava (BMC Bioinform., 2009)

Identification of ATP binding residues of a protein from its primary sequence. - Jagat Singh Chauhan; Nitish K. Mishra; Gajendra P. S. Raghava (BMC Bioinform., 2009)

Prediction of nuclear proteins using SVM and HMM models. - Manish Kumar 005; Gajendra P. S. Raghava (BMC Bioinform., 2009)

Prediction of Polyadenylation Signals in Human DNA Sequences using Nucleotide Frequencies. - Firoz Ahmed; Manish Kumar 005; Gajendra P. S. Raghava (Silico Biol., 2009)

Identification of NAD interacting residues in proteins. - Hifzur Rahman Ansari; Gajendra P. S. Raghava (BMC Bioinform., 2010)

Prediction of GTP interacting residues, dipeptides and tripeptides in a protein from its evolutionary information. - Jagat Singh Chauhan; Nitish K. Mishra; Gajendra P. S. Raghava (BMC Bioinform., 2010)

KiDoQ: using docking based energy scores to develop ligand based model for predicting antibacterials. - Aarti Garg; Rupinder Tewari; Gajendra P. S. Raghava (BMC Bioinform., 2010)

Virtual Screening of potential drug-like inhibitors against Lysine/DAP pathway of Mycobacterium tuberculosis. - Aarti Garg; Rupinder Tewari; Gajendra P. S. Raghava (BMC Bioinform., 2010)

AntiBP2: improved version of antibacterial peptide prediction. - Sneh Lata; Nitish K. Mishra; Gajendra P. S. Raghava (BMC Bioinform., 2010)

Prediction of FAD interacting residues in a protein from its primary sequence using evolutionary information. - Nitish K. Mishra; Gajendra P. S. Raghava (BMC Bioinform., 2010)

AntigenDB: an immunoinformatics database of pathogen antigens. - Hifzur Rahman Ansari; Darren R. Flower; G. P. S. Raghava (Nucleic Acids Res., 2010)

CCDB: a curated database of genes involved in cervix cancer. - Subhash M. Agarwal; Dhwani Raghav; Harinder Singh; G. P. S. Raghava (Nucleic Acids Res., 2011)

CPPsite: a curated database of cell penetrating peptides. - Ankur Gautam; Harinder Singh; Atul Tyagi; Kumardeep Chaudhary; Rahul Kumar; Pallavi Kapoor; G. P. S. Raghava (Database J. Biol. Databases Curation, 2012)

ProGlycProt: a repository of experimentally characterized prokaryotic glycoproteins. - Aadil H. Bhat; Homchoru Mondal; Jagat Singh Chauhan; Gajendra P. S. Raghava; Amrish Methi; Alka Rao (Nucleic Acids Res., 2012)

ccPDB: compilation and creation of data sets from Protein Data Bank. - Harinder Singh; Jagat Singh Chauhan; M. Michael Gromiha; Gajendra P. S. Raghava (Nucleic Acids Res., 2012)

lncRNome: a comprehensive knowledgebase of human long noncoding RNAs. - Deeksha Bhartiya; Koustav Pal; Sourav Ghosh; Shruti Kapoor; Saakshi Jalali; Bharat Panwar; Sakshi Jain; Satish Sati; Shantanu Sengupta; Chetana Sachidanandan; Gajendra Pal Singh Raghava; Sridhar Sivasubbu; et al. (Database J. Biol. Databases Curation, 2013)

PHDcleav: a SVM based method for predicting human Dicer cleavage sites using sequence and secondary structure of miRNA precursors. - Firoz Ahmed; Rakesh Kaundal; Gajendra P. S. Raghava (BMC Bioinform., 2013)

Prediction of vitamin interacting residues in a vitamin binding protein using evolutionary information. - Bharat Panwar; Sudheer Gupta; Gajendra P. S. Raghava (BMC Bioinform., 2013)

NPACT: Naturally Occurring Plant-based Anti-cancer Compound-Activity-Target database. - Manu Mangal; Parul Sagar; Harinder Singh; Gajendra P. S. Raghava; Subhash M. Agarwal (Nucleic Acids Res., 2013)

ParaPep: a web resource for experimentally validated antiparasitic peptide sequences and their structures. - Divya Mehta; Priya Anand; Vineet Kumar; Anshika Joshi; Deepika Mathur; Sandeep Singh; Abhishek Tuknait; Kumardeep Chaudhary; Shailendra K. Gautam; Ankur Gautam; Grish C. Varshney; Gajendra P. S. Raghava (Database J. Biol. Databases Curation, 2014)

Prediction of uridine modifications in tRNA sequences. - Bharat Panwar; Gajendra P. S. Raghava (BMC Bioinform., 2014)

Designing of peptides with desired half-life in intestine-like environment. - Arun Sharma; Deepak Singla; Mamoon Rashid 003; Gajendra Pal Singh Raghava (BMC Bioinform., 2014)

Hemolytik: a database of experimentally determined hemolytic and non-hemolytic peptides. - Ankur Gautam; Kumardeep Chaudhary; Sandeep Singh; Anshika Joshi; Priya Anand; Abhishek Tuknait; Deepika Mathur; Grish C. Varshney; Gajendra P. S. Raghava (Nucleic Acids Res., 2014)

AHTPDB: a comprehensive platform for analysis and presentation of antihypertensive peptides. - Ravi Kumar 008; Kumardeep Chaudhary; Minakshi Sharma; Gandharva Nagpal; Jagat Singh Chauhan; Sandeep Singh; Ankur Gautam; Gajendra P. S. Raghava (Nucleic Acids Res., 2015)

CancerPPD: a database of anticancer peptides and proteins. - Atul Tyagi; Abhishek Tuknait; Priya Anand; Sudheer Gupta; Minakshi Sharma; Deepika Mathur; Anshika Joshi; Sandeep Singh; Ankur Gautam; Gajendra P. S. Raghava (Nucleic Acids Res., 2015)

CPPsite 2.0: a repository of experimentally validated cell-penetrating peptides. - Piyush Agrawal; Sherry Bhalla; Salman Sadullah Usmani; Sandeep Singh; Kumardeep Chaudhary; Gajendra P. S. Raghava; Ankur Gautam (Nucleic Acids Res., 2016)

SATPdb: a database of structurally annotated therapeutic peptides. - Sandeep Singh; Kumardeep Chaudhary; Sandeep Kumar Dhanda; Sherry Bhalla; Salman Sadullah Usmani; Ankur Gautam; Abhishek Tuknait; Piyush Agrawal; Deepika Mathur; Gajendra P. S. Raghava (Nucleic Acids Res., 2016)

Challenges in Prediction of different Cancer Stages using Gene Expression Profile of Cancer Patients. - Sherry Bhalla; Suresh Sharma; Gajendra Pal Singh Raghava (BCB, 2017)

Novel in silico tools for designing peptide-based subunit vaccines and immunotherapeutics. - Sandeep Kumar Dhanda; Salman Sadullah Usmani; Piyush Agrawal; Gandharva Nagpal; Ankur Gautam; Gajendra P. S. Raghava (Briefings Bioinform., 2017)

AntiTbPdb: a knowledgebase of anti-tubercular peptides. - Salman Sadullah Usmani; Rajesh Kumar; Vinod Kumar 014; Sandeep Singh; Gajendra P. S. Raghava (Database J. Biol. Databases Curation, 2018)

ccPDB 2.0: an updated version of datasets created and compiled from Protein Data Bank. - Piyush Agrawal; Sumeet Patiyal; Rajesh Kumar; Vinod Kumar 014; Harinder Singh; Pawan Kumar Raghav; Gajendra P. S. Raghava (Database J. Biol. Databases Curation, 2019)

RareLSD: a manually curated database of lysosomal enzymes associated with rare diseases. - Sana Akhter; Harpreet Kaur; Piyush Agrawal; Gajendra P. S. Raghava (Database J. Biol. Databases Curation, 2019)

PRRDB 2.0: a comprehensive database of pattern-recognition receptors and their ligands. - Dilraj Kaur; Sumeet Patiyal; Neelam Sharma; Salman Sadullah Usmani; Gajendra P. S. Raghava (Database J. Biol. Databases Curation, 2019)

ImmunoSPdb: an archive of immunosuppressive peptides. - Salman Sadullah Usmani; Piyush Agrawal; Manika Sehgal; Pradeep Kumar Patel; Gajendra P. S. Raghava (Database J. Biol. Databases Curation, 2019)

Benchmarking of different molecular docking methods for protein-peptide docking. - Piyush Agrawal; Harinder Singh; Hemant Kumar Srivastava; Sandeep Singh; Gaurav Kishore; Gajendra P. S. Raghava (BMC Bioinform., 2019)

CancerLivER: a database of liver cancer gene expression resources and biomarkers. - Harpreet Kaur; Sherry Bhalla; Dilraj Kaur; Gajendra P. S. Raghava (Database J. Biol. Databases Curation, 2020)

AntiCP 2.0: an updated model for predicting anticancer peptides. - Piyush Agrawal; Dhruv Bhagat; Manish Mahalwal; Neelam Sharma; Gajendra P. S. Raghava (Briefings Bioinform., 2021)

Computer-aided prediction and design of IL-6 inducing peptides: IL-6 plays a crucial role in COVID-19. - Anjali Dhall; Sumeet Patiyal; Neelam Sharma; Salman Sadullah Usmani; Gajendra P. S. Raghava (Briefings Bioinform., 2021)

DenvInD: dengue virus inhibitors database for clinical and molecular research. - Vivek Dhar Dwivedi; Aditya Arya; Pardeep Yadav; Rajesh Kumar; Vinod Kumar 014; Gajendra P. S. Raghava (Briefings Bioinform., 2021)

Computer-aided prediction of inhibitors against STAT3 for managing COVID-19 associated cytokine storm. - Anjali Dhall; Sumeet Patiyal; Neelam Sharma; Naorem Leimarembi Devi; Gajendra P. S. Raghava (Comput. Biol. Medicine, 2021)

In-silico identification of subunit vaccine candidates against lung cancer-associated oncogenic viruses. - Anjali Lathwal; Rajesh Kumar; Gajendra P. S. Raghava (Comput. Biol. Medicine, 2021)

SAPdb: A database of short peptides and the corresponding nanostructures formed by self-assembly. - Deepika Mathur; Harpreet Kaur; Anjali Dhall; Neelam Sharma; Gajendra P. S. Raghava (Comput. Biol. Medicine, 2021)

ChAlPred: A web server for prediction of allergenicity of chemical compounds. - Neelam Sharma; Sumeet Patiyal; Anjali Dhall; Naorem Leimarembi Devi; Gajendra P. S. Raghava (Comput. Biol. Medicine, 2021)

ProCanBio: A Database of Manually Curated Biomarkers for Prostate Cancer. - Dikscha Sapra; Harpreet Kaur; Anjali Dhall; Gajendra P. S. Raghava (J. Comput. Biol., 2021)

Crowdsourcing digital health measures to predict Parkinson's disease severity: the Parkinson's Disease Digital Biomarker DREAM Challenge. - Solveig K. Sieberts; Jennifer Schaff; Marlena Duda; Bálint Á Pataki; Ming Sun; Phil Snyder; Jean-Francois Daneault; Federico Parisi; Gianluca Costante; Udi Rubin; Peter Banda; Yooree Chae; et al. (npj Digit. Medicine, 2021)

AlgPred 2.0: an improved method for predicting allergenic proteins and mapping of IgE epitopes. - Neelam Sharma; Sumeet Patiyal; Anjali Dhall; Akshara Pande; Chakit Arora; Gajendra P. S. Raghava (Briefings Bioinform., 2021)

HLAncPred: a method for predicting promiscuous non-classical HLA binding sites. - Anjali Dhall; Sumeet Patiyal; Gajendra P. S. Raghava (Briefings Bioinform., 2022)

A deep learning-based method for the prediction of DNA interacting residues in a protein. - Sumeet Patiyal; Anjali Dhall; Gajendra P. S. Raghava (Briefings Bioinform., 2022)

ToxinPred2: an improved method for predicting toxicity of proteins. - Neelam Sharma; Naorem Leimarembi Devi; Shipra Jain; Gajendra P. S. Raghava (Briefings Bioinform., 2022)

Collection, compilation and analysis of bacterial vaccines. - Satakshi Gupta; Neelam Sharma; Naorem Leimarembi Devi; Shipra Jain; Gajendra P. S. Raghava (Comput. Biol. Medicine, 2022)

IL13Pred: A method for predicting immunoregulatory cytokine IL-13 inducing peptides. - Shipra Jain; Anjali Dhall; Sumeet Patiyal; Gajendra P. S. Raghava (Comput. Biol. Medicine, 2022)

Computational resources in healthcare. - Neelam Sharma; Naorem Leimarembi Devi; Satakshi Gupta; Gajendra P. S. Raghava (WIREs Data Mining Knowl. Discov., 2022)

Advances in the field of phage-based therapy with special emphasis on computational resources. - Nisha Bajiya; Anjali Dhall; Suchet Aggarwal; Gajendra P. S. Raghava (Briefings Bioinform., 2023)

DMPPred: a tool for identification of antigenic regions responsible for inducing type 1 diabetes mellitus. - Nishant Kumar; Sumeet Patiyal; Shubham Choudhury; Ritu Tomer; Anjali Dhall; Gajendra P. S. Raghava (Briefings Bioinform., 2023)

Prediction of RNA-interacting residues in a protein using CNN and evolutionary profile. - Sumeet Patiyal; Anjali Dhall; Khushboo Bajaj; Harshita Sahu; Gajendra P. S. Raghava (Briefings Bioinform., 2023)

SalivaDB - a comprehensive database for salivary biomarkers in humans. - Akanksha Arora; Dashleen Kaur; Sumeet Patiyal; Dilraj Kaur; Ritu Tomer; Gajendra P. S. Raghava (Database J. Biol. Databases Curation, 2023)

Pfeature: A Tool for Computing Wide Range of Protein Features and Building Prediction Models. - Akshara Pande; Sumeet Patiyal; Anjali Lathwal; Chakit Arora; Dilraj Kaur; Anjali Dhall; Gaurav Mishra; Harpreet Kaur; Neelam Sharma; Shipra Jain; Salman Sadullah Usmani; Piyush Agrawal; et al. (J. Comput. Biol., 2023)

A web server for predicting and scanning of IL-5 inducing peptides using alignment-free and alignment-based method. - Naorem Leimarembi Devi; Neelam Sharma; Gajendra P. S. Raghava (Comput. Biol. Medicine, 2023)

TNFepitope: A webserver for the prediction of TNF-α inducing epitopes. - Anjali Dhall; Sumeet Patiyal; Shubham Choudhury; Shipra Jain; Kashish Narang; Gajendra P. S. Raghava (Comput. Biol. Medicine, 2023)

Risk assessment of cancer patients based on HLA-I alleles, neobinders and expression of cytokines. - Anjali Dhall; Sumeet Patiyal; Harpreet Kaur; Gajendra P. S. Raghava (Comput. Biol. Medicine, 2023)

A Highly Accurate Model for Screening Prostate Cancer Using Propensity Index Panel of Ten Genes. - Shipra Jain; Kawal Preet Kaur Malhotra; Sumeet Patiyal; Gajendra Pal Singh Raghava (J. Comput. Biol., 2023)

ToxinPred 3.0: An improved method for predicting the toxicity of peptides. - Anand Singh Rathore; Shubham Choudhury; Akanksha Arora; Purva Tijare; Gajendra P. S. Raghava (Comput. Biol. Medicine, 2024)

MRSLpred - a hybrid approach for predicting multi-label subcellular localization of mRNA at the genome scale. - Shubham Choudhury; Nisha Bajiya; Sumeet Patiyal; Gajendra P. S. Raghava (Frontiers Bioinform., 2024)

A hybrid approach for predicting transcription factors. - Sumeet Patiyal; Palak Tiwari; Mohit Ghai; Aman Dhapola; Anjali Dhall; Gajendra P. S. Raghava (Frontiers Bioinform., 2024)

A method for predicting linear and conformational B-cell epitopes in an antigen from its primary sequence. - Nishant Kumar; Sadhana Tripathi; Neelam Sharma; Sumeet Patiyal; Naorem Leimarembi Devi; Gajendra P. S. Raghava (Comput. Biol. Medicine, 2024)

CancerPPD2: an updated repository of anticancer peptides and proteins. - Milind Chauhan; Amisha Gupta; Ritu Tomer; Gajendra P. S. Raghava (Database J. Biol. Databases Curation, 2025)