Filtering high-throughput protein-protein interaction data using a combination of genomic features. - Ashwini Patil; Haruki Nakamura (BMC Bioinform., 2005)

Intrinsically disordered domains deviate significantly from random sequences in mammalian proteins. - Shunsuke Teraguchi; Ashwini Patil; Daron M. Standley (BMC Bioinform., 2010)

Fault Tolerance in Cluster Computing System. - Ashwini Patil; Ankit Shah; Sheetal Gaikwad; Akassh A. Mishra; Simranjit Singh Kohli; Sudhir Dhage (3PGCIC, 2011)

HitPredict: a database of quality assessed protein-protein interactions in nine species. - Ashwini Patil; Kenta Nakai; Haruki Nakamura (Nucleic Acids Res., 2011)

Functional Annotation of Intrinsically Disordered Domains by Their Amino Acid Content Using IDD Navigator. - Ashwini Patil; Shunsuke Teraguchi; Huy Dinh; Kenta Nakai; Daron M. Standley (Pacific Symposium on Biocomputing, 2012)

Identification of novel motif patterns to decipher the promoter architecture of co-expressed genes in Arabidopsis thaliana. - Yosvany López; Ashwini Patil; Kenta Nakai (BMC Syst. Biol., 2013)

Linking Transcriptional Changes over Time in Stimulated Dendritic Cells to Identify Gene Networks Activated during the Innate Immune Response. - Ashwini Patil; Yutaro Kumagai; Kuo-ching Liang; Yutaka Suzuki; Kenta Nakai (PLoS Comput. Biol., 2013)

TimeXNet: Identifying active gene sub-networks using time-course gene expression profiles. - Ashwini Patil; Kenta Nakai (BMC Syst. Biol., 2014)

HitPredict version 4: comprehensive reliability scoring of physical protein-protein interactions from more than 100 species. - Yosvany López; Kenta Nakai; Ashwini Patil (Database J. Biol. Databases Curation, 2015)

Predicting MoRFs in protein sequences using HMM profiles. - Ronesh Sharma; Shiu Kumar; Tatsuhiko Tsunoda; Ashwini Patil; Alok Sharma (BMC Bioinform., 2016)

OPAL: prediction of MoRF regions in intrinsically disordered protein sequences. - Ronesh Sharma; Gaurav Raicar; Tatsuhiko Tsunoda; Ashwini Patil; Alok Sharma (Bioinform., 2018)

TimeXNet Web: identifying cellular response networks from diverse omics time-course data. - Phit Ling Tan; Yosvany López; Kenta Nakai; Ashwini Patil (Bioinform., 2018)

Clustering of Small-Sample Single-Cell RNA-Seq Data via Feature Clustering and Selection. - Edwin Vans; Alok Sharma; Ashwini Patil; Daichi Shigemizu; Tatsuhiko Tsunoda (PRICAI (3), 2019)

Discovering MoRFs by trisecting intrinsically disordered protein sequence into terminals and middle regions. - Ronesh Sharma; Alok Sharma; Ashwini Patil; Tatsuhiko Tsunoda (BMC Bioinform., 2019)

Protein-Protein Interaction Databases. - Ashwini Patil (Encyclopedia of Bioinformatics and Computational Biology (2), 2019)

Information Extraction and Graph Representation for the Design of Formulated Products. - Sagar Sunkle; Krati Saxena; Ashwini Patil; Vinay Kulkarni 001; Deepak Jain; Rinu Chacko; Beena Rai (CAiSE, 2020)

Checking, Generating, and Revising Safety Data Sheets using Globally Harmonized System Standards. - Ashwini Patil; Sagar Sunkle; Vinay Kulkarni 001 (EDOC, 2020)

Mining Heterogeneous Data for Formulation Design. - Krati Saxena; Ashwini Patil; Sagar Sunkle; Vinay Kulkarni 001 (ICDM (Workshops), 2020)

Integrated "Generate, Make, and Test" for Formulated Products using Knowledge Graphs. - Sagar Sunkle; Deepak Jain; Krati Saxena; Ashwini Patil; Tushita Singh; Beena Rai; Vinay Kulkarni 001 (Data Intell., 2021)

AI-driven streamlined modeling: experiences and lessons learned from multiple domains. - Sagar Sunkle; Krati Saxena; Ashwini Patil; Vinay Kulkarni 001 (Softw. Syst. Model., 2022)

CAID prediction portal: a comprehensive service for predicting intrinsic disorder and binding regions in proteins. - Alessio Del Conte; Adel Bouhraoua; Mahta Mehdiabadi; Damiano Clementel; Alexander Miguel Monzon; Alex S. Holehouse; Daniel A. Griffith; Ryan J. Emenecker; Ashwini Patil; Ronesh Sharma; Tatsuhiko Tsunoda; Alok Sharma; et al. (Nucleic Acids Res., 2023)