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A
Dhanyalakshmi KH, Naika MBN, Sajeevan RS, Mathew OK, K Shafi M, Sowdhamini R, Nataraja KN.  2016.  An Approach to Function Annotation for Proteins of Unknown Function (PUFs) in the Transcriptome of Indian Mulberry.. PLoS One. 11(3):e0151323.
D
K Shafi M, Joshi AG, Meenakshi I, Pasha SNaseer, Harini K, Mahita J, Sajeevan RSivarajan, Karpe SD, Ghosh P, Nitish S et al..  2020.  Dataset for the combined transcriptome assembly of and functional annotation.. Data Brief. 30:105416.
Malhotra S, Mathew OK, Sowdhamini R.  2015.  DOCKSCORE: a webserver for ranking protein-protein docked poses.. BMC Bioinformatics. 16:127.
G
Upadhyay AK, Chacko AR, Gandhimathi A, Ghosh P, Harini K, Joseph AP, Joshi AG, Karpe SD, Kaushik S, Kuravadi N et al..  2015.  Genome sequencing of herb Tulsi (Ocimum tenuiflorum) unravels key genes behind its strong medicinal properties.. BMC Plant Biol. 15:212.
K
Joshi AG, Harini K, Meenakshi I, K Shafi M, Pasha SNaseer, Mahita J, Sajeevan RSivarajan, Karpe SD, Ghosh P, Nitish S et al..  2020.  A knowledge-driven protocol for prediction of proteins of interest with an emphasis on biosynthetic pathways.. MethodsX. 7:101053.
P
Gandhimathi A, Ghosh P, Hariharaputran S, Mathew OK, Sowdhamini R.  2016.  PASS2 database for the structure-based sequence alignment of distantly related SCOP domain superfamilies: update to version 5 and added features.. Nucleic Acids Res. 44(D1):D410-4.
Ghosh P, Bhattacharyya T, Mathew OK, Sowdhamini R.  2019.  PASS2 version 6: a database of structure-based sequence alignments of protein domain superfamilies in accordance with SCOPe.. Database (Oxford). 2019
Bhattacharyya T, Nayak S, Goswami S, Gadiyaram V, Mathew OK, Sowdhamini R.  2022.  PASS2.7: a database containing structure-based sequence alignments and associated features of protein domain superfamilies from SCOPe.. Database (Oxford). 2022
Mathew OK, Sowdhamini R.  2016.  PIMADb: A Database of Protein-Protein Interactions in Huge Macromolecular Assemblies.. Bioinform Biol Insights. 10:105-9.
R
Ghosh P, Mathew OK, Sowdhamini R.  2016.  RStrucFam: a web server to associate structure and cognate RNA for RNA-binding proteins from sequence information.. BMC Bioinformatics. 17(1):411.
T
Pasha SNaseer, K Shafi M, Joshi AG, Meenakshi I, Harini K, Mahita J, Sajeevan RSivarajan, Karpe SD, Ghosh P, Nitish S et al..  2020.  The transcriptome enables the identification of candidate genes behind medicinal value of Drumstick tree (Moringa oleifera).. Genomics. 112(1):621-628.