Publications
1. ABDpred: Prediction of active antimicrobial compounds using supervised machine learning techniques
Jana T, Sarkar D, Ganguli D, Mukherjee SK, Mandal RS, Das S.
Indian J Med Res. 2024 Feb 9. doi: 10.4103/ijmr.ijmr_1832_22.
PMID: 38345040
2. Pediatric T-cell acute lymphoblastic leukemia blast signature and MRD associated immune environment changes defined by single cell transcriptomics analysis
Bhasin SS, Thomas BE, Summers RJ, Sarkar D, Mumme H, Pilcher W, Emam M, Raikar SS, Park SI, Castellino SM, Graham DK, Bhasin MK, DeRyckere D.
Sci Rep. 2023 Aug 2;13(1):12556. doi: 10.1038/s41598-023-39152-z.
PMID: 37532715; PMCID: PMC10397284
3. Single-cell analysis reveals altered tumor microenvironments of relapse- and remission-associated pediatric acute myeloid leukemia
Mumme H, Thomas BE, Bhasin SS, Krishnan U, Dwivedi B, Perumalla P, Sarkar D, Ulukaya GB, Sabnis HS, Park SI, DeRyckere D, Raikar SS, Pauly M, Summers RJ, Castellino SM, Wechsler DS, Porter CC, Graham DK, Bhasin M.
Nat Commun. 2023 Oct 5;14(1):6209. doi: 10.1038/s41467-023-41994-0.
PMID: 37798266 PMCID: PMC10556066
4. Single cell transcriptomic landscape of diabetic foot ulcers
Theocharidis G, Thomas BE, Sarkar D, Mumme HL, Pilcher WJR, Dwivedi B, Sandoval-Schaefer T, Sîrbulescu RF, Kafanas A, Mezghani I, Wang P, Lobao A, Vlachos IS, Dash B, Hsia HC, Horsley V, Bhasin SS, Veves A, Bhasin M. Single cell transcriptomic landscape of diabetic foot ulcers. Nat Commun. 2022 Jan 10;13(1):181. doi: 10.1038/s41467-021-27801-8. PMID: 35013299; PMCID: PMC8748704.
5. Machine-learning techniques for the prediction of protein-protein interactions
Sarkar D, Saha S. Machine-learning techniques for the prediction of protein-protein interactions. J Biosci. 2019 Sep;44(4):104. PMID: 31502581.
6. LMDIPred: A web-server for prediction of linear peptide sequences binding to SH3, WW and PDZ domains
Sarkar D, Jana T, Saha S. LMDIPred: A web-server for prediction of linear peptide sequences binding to SH3, WW and PDZ domains. PLoS One. 2018 Jul 12;13(7):e0200430. doi: 10.1371/journal.pone.0200430. PMID: 30001346; PMCID: PMC6042728.
7. Computational Framework for Prediction of Peptide Sequences That May Mediate Multiple Protein Interactions in Cancer-Associated Hub Proteins
Sarkar D, Patra P, Ghosh A, Saha S. Computational Framework for Prediction of Peptide Sequences That May Mediate Multiple Protein Interactions in Cancer-Associated Hub Proteins. PLoS One. 2016 May 24;11(5):e0155911. doi: 10.1371/journal.pone.0155911. PMID: 27218803; PMCID: PMC4878775.
8. LMPID: a manually curated database of linear motifs mediating protein-protein interactions
Sarkar D, Jana T, Saha S. LMPID: a manually curated database of linear motifs mediating protein-protein interactions. Database (Oxford). 2015 Mar 16;2015:bav014. doi: 10.1093/database/bav014. PMID: 25776024; PMCID: PMC4360622.
9. The sensor kinase MtrB of Mycobacterium tuberculosis regulates hypoxic survival and establishment of infection
Banerjee SK, Lata S, Sharma AK, Bagchi S, Kumar M, Sahu SK, Sarkar D, Gupta P, Jana K, Gupta UD, Singh R, Saha S, Basu J, Kundu M. The sensor kinase MtrB of Mycobacterium tuberculosis regulates hypoxic survival and establishment of infection. J Biol Chem. 2019 Dec 27;294(52):19862-19876. doi: 10.1074/jbc.RA119.009449. Epub 2019 Oct 25. PMID: 31653701; PMCID: PMC6937564.
10. Allergen databases
Sircar G, Sarkar D, Bhattacharya SG, Saha S. Allergen databases. Methods Mol Biol. 2014;1184:165-81. doi: 10.1007/978-1-4939-1115-8_9. PMID: 25048124.