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Items: 34

1.

Effect of diversity in gp41 membrane proximal external region of primary HIV-1 Indian subtype C sequences on interaction with broadly neutralizing antibodies 4E10 and 10E8.

Sutar J, Padwal V, Sonawani A, Nagar V, Patil P, Kulkarni B, Hingankar N, Deshpande S, Idicula-Thomas S, Jagtap D, Bhattacharya J, Bandivdekar A, Patel V.

Virus Res. 2019 Nov;273:197763. doi: 10.1016/j.virusres.2019.197763. Epub 2019 Sep 22.

PMID:
31553924
2.

Collection of antimicrobial peptides database and its derivatives: Applications and beyond.

Waghu FH, Idicula-Thomas S.

Protein Sci. 2019 Aug 22. doi: 10.1002/pro.3714. [Epub ahead of print]

PMID:
31441165
3.

Discovery of small molecule binders of human FSHR(TMD) with novel structural scaffolds by integrating structural bioinformatics and machine learning algorithms.

Sahu B, Shah S, Prabhudesai K, Contini A, Idicula-Thomas S.

J Mol Graph Model. 2019 Jun;89:156-166. doi: 10.1016/j.jmgm.2019.02.001. Epub 2019 Mar 5.

PMID:
30897497
4.

Designing Antibacterial Peptides with Enhanced Killing Kinetics.

Waghu FH, Joseph S, Ghawali S, Martis EA, Madan T, Venkatesh KV, Idicula-Thomas S.

Front Microbiol. 2018 Feb 23;9:325. doi: 10.3389/fmicb.2018.00325. eCollection 2018.

5.

Protein-Protein Interaction between Surfactant Protein D and DC-SIGN via C-Type Lectin Domain Can Suppress HIV-1 Transfer.

Dodagatta-Marri E, Mitchell DA, Pandit H, Sonawani A, Murugaiah V, Idicula-Thomas S, Nal B, Al-Mozaini MM, Kaur A, Madan T, Kishore U.

Front Immunol. 2017 Jul 31;8:834. doi: 10.3389/fimmu.2017.00834. eCollection 2017.

6.

Tubulin acetylation: A novel functional avenue for CDYL in sperm.

Parab S, Dalvi V, Mylavaram S, Kishore A, Idicula-Thomas S, Sonawane S, Parte P.

Cytoskeleton (Hoboken). 2017 Sep;74(9):331-342. doi: 10.1002/cm.21381. Epub 2017 Jul 18.

PMID:
28681565
7.

Evaluation of 4-thiazolidinone derivatives as potential reverse transcriptase inhibitors against HIV-1 drug resistant strains.

Suryawanshi R, Jadhav S, Makwana N, Desai D, Chaturbhuj D, Sonawani A, Idicula-Thomas S, Murugesan V, Katti SB, Tripathy S, Paranjape R, Kulkarni S.

Bioorg Chem. 2017 Apr;71:211-218. doi: 10.1016/j.bioorg.2017.02.007. Epub 2017 Feb 15.

PMID:
28236450
8.

PBIT: Pipeline Builder for Identification of drug Targets for infectious diseases.

Shende G, Haldankar H, Barai RS, Bharmal MH, Shetty V, Idicula-Thomas S.

Bioinformatics. 2017 Mar 15;33(6):929-931. doi: 10.1093/bioinformatics/btw760.

PMID:
28039165
9.

Leveraging family-specific signatures for AMP discovery and high-throughput annotation.

Waghu FH, Barai RS, Idicula-Thomas S.

Sci Rep. 2016 Apr 19;6:24684. doi: 10.1038/srep24684.

10.

PCOSKB: A KnowledgeBase on genes, diseases, ontology terms and biochemical pathways associated with PolyCystic Ovary Syndrome.

Joseph S, Barai RS, Bhujbalrao R, Idicula-Thomas S.

Nucleic Acids Res. 2016 Jan 4;44(D1):D1032-5. doi: 10.1093/nar/gkv1146. Epub 2015 Nov 17.

11.

CAMPR3: a database on sequences, structures and signatures of antimicrobial peptides.

Waghu FH, Barai RS, Gurung P, Idicula-Thomas S.

Nucleic Acids Res. 2016 Jan 4;44(D1):D1094-7. doi: 10.1093/nar/gkv1051. Epub 2015 Oct 13.

12.

Cervical cancer in Indian women reveals contrasting association among common sub-family of HLA class I alleles.

Gokhale P, Mania-Pramanik J, Sonawani A, Idicula-Thomas S, Kerkar S, Tongaonkar H, Chaudhari H, Warke H, Salvi V.

Immunogenetics. 2014 Dec;66(12):683-91. doi: 10.1007/s00251-014-0805-2. Epub 2014 Sep 30.

PMID:
25267060
13.

Surfactant protein D inhibits HIV-1 infection of target cells via interference with gp120-CD4 interaction and modulates pro-inflammatory cytokine production.

Pandit H, Gopal S, Sonawani A, Yadav AK, Qaseem AS, Warke H, Patil A, Gajbhiye R, Kulkarni V, Al-Mozaini MA, Idicula-Thomas S, Kishore U, Madan T.

PLoS One. 2014 Jul 18;9(7):e102395. doi: 10.1371/journal.pone.0102395. eCollection 2014.

14.

HPV16 E6 variants: frequency, association with HPV types and in silico analysis of the identified novel variants.

Gokhale PS, Sonawani A, Idicula-Thomas S, Kerkar S, Tongaonkar H, Mania-Pramanik J.

J Med Virol. 2014 Jun;86(6):968-74. doi: 10.1002/jmv.23924. Epub 2014 Mar 7.

PMID:
24610458
15.

CAMP: Collection of sequences and structures of antimicrobial peptides.

Waghu FH, Gopi L, Barai RS, Ramteke P, Nizami B, Idicula-Thomas S.

Nucleic Acids Res. 2014 Jan;42(Database issue):D1154-8. doi: 10.1093/nar/gkt1157. Epub 2013 Nov 21.

16.

Correction: In Silico Study on Binding Specificity of Gonadotropins and Their Receptors: Design of a Novel and Selective Peptidomimetic for Human Follicle Stimulating Hormone Receptor.

Sonawani A, Niazi S, Idicula-Thomas S.

PLoS One. 2013 Nov 8;8(11). doi: 10.1371/annotation/bc97a85c-1ecd-4cd8-ab61-0aef01f949a1. eCollection 2013.

17.
18.

A chemical proteomics approach to profiling the ATP-binding proteome of Mycobacterium tuberculosis.

Wolfe LM, Veeraraghavan U, Idicula-Thomas S, Schürer S, Wennerberg K, Reynolds R, Besra GS, Dobos KM.

Mol Cell Proteomics. 2013 Jun;12(6):1644-60. doi: 10.1074/mcp.M112.025635. Epub 2013 Mar 5.

19.

ClassAMP: a prediction tool for classification of antimicrobial peptides.

Joseph S, Karnik S, Nilawe P, Jayaraman VK, Idicula-Thomas S.

IEEE/ACM Trans Comput Biol Bioinform. 2012 Sep-Oct;9(5):1535-8.

PMID:
22732690
20.

Identification of novel mutations in HEXA gene in children affected with Tay Sachs disease from India.

Mistri M, Tamhankar PM, Sheth F, Sanghavi D, Kondurkar P, Patil S, Idicula-Thomas S, Gupta S, Sheth J.

PLoS One. 2012;7(6):e39122. doi: 10.1371/journal.pone.0039122. Epub 2012 Jun 18.

21.

Imatinib resistance due to a novel tri-nucleotide insertion in the SH2/C lobe interface of BCR/ABL kinase domain between position K357 and N358.

Vaidya S, Sonawani A, Idicula-Thomas S, Vundinti BR, Ghosh K.

Leuk Res. 2012 May;36(5):e110-2. doi: 10.1016/j.leukres.2012.02.005. Epub 2012 Mar 3. No abstract available.

PMID:
22387050
22.

Novel homozygous mutations in Desert hedgehog gene in patients with 46,XY complete gonadal dysgenesis and prediction of its structural and functional implications by computational methods.

Das DK, Sanghavi D, Gawde H, Idicula-Thomas S, Vasudevan L.

Eur J Med Genet. 2011 Nov-Dec;54(6):e529-34. doi: 10.1016/j.ejmg.2011.04.010. Epub 2011 Jul 23.

PMID:
21816240
23.

Anti-HSP90 autoantibodies in sera of infertile women identify a dominant, conserved epitope EP6 (380-389) of HSP90 beta protein.

Pires ES, Choudhury AK, Idicula-Thomas S, Khole VV.

Reprod Biol Endocrinol. 2011 Jan 27;9:16. doi: 10.1186/1477-7827-9-16.

24.

ClotBase: a knowledgebase on proteins involved in blood coagulation.

Sonawani A, Nilawe P, Barai RS, Idicula-Thomas S.

Blood. 2010 Aug 5;116(5):855-6. doi: 10.1182/blood-2010-04-282616. No abstract available.

PMID:
20688969
25.

Effect of high intratesticular estrogen on global gene expression and testicular cell number in rats.

Balasinor NH, D'Souza R, Nanaware P, Idicula-Thomas S, Kedia-Mokashi N, He Z, Dym M.

Reprod Biol Endocrinol. 2010 Jun 23;8:72. doi: 10.1186/1477-7827-8-72.

26.

Molecular basis of factor X deficiency cases from India.

Mota L, Shetty S, Idicula-Thomas S, Ghosh K.

Haemophilia. 2010 Jul 1;16(4):693-7. doi: 10.1111/j.1365-2516.2010.02213.x. Epub 2010 Mar 16. No abstract available.

PMID:
20331754
27.

CAMP: a useful resource for research on antimicrobial peptides.

Thomas S, Karnik S, Barai RS, Jayaraman VK, Idicula-Thomas S.

Nucleic Acids Res. 2010 Jan;38(Database issue):D774-80. doi: 10.1093/nar/gkp1021. Epub 2009 Nov 18.

28.

Phenotypic and genotypic characterization of Factor VII deficiency patients from Western India.

Mota L, Shetty S, Idicula-Thomas S, Ghosh K.

Clin Chim Acta. 2009 Nov;409(1-2):106-11. doi: 10.1016/j.cca.2009.09.007. Epub 2009 Sep 13.

PMID:
19751712
29.

Hereditary basis of protein C deficiency (PCD) in thrombosis patients: first report from India.

Pai N, Shetty S, Idicula-Thomas S, Kulkarni B, Ghosh K.

Thromb Haemost. 2009 Apr;101(4):785-7. No abstract available.

PMID:
19350130
30.

A novel 9-bp insertion detected in steroid 21-hydroxylase gene (CYP21A2): prediction of its structural and functional implications by computational methods.

Dubey S, Idicula-Thomas S, Anwaruddin M, Saravanan C, Varma RR, Maitra A.

J Biomed Sci. 2009 Jan 8;16:3. doi: 10.1186/1423-0127-16-3.

31.

Correlation between the structural stability and aggregation propensity of proteins.

Idicula-Thomas S, Balaji PV.

In Silico Biol. 2007;7(2):225-37.

PMID:
17688448
32.

A support vector machine-based method for predicting the propensity of a protein to be soluble or to form inclusion body on overexpression in Escherichia coli.

Idicula-Thomas S, Kulkarni AJ, Kulkarni BD, Jayaraman VK, Balaji PV.

Bioinformatics. 2006 Feb 1;22(3):278-84. Epub 2005 Dec 6.

PMID:
16332713
33.
34.

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