Works by Madhusudhan, M. S.

Results: 20

DBAli tools: mining the protein structure space.

Published in:

Nucleic Acids Research, 2007, v. 35, n. suppl_2, p. W393, doi. 10.1093/nar/gkm236

By:

Marti-Renom, Marc A.;
Pieper, Ursula;
Madhusudhan, M. S.;
Rossi, Andrea;
Eswar, Narayanan;
Davis, Fred P.;
Al-Shahrour, Fátima;
Dopazo, Joaquín;
Sali, Andrej

Publication type:

Article

MODBASE: a database of annotated comparative protein structure models and associated resources.

Published in:

Nucleic Acids Research, 2006, v. 34, n. suppl 1, p. d291, doi. 10.1093/nar/gkj059

By:

Pieper, Ursula;
Eswar, Narayanan;
Davis, Fred P.;
Braberg, Hannes;
Madhusudhan, M. S.;
Rossi, Andrea;
Marti-Renom, Marc;
Karchin, Rachel;
Webb, Ben M.;
Eramian, David;
Shen, Min-Yi;
Kelly, Libusha;
Melo, Francisco;
Sali, Andrej

Publication type:

Article

MODBASE, a database of annotated comparative protein structure models, and associated resources.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 1, p. d217

By:

Pieper, Ursula;
Eswar, Narayanan;
Braberg, Hannes;
Madhusudhan, M. S.;
Davis, Fred P.;
Stuart, Ashley C.;
Mirkovic, Nebojsa;
Rossi, Andrea;
Marti‐Renom, Marc A.;
Fiser, Andras;
Webb, Ben;
Greenblatt, Daniel;
Huang, Conrad C.;
Ferrin, Thomas E.;
Sali, Andrej

Publication type:

Article

Tools for comparative protein structure modeling and analysis.

Published in:

Nucleic Acids Research, 2003, v. 31, n. 13, p. 3375, doi. 10.1093/nar/gkg543

By:

Eswar, Narayanan;
John, Bino;
Mirkovic, Nebojsa;
Fiser, Andras;
Ilyin, Valentin A.;
Pieper, Ursula;
Stuart, Ashley C.;
Marti-Renom, Marc A.;
Madhusudhan, M. S.;
Yerkovich, Bozidar;
Sali, Andrej

Publication type:

Article

Alignment of multiple protein structures based on sequence and structure features.

Published in:

PEDS: Protein Engineering, Design & Selection, 2009, v. 22, n. 9, p. 569, doi. 10.1093/protein/gzp040

By:

Madhusudhan, M. S.;
Webb, Benjamin M.;
Marti-Renom, Marc A.;
Eswar, Narayanan;
Sali, Andrej

Publication type:

Article

Biophysical Properties of Intrinsically Disordered p130Cas Substrate Domain — Implication in Mechanosensing.

Published in:

PLoS Computational Biology, 2014, v. 10, n. 4, p. 1, doi. 10.1371/journal.pcbi.1003532

By:

Hotta, Kinya;
Ranganathan, Soumya;
Liu, Ruchuan;
Wu, Fei;
Machiyama, Hiroaki;
Gao, Rong;
Hirata, Hiroaki;
Soni, Neelesh;
Ohe, Takashi;
Hogue, Christopher W. V.;
Madhusudhan, M. S.;
Sawada, Yasuhiro

Publication type:

Article

Stereochemical Criteria for Prediction of the Effects of Proline Mutations on Protein Stability.

Published in:

PLoS Computational Biology, 2007, v. 3, n. 12, p. e241, doi. 10.1371/journal.pcbi.0030241

By:

Bajaj, Kanika;
Madhusudhan, M. S.;
Adkar, Bharat V.;
Chakrabarti, Purbani;
Ramakrishnan, C.;
Sali, Andrej;
Varadarajan, Raghavan

Publication type:

Article

Comparison of the dynamics of bovine and human angiogenin: a molecular dynamics study.

Published in:

Biopolymers, 1999, v. 49, n. 2, p. 131, doi. 10.1002/(SICI)1097-0282(199902)49:2<131::AID-BIP3>3.0.CO;2-W

By:

Madhusudhan, M. S.;
Vishveshwara, Saraswathi

Publication type:

Article

Protein Interaction Z Score Assessment (PIZSA): an empirical scoring scheme for evaluation of protein–protein interactions.

Published in:

Nucleic Acids Research, 2019, v. 47, n. W1, p. W331, doi. 10.1093/nar/gkz368

By:

Roy, Ankit A;
Dhawanjewar, Abhilesh S;
Sharma, Parichit;
Singh, Gulzar;
Madhusudhan, M S

Publication type:

Article

Topology independent comparison of RNA 3D structures using the CLICK algorithm.

Published in:

Nucleic Acids Research, 2017, v. 45, n. 1, p. 1, doi. 10.1093/nar/gkw819

By:

Minh N. Nguyen;
Sim, Adelene Y. L.;
Yue Wan;
Madhusudhan, M. S.;
Verma, Chandra

Publication type:

Article

Depth: a web server to compute depth, cavity sizes, detect potential small-molecule ligand-binding cavities and predict the pKa of ionizable residues in proteins.

Published in:

Nucleic Acids Research, 2013, v. 41, p. W314, doi. 10.1093/nar/gkt503

By:

Tan, Kuan Pern;
Nguyen, Thanh Binh;
Patel, Siddharth;
Varadarajan, Raghavan;
Madhusudhan, M. S.

Publication type:

Article

Biological insights from topology independent comparison of protein 3D structures.

Published in:

Nucleic Acids Research, 2011, v. 39, n. 14, p. e94, doi. 10.1093/nar/gkr348

By:

Nguyen, Minh N.;
Madhusudhan, M. S.

Publication type:

Article

DEPTH: a web server to compute depth and predict small-molecule binding cavities in proteins.

Published in:

Nucleic Acids Research, 2011, v. 39, n. suppl_2, p. W242, doi. 10.1093/nar/gkr356

By:

Tan, Kuan Pern;
Varadarajan, Raghavan;
Madhusudhan, M. S.

Publication type:

Article

CLICK—topology-independent comparison of biomolecular 3D structures.

Published in:

Nucleic Acids Research, 2011, v. 39, n. suppl_2, p. W24, doi. 10.1093/nar/gkr393

By:

Nguyen, M. N.;
Tan, K. P.;
Madhusudhan, M. S.

Publication type:

Article

Structure-guided fragment-based in silico drug design of dengue protease inhibitors.

Published in:

Journal of Computer-Aided Molecular Design, 2011, v. 25, n. 3, p. 263, doi. 10.1007/s10822-011-9418-0

By:

Knehans, Tim;
Schüller, Andreas;
Doan, Danny N.;
Nacro, Kassoum;
Hill, Jeffrey;
Güntert, Peter;
Madhusudhan, M. S.;
Weil, Tanja;
Vasudevan, Subhash G.

Publication type:

Article

High-affinity biomolecular interactions are modulated by low-affinity binders.

Published in:

NPJ Systems Biology & Applications, 2024, v. 10, n. 1, p. 1, doi. 10.1038/s41540-024-00410-z

By:

Mukundan, S.;
Deshpande, Girish;
Madhusudhan, M. S.

Publication type:

Article

Targeting LLT1 as a potential immunotherapy option for cancer patients non-responsive to existing checkpoint therapies in multiple solid tumors.

Published in:

BMC Cancer, 2024, v. 24, n. 1, p. 1, doi. 10.1186/s12885-024-13074-z

By:

Mandal, Tirtha;
Gnanasegaran, Soorya;
Rodrigues, Golding;
Kashipathi, Shalini;
Tiwari, Anurag;
Dubey, Ashvini Kumar;
Bhattacharjee, Sanghamitra;
Manjunath, Yogendra;
Krishna, Subith;
Madhusudhan, M. S.;
Ghosh, Maloy

Publication type:

Article

Forecasting Land Use and Land Cover Changes in the Malaprabha Right Bank Canal Command Area through Cellular Automata and Markov Chain Modeling.

Published in:

Ecological Engineering & Environmental Technology (EEET), 2024, v. 25, n. 6, p. 54, doi. 10.12912/27197050/186598

By:

Madhusudhan, M. S.;
Shivapur, A. V.;
Surendra, H. J.

Publication type:

Article

Predicting and designing therapeutics against the Nipah virus.

Published in:

PLoS Neglected Tropical Diseases, 2019, v. 13, n. 12, p. 1, doi. 10.1371/journal.pntd.0007419

By:

Sen, Neeladri;
Kanitkar, Tejashree Rajaram;
Roy, Ankit Animesh;
Soni, Neelesh;
Amritkar, Kaustubh;
Supekar, Shreyas;
Nair, Sanjana;
Singh, Gulzar;
Madhusudhan, M. S.

Publication type:

Article

Identification of sequence determinants for the ABHD14 enzymes.

Published in:

Proteins, 2025, v. 93, n. 1, p. 255, doi. 10.1002/prot.26632

By:

Vaidya, Kaveri;
Rodrigues, Golding;
Gupta, Sonali;
Devarajan, Archit;
Yeolekar, Mihika;
Madhusudhan, M. S.;
Kamat, Siddhesh S.

Publication type:

Article