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T. M. Murali 0001
Person information
- affiliation: Virginia Tech, Blacksburg, VA, USA
- affiliation (2001 - 2003): Boston University, MA, USA
- affiliation (1999 - 2001): Compaq's Cambridge Research Lab, MA, USA
- affiliation (until 1999): Stanford University, CA, USA
- affiliation (former): Brown University, Provicence, RI, USA
- affiliation (former): Duke University, Durham, NC, USA
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2020 – today
- 2022
- [j30]Aditya Bharadwaj
, David Gwizdala, Yoonjin Kim, Kurt Luther, T. M. Murali:
Flud: A Hybrid Crowd-Algorithm Approach for Visualizing Biological Networks. ACM Trans. Comput. Hum. Interact. 29(1): 8:1-8:53 (2022) - 2021
- [j29]Jeffrey N. Law
Accurate and efficient gene function prediction using a multi-bacterial network. Bioinform. 37(6): 800-806 (2021) - [j28]Ion I. Mandoiu, T. M. Murali, Giri Narasimhan
Special Issue: 9th International Computational Advances in Bio and Medical Sciences (ICCABS 2019). J. Comput. Biol. 28(2): 115-116 (2021) - [c26]Meghana Kshirsagar, Nure Tasnina, Michael D. Ward, Jeffrey N. Law, T. M. Murali, Juan M. Lavista Ferres, Gregory R. Bowman, Judith Klein-Seetharaman:
Protein sequence models for prediction and comparative analysis of the SARS-CoV-2 - human interactome. PSB 2021 - 2020
- [c25]Aditya Pratapa, Amogh P. Jalihal, Jeffrey N. Law, Aditya Bharadwaj, T. M. Murali:
How to build regulatory networks from single-cell gene expression data. BCB 2020: 11:1 - [e1]Ion I. Mandoiu
Computational Advances in Bio and Medical Sciences - 9th International Conference, ICCABS 2019, Miami, FL, USA, November 15-17, 2019, Revised Selected Papers. Lecture Notes in Computer Science 12029, Springer 2020, ISBN 978-3-030-46164-5 [contents]
2010 – 2019
- 2019
- [j27]Mitchell J. Wagner, Aditya Pratapa
Reconstructing signaling pathways using regular language constrained paths. Bioinform. 35(14): i624-i633 (2019) - [j26]Nicholas Franzese
Hypergraph-based connectivity measures for signaling pathway topologies. PLoS Comput. Biol. 15(10) (2019) - [i3]Aditya Bharadwaj, David Gwizdala, Yoonjin Kim, Kurt Luther, T. M. Murali:
Flud: a hybrid crowd-algorithm approach for visualizing biological networks. CoRR abs/1908.07471 (2019) - 2018
- [j25]Aditya Pratapa
CrossPlan: systematic planning of genetic crosses to validate mathematical models. Bioinform. 34(13): 2237-2244 (2018) - [j24]T. M. Murali
Guest Editorial. IEEE ACM Trans. Comput. Biol. Bioinform. 15(4): 1036 (2018) - [c24]Aditya Pratapa
Efficient Synthesis of Mutants Using Genetic Crosses. BCB 2018: 53-62 - [c23]Aditya Pratapa, Neil Adames, Pavel K. Kraikivski, Nicholas Franzese, John J. Tyson, Jean Peccoud
CrossPlan: Systematic Planning of Genetic Crosses to Validate Mathematical Models. BCB 2018: 567 - [c22]Divit P. Singh, Lee Lisle, T. M. Murali, Kurt Luther
CrowdLayout: Crowdsourced Design and Evaluation of Biological Network Visualizations. CHI 2018: 232 - [i2]Li Jun Huang, Jeffrey N. Law
Automating the PathLinker app for Cytoscape. F1000Research 7: 727 (2018) - [i1]Linhua Wang
Large-scale protein function prediction using heterogeneous ensembles. F1000Research 7: 1577 (2018) - 2017
- [j23]Aditya Bharadwaj, Divit P. Singh, Anna M. Ritz
GraphSpace: stimulating interdisciplinary collaborations in network biology. Bioinform. 33(19): 3134-3136 (2017) - [j22]Sarah A. Sam, Joelle Teel, Allison N. Tegge, Aditya Bharadwaj, T. M. Murali:
XTalkDB: a database of signaling pathway crosstalk. Nucleic Acids Res. 45(Database-Issue): D432-D439 (2017) - [j21]Anna M. Ritz
Pathway Analysis with Signaling Hypergraphs. IEEE ACM Trans. Comput. Biol. Bioinform. 14(5): 1042-1055 (2017) - 2016
- [j20]Allison N. Tegge, Nicholas Sharp, T. M. Murali:
Xtalk: a path-based approach for identifying crosstalk between signaling pathways. Bioinform. 32(2): 242-251 (2016) - [c21]Ahsanur Rahman, Steve T. K. Jan, Hyunju Kim, B. Aditya Prakash, T. M. Murali:
Unstable Communities in Network Ensembles. SDM 2016: 504-512 - 2015
- [c20]Ahsanur Rahman
Mining Unstable Communities from Network Ensembles. ICDM Workshops 2015: 508-515 - 2014
- [c19]Anna M. Ritz, T. M. Murali:
Pathway analysis with signaling hypergraphs. BCB 2014: 249-258 - [c18]Craig Estep, Jaeil Yi, Anna M. Ritz, T. M. Murali:
GraphSpace: sharing and collaborating through networks on the web. BCB 2014: 631-632 - 2013
- [j19]Christopher L. Poirel, Ahsanur Rahman
Reconciling differential gene expression data with molecular interaction networks. Bioinform. 29(5): 622-629 (2013) - [j18]Christopher D. Lasher, Padmavathy Rajagopalan, T. M. Murali:
Summarizing cellular responses as biological process networks. BMC Syst. Biol. 7: 68 (2013) - [j17]Christopher L. Poirel, Richard R. Rodrigues, Katherine C. Chen, John J. Tyson
Top-Down Network Analysis to Drive Bottom-Up Modeling of Physiological Processes. J. Comput. Biol. 20(5): 409-418 (2013) - [j16]Ahsanur Rahman
Reverse Engineering Molecular Hypergraphs. IEEE ACM Trans. Comput. Biol. Bioinform. 10(5): 1113-1124 (2013) - 2012
- [j15]Corban G. Rivera, Brett M. Tyler, T. M. Murali:
Sensitive detection of pathway perturbations in cancers. BMC Bioinform. 13(S-3): S9 (2012) - [j14]T. M. Murali:
Guest Editor's Introduction: Computationally Driven Experimental Biology. Computer 45(3): 22-23 (2012) - [c17]Ahsanur Rahman
Reverse engineering molecular hypergraphs. BCB 2012: 68-75 - [c16]T. M. Murali, Matthew D. Dyer, David Badger, Brett M. Tyler, Michael G. Katze:
Network-Based Prediction and Analysis of HIV Dependency Factors. RECOMB 2012: 183 - 2011
- [j13]Christopher L. Poirel, Clifford Conley Owens III, T. M. Murali:
Network-based functional enrichment. BMC Bioinform. 12(S-13): S14 (2011) - [j12]T. M. Murali, Matthew D. Dyer, David Badger, Brett M. Tyler, Michael G. Katze:
Network-Based Prediction and Analysis of HIV Dependency Factors. PLoS Comput. Biol. 7(9) (2011) - [c15]Corban G. Rivera, Brett M. Tyler, T. M. Murali:
Sensitive detection of pathway perturbations in cancers: extended abstract. BCB 2011: 59-68
2000 – 2009
- 2009
- [j11]Tim Driscoll
PIG - the pathogen interaction gateway. Nucleic Acids Res. 37(Database-Issue): 647-650 (2009) - [c14]Corban G. Rivera, T. M. Murali:
Identifying Evolutionarily Conserved Protein Interaction Modules Using GraphHopper. BICoB 2009: 67-78 - [c13]Clifford Conley Owens III, T. M. Murali, Naren Ramakrishnan
Capturing truthiness: mining truth tables in binary datasets. SAC 2009: 1467-1474 - 2008
- [j10]T. M. Murali, Corban G. Rivera:
Network Legos: Building Blocks of Cellular Wiring Diagrams. J. Comput. Biol. 15(7): 829-844 (2008) - [j9]Ying Jin, T. M. Murali, Naren Ramakrishnan
Compositional mining of multirelational biological datasets. ACM Trans. Knowl. Discov. Data 2(1): 2:1-2:35 (2008) - 2007
- [c12]Matthew D. Dyer, T. M. Murali, Bruno W. S. Sobral
Computational prediction of host-pathogen protein-protein interactions. ISMB/ECCB (Supplement of Bioinformatics) 2007: 159-166 - [c11]T. M. Murali, Corban G. Rivera:
Network Legos: Building Blocks of Cellular Wiring Diagrams. RECOMB 2007: 47-61 - 2006
- [j8]Gregory A. Grothaus, Adeel Mufti, T. M. Murali:
Automatic layout and visualization of biclusters. Algorithms Mol. Biol. 1 (2006) - [j7]Amrita Pati, Cecilia Vasquez-Robinet
XcisClique: analysis of regulatory bicliques. BMC Bioinform. 7: 218 (2006) - [j6]Naveed Massjouni, Corban G. Rivera, T. M. Murali:
VIRGO: computational prediction of gene functions. Nucleic Acids Res. 34(Web-Server-Issue): 340-344 (2006) - 2003
- [j5]Yang Su, T. M. Murali, Vladimir Pavlovic
RankGene: identification of diagnostic genes based on expression data. Bioinform. 19(12): 1578-1579 (2003) - [c10]T. M. Murali, Simon Kasif:
Extracting Conserved Gene Expression Motifs from Gene Expression Data. Pacific Symposium on Biocomputing 2003: 77-88 - 2002
- [j4]Alon Efrat
New Similarity Measures between Polylines with Applications to Morphing and Polygon Sweeping. Discret. Comput. Geom. 28(4): 535-569 (2002) - [c9]Cecilia Magdalena Procopiuc, Michael Jones, Pankaj K. Agarwal, T. M. Murali:
A Monte Carlo algorithm for fast projective clustering. SIGMOD Conference 2002: 418-427 - 2001
- [c8]Alon Efrat, Sariel Har-Peled
Morphing between polylines. SODA 2001: 680-689 - 2000
- [j3]Pankaj K. Agarwal, Leonidas J. Guibas, T. M. Murali, Jeffrey Scott Vitter
Cylindrical static and kinetic binary space partitions. Comput. Geom. 16(2): 103-127 (2000) - [j2]Pankaj K. Agarwal, Edward F. Grove, T. M. Murali, Jeffrey Scott Vitter
Binary Space Partitions for Fat Rectangles. SIAM J. Comput. 29(5): 1422-1448 (2000) - [c7]Alon Efrat, Leonidas J. Guibas, Sariel Har-Peled
Sweeping simple polygons with a chain of guards. SODA 2000: 927-936
1990 – 1999
- 1999
- [b1]T. M. Murali:
Efficient Hidden-Surface Removal in Theory and Practice. Brown University, USA, 1999 - [j1]Edward F. Grove, T. M. Murali, Jeffrey Scott Vitter
The Object Complexity Model for Hidden-Surface Removal. Int. J. Comput. Geom. Appl. 9(2): 207-217 (1999) - 1998
- [c6]T. M. Murali, Pankaj K. Agarwal, Jeffrey Scott Vitter
Constructing Binary Space Partitions for Orthogonal Rectabgles in Practice. ESA 1998: 211-222 - [c5]Pankaj K. Agarwal, Lars Arge, T. M. Murali, Kasturi R. Varadarajan, Jeffrey Scott Vitter:
I/O-Efficient Algorithms for Contour-line Extraction and Planar Graph Blocking (Extended Abstract). SODA 1998: 117-126 - 1997
- [c4]Pankaj K. Agarwal, Leonidas J. Guibas, T. M. Murali, Jeffrey Scott Vitter
Cylindrical Static and Kinetic Binary Space Partitions. SCG 1997: 39-48 - [c3]Pankaj K. Agarwal, T. M. Murali, Jeffrey Scott Vitter
Practical Techniques for Constructing Binary Space Partitions for Orthogonal Rectangles. SCG 1997: 382-384 - [c2]T. M. Murali, Thomas A. Funkhouser:
Consistent Solid and Boundary Representations from Arbitrary Polygonal Data. SI3D 1997: 155-162, 196 - 1996
- [c1]Pankaj K. Agarwal, Edward F. Grove, T. M. Murali, Jeffrey Scott Vitter:
Binary Search Partitions for Fat Rectangles. FOCS 1996: 482-491
Coauthor Index
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