Mukul S. Bansal
Associate Professor/Computing

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Scholarly Contributions

76 Scholarly Contributions

37
Journal Articles
25
Conference Proceedings
12
Poster/Presentations
1
Book Chapter
1
Book
Generalizing the Domain-Gene-Species Reconciliation Framework to Microbial Genes and Domains
2023
Mukul Bansal, Abhijit Mondal
Research Type: Journal Article

Special Issue: 11th International Computational Advances in Bio and Medical Sciences (ICCABS 2021)
2023
Ion I Mandoiu, Marmar Moussa, Mukul Bansal, M. Patterson, Alexander Zelikovsky, Pavel Skums, Sanguthevar Rajasekaran
Research Type: Journal Article

virDTL: Viral recombination analysis through phylogenetic reconciliation and its application to sarbecoviruses and SARS-CoV-2
2023
Yi-Chieh Wu, Sumaira Zaman, Samuel Sledzieski, Bonnie Berger, Mukul Bansal
Research Type: Journal Article

Special Issue: 11th International Computational Advances in Bio and Medical Sciences (ICCABS 2021).
2023
Mukul Bansal, P Skums, A Zelikovsky, M Moussa, Sanguthevar Rajasekaran, M Patterson, Ion I Mandoiu
Research Type: Journal Article

DaTeR: Error-Correcting Phylogenetic Chronograms Using Relative Time Constraints
2023
Jack G Payette, Gregory Fournier, Abhijit Mondal, L Thiberio Rangel, Mukul Bansal
Research Type: Journal Article

CNAsim: improved simulation of single-cell copy number profiles and DNA-seq data from tumors
2023
Samson Weiner, Mukul Bansal
Research Type: Journal Article

TNet: Transmission Network Inference Using Within-Host Strain Diversity and its Application to Geographical Tracking of COVID-19 Spread.
2022
Mukul Bansal, S Dhar, Ion I Mandoiu, C Zhang
Research Type: Journal Article

Systematic Detection of Large-Scale Multigene Horizontal Transfer in Prokaryotes
2021
Matthew Fullmer, Mukul S Bansal, Joerg Graf, Peter J Gogarten, Sean Gosselin, Lina Kloub
Research Type: Journal Article

Improved Duplication-Transfer-Loss Reconciliation with Extinct and Unsampled Lineages
2021
Samson Weiner, Mukul S Bansal
Research Type: Journal Article

Linear-Time Algorithms for Phylogenetic Tree Completion Under Robinson-Foulds Distance
2020
Mukul Bansal
Research Type: Journal Article

Assessing the accuracy of phylogenetic rooting methods on prokaryotic gene families
2020
Gregory Fournier, L. Thiberio Rangel, Mukul Bansal, Soumya Kundu, Taylor Wade
Research Type: Journal Article

SaGePhy: An improved phylogenetic simulation framework for gene and subgene evolution
2019
Mukul Bansal, Soumya Kundu
Research Type: Journal Article

RecPhyloXML - a format for reconciled gene trees
2018
Guillaume Gence, David Posada, Celine Scornavacca, Adrián A Davín, Lars Arvestad, âric Tannier, Gergely Szöll≈ësi, Christophe Dessimoz, Vincent Berry, Mukul Bansal, Bastien Boussau, Nicolas Comte, Wandrille Duchemin, Anne-Muriel Arigon Chifolleau, Vincent Daubin, Diego Mallo, Fran√ßois Chevenet, Louxin Zhang, Damir Hasic, David Dylus, Rémi Planel
Research Type: Journal Article

An Integrated Reconciliation Framework for Domain, Gene, and Species Level Evolution: Algorithms and Applications
2018
Lei Li, Mukul Bansal
Research Type: Journal Article

RANGER-DTL 2.0: Rigorous Reconstruction of Gene-Family Evolution by Duplication, Transfer, and Loss
2018
Misagh Kordi, Mukul Bansal, Soumya Kundu, Manolis Kellis
Research Type: Journal Article

Integrative analysis of 111 reference human epigenomes.
2015
D Haussler, W Meuleman, M J Ziller, A R Pfenning, D Leung, G Elliott, A E Beaudet, M A Marra, R A Waterland, M Q Zhang, J F Costello, R S Sandstrom, E Gjoneska, S J Jones, R Moore, R A Harris, T D Tlsty, J W Whitaker, T Wang, Bi Zhang, N A Sinnott-Armstrong, J R Dixon, S Feizi, A R Kim, D Li, J A Thomson, X Wang, R S Hansen, W Xie, J Ernst, N Rajagopal, M Stevens, R Lister, T R Mercer, R Lowdon, L H Tsai, P J Farnham, C Hong, G Quon, A Milosavljevic, W Li, A Tam, A Meissner, R D Hawkins, V Amin, P J Sabo, M Hirst, P L De Jager, S J Neph, A Heravi-Moussavi, J A Stamatoyannopoulos, A Carles, M Bilenky, M T McManus, A Sarkar, K H Farh, L H Chadwick, S Sunyaev, S J Fisher, Mukul Bansal, L D Ward, R E Thurman, M Claussnitzer, Y Liu, A J Mungall, E Chuah, R C Sallari, T K Canfield, V Onuchic, M Kellis, Z Zhang, W Wang, M D Schultz, J Wu, C Coarfa, A Kundaje, A Yen, P Kheradpour, J Wang, C B Epstein, P Gascard, R Karlic, A Kulkarni, P Ray, X Zhou, L A Boyer, B E Bernstein, J R Ecker, B Ren, K T Siebenthall, P Polak, R Kaul, N Shoresh, Y C Wu, M L Eaton
Research Type: Journal Article

Most parsimonious reconciliation in the presence of gene duplication, loss, and deep coalescence using labeled coalescent trees
2014
Matthew D Rasmussen, Yi-Chieh Wu, Manolis Kellis, Mukul Bansal
Research Type: Journal Article

A comparative encyclopedia of DNA elements in the mouse genome.
2014
A Skoultchi, C Notredame, W J Kent, J Lian, P Flicek, D T Erickson, Y Lin, A Kundaje, Mukul Bansal, Y C Wu, M Fastuca, I Antoshechkin, D M Gilbert, K Lee, D Bates, A Shafer, T R Gingeras, J A Stamatoyannopoulos, D Dunn, M J Pazin, S Josefowicz, T Kawli, R Sandstrom, Y Wang, M J Weiss, R S Harris, X Cao, R F Lowdon, T Mishra, L Pham, A Tanzer, Z Ma, Z Ye, D Levasseur, S H Orkin, E E Eichler, A P Reynolds, X Q Zhou, P J Sabo, M Diegel, E A Feingold, R E Thurman, F Neri, A Kirilusha, L H See, C Zaleski, M Zhang, S Zhong, M Kellis, C S Morrissey, D Jain, N Dogan, C Jansen, K R Rosenbloom, T Kahveci, A Johnson, C Disteche, M Ramalho Santos, L Selleri, T Kutyavin, M Pignatelli, V S Malladi, A Rudensky, G Euskirchen, J Vierstra, W Wu, R C Hardison, M D Rasmussen, S Kuan, H Amrhein, E Rynes, C Davis, D D Pervouchine, E Giste, R Byron, J Herrero, C A Sloan, A P Boyle, P Cayting, L Edsall, M A Bender, J Lagarde, P Prieto, B A Williams, Y Cheng, M A Beer, R Guigo, P Treuting, R Samstein, E Haugen, T Canfield, R S Hansen, D Lee, M S Cline, M T Groudine, A Dobin, Y Shen, F Yue, S M Weissman, A Mortazavi, J Taylor, B Wold, L B Adams, S Gosh, M S Wilken, A Breschi, K Beal, B de Lacerda Sousa, K Learned, V M Kirkup, D McCleary, K Li, O Denas, G Bussotti, J Drenkow, G DeSalvo, K Fisher-Aylor, D Trout, R Kaul, R Humbert, B D Pope, T Papayannopoulou, T Wang, P J Good, B Ren, S Djebali, T A Reh, S Neph, M De Bruijn, K H Chang, G A Blobel, M P Snyder, T Ryba, G K Marinov, S Vong, S Lin, C A Keller
Research Type: Journal Article

Pareto-Optimal Phylogenetic Tree Reconciliation
2014
Ran Libeskind-hadas, Manolis Kellis, Mukul Bansal, Yi-Chieh Wu
Research Type: Journal Article

Improved gene tree error correction in the presence of horizontal gene transfer
2014
Yi-Chieh Wu, Eric Alm, Mukul Bansal, Manolis Kellis
Research Type: Journal Article