Laxmi Parida

ORCID

Publication Activity (10 Years)

Years Active: 1991-2024
Publications (10 Years): 31

Top Venues

CoRR

Bioinform.

IEEE ACM Trans. Comput. Biol. Bioinform.

BMC Bioinform.

Publications

Hakan Doga, M. Emre Sahin, Joao H. Bettencourt-Silva, Anh Pham, Eunyoung Kim, Alan Andress, Sudhir Saxena, Aritra Bose, Laxmi Parida, Jan Lukas Robertus, Hideaki Kawaguchi, Radwa Soliman, Daniel Blankenberg
Towards quantum computing for clinical trial design and optimization: A perspective on new opportunities and challenges. CoRR (2024)
Myson C. Burch, Aritra Bose, Gregory Dexter, Laxmi Parida, Petros Drineas
MaSk-LMM: A Matrix Sketching Framework for Linear Mixed Models in Association Studies. RECOMB (2024)
Saugata Basu, Laxmi Parida
Quantum Analog of Shannon's Lower Bound Theorem. CoRR (2023)
Kahn Rhrissorrakrai, Filippo Utro, Chaya Levovitz, Laxmi Parida
Lesion Shedding Model: unraveling site-specific contributions to ctDNA. Briefings Bioinform. 24 (2) (2023)
Daniel E. Platt, Aritra Bose, Chaya Levovitz, Kahn Rhrissorrakrai, Laxmi Parida
Epidemiological topology data analysis links severe COVID-19 to RAAS and hyperlipidemia associated metabolic syndrome conditions. AMIA (2022)
Saugata Basu, Negin Karisani, Laxmi Parida
Sequents, barcodes, and homology. CoRR (2022)
Aritra Bose, Filippo Utro, Daniel E. Platt, Laxmi Parida
Multiple Loci Selection with Multi-Way Epistasis in Coalescence with Recombination. Algorithms 14 (5) (2021)
Negin Karisani, Daniel E. Platt, Saugata Basu, Laxmi Parida
Inferring COVID-19 Biological Pathways from Clinical Phenotypes via Topological Analysis. CoRR (2021)
Sanjoy Dey, Aritra Bose, Subrata Saha, Prithwish Chakraborty, Mohamed F. Ghalwash, Filippo Utro, Aldo Guzmán-Sáenz, Kenney Ng, Jianying Hu, Laxmi Parida, Daby Sow
Impact of Clinical and Genomic Factors on COVID-19 Disease Severity. AMIA (2021)
Lingjing Jiang, Niina Haiminen, Anna Paola Carrieri, Shi Huang, Yoshiki Vazquez-Baeza, Laxmi Parida, Ho-Cheol Kim, Austin D. Swafford, Rob Knight, Loki Natarajan
Utilizing stability criteria in choosing feature selection methods yields reproducible results in microbiome data. CoRR (2020)
Sayan Mandal, Aldo Guzmán-Sáenz, Niina Haiminen, Saugata Basu, Laxmi Parida
A Topological Data Analysis Approach on Predicting Phenotypes from Gene Expression Data. AlCoB (2020)
Enrico Siragusa, Niina Haiminen, Richard Finkers, Richard G. F. Visser, Laxmi Parida
Haplotype assembly of autotetraploid potato using integer linear programing. Bioinform. 35 (18) (2019)
Enrico Siragusa, Niina Haiminen, Filippo Utro, Laxmi Parida
Linear Time Algorithms to Construct Populations Fitting Multiple Constraint Distributions at Genomic Scales. IEEE ACM Trans. Comput. Biol. Bioinform. 16 (4) (2019)
Laxmi Parida, Claudia Haferlach, Kahn Rhrissorrakrai, Filippo Utro, Chaya Levovitz, Wolfgang Kern, Niroshan Nadarajah, Sven Twardziok, Stephan Hutter, Manja Meggendorfer, Wencke Walter, Constance Baer, Torsten Haferlach
Dark-matter matters: Discriminating subtle blood cancers using the darkest DNA. PLoS Comput. Biol. 15 (8) (2019)
Enrico Siragusa, Niina Haiminen, Richard Finkers, Richard G. F. Visser, Laxmi Parida
Haplotype assembly of autotetraploid potato using integer linear programing. Bioinform. 35 (21) (2019)
Aldo Guzmán-Sáenz, Niina Haiminen, Saugata Basu, Laxmi Parida
Signal enrichment with strain-level resolution in metagenomes using topological data analysis. BMC Genom. 20 (S2) (2019)
Dan He, Subrata Saha, Richard Finkers, Laxmi Parida
Efficient algorithms for polyploid haplotype phasing. BMC Genom. 19 (S2) (2018)
Laxmi Parida, Filippo Utro
Simultaneous Phasing of Multiple Polyploids. CIBB (2018)
Saugata Basu, Filippo Utro, Laxmi Parida
Essential Simplices in Persistent Homology and Subtle Admixture Detection. WABI (2018)
Cinzia Pizzi, Mattia Ornamenti, Simone Spangaro, Simona E. Rombo, Laxmi Parida
Efficient Algorithms for Sequence Analysis with Entropic Profiles. IEEE ACM Trans. Comput. Biol. Bioinform. 15 (1) (2018)
Dan He, Zhanyong Wang, Laxmi Parida, Eleazar Eskin
IPED2: Inheritance Path Based Pedigree Reconstruction Algorithm for Complicated Pedigrees. IEEE ACM Trans. Comput. Biol. Bioinform. 14 (5) (2017)
Filippo Utro, Daniel E. Platt, Laxmi Parida
A Quantitative and Qualitative Characterization of k-mer Based Alignment-Free Phylogeny Construction. CIBB (2017)
Dan He, Laxmi Parida
MUSE: A Multi-locus Sampling-based Epistasis Algorithm for Quantitative Genetic Trait Prediction. PSB (2017)
Dan He, Laxmi Parida
Does encoding matter? A novel view on the quantitative genetic trait prediction problem. BMC Bioinform. 17 (S-9) (2016)
Dan He, David Kuhn, Laxmi Parida
Novel applications of multitask learning and multiple output regression to multiple genetic trait prediction. Bioinform. 32 (12) (2016)
Anna Paola Carrieri, Niina Haiminen, Laxmi Parida
Host Phenotype Prediction from Differentially Abundant Microbes Using RoDEO. CIBB (2016)
Anna Paola Carrieri, Filippo Utro, Laxmi Parida
Sampling ARG of multiple populations under complex configurations of subdivision and admixture. Bioinform. 32 (7) (2016)
Daniel E. Platt, Saugata Basu, Pierre A. Zalloua, Laxmi Parida
Characterizing redescriptions using persistent homology to isolate genetic pathways contributing to pathogenesis. BMC Syst. Biol. 10 (S-1) (2016)
Laxmi Parida, Niina Haiminen
Scalable Algorithms at Genomic Resolution to fit LD Distributions. BCB (2016)
Stefan Edlund, Kristen L. Beck, Niina Haiminen, Laxmi Parida, Brian D. Storey, Bart C. Weimer, James H. Kaufman, David D. Chambliss
Design of the MCAW compute service for food safety bioinformatics. IBM J. Res. Dev. 60 (5/6) (2016)
Dan He, Irina Rish, David Haws, Laxmi Parida
MINT: Mutual Information Based Transductive Feature Selection for Genetic Trait Prediction. IEEE ACM Trans. Comput. Biol. Bioinform. 13 (3) (2016)
Dan He, Zhanyong Wang, Laxmi Parida
MINED: An Efficient Mutual Information Based Epistasis Detection Method to Improve Quantitative Genetic Trait Prediction. ISBRA (2015)
Dan He, Laxmi Parida
Does encoding matter? A novel view on the quantitative genetic trait prediction problem. BIBM (2015)
Laxmi Parida, Niina Haiminen
SimBA: simulation algorithm to fit extant-population distributions. BMC Bioinform. 16 (2015)
Dan He, Zhanyong Wang, Laxmi Parida
Data-driven encoding for quantitative genetic trait prediction. BMC Bioinform. 16 (S-1) (2015)
Laxmi Parida, Filippo Utro, Deniz Yörükoglu, Anna Paola Carrieri, David Kuhn, Saugata Basu
Topological Signatures for Population Admixture. RECOMB (2015)
Oyetunji E. Ogundijo, Dan He, Laxmi Parida
Performance evaluation of different encoding strategies for quantitative genetic trait prediction. ICCABS (2015)
Dan He, Laxmi Parida
SAME: a sampling-based multi-locus epistasis algorithm for quantitative genetic trait prediction. BCB (2015)
Laxmi Parida, Niina Haiminen, David Haws, Jan Suchodolski
Host Trait Prediction of Metagenomic Data for Topology-Based Visualization. ICDCIT (2015)
Dan He, Irina Rish, Laxmi Parida
Transductive HSIC Lasso. SDM (2014)
Dan He, Zhanyong Wang, Laxmi Parida, Eleazar Eskin
IPED2: inheritance path based pedigree reconstruction algorithm for complicated pedigrees. BCB (2014)
Dan He, Zhanyong Wang, Laxmi Parida, Eleazar Eskin
IPED2: Inheritance Path based Pedigree Reconstruction Algorithm for Complicated Pedigrees. CoRR (2014)
Niina Haiminen, Claude Lebreton, Laxmi Parida
Best-Fit in Linear Time for Non-generative Population Simulation - (Extended Abstract). WABI (2014)
Laxmi Parida, Cinzia Pizzi, Simona E. Rombo
Irredundant tandem motifs. Theor. Comput. Sci. 525 (2014)
Laxmi Parida, Cinzia Pizzi, Simona E. Rombo
Entropic Profiles, Maximal Motifs and the Discovery of Significant Repetitions in Genomic Sequences. WABI (2014)
Daniel E. Platt, Filippo Utro, Laxmi Parida
Effect of sampling on the extent and accuracy of the inferred genetic history of recombining genome. Comput. Biol. Chem. 50 (2014)
Saugata Basu, Laxmi Parida
Spectral Sequences, Exact Couples and Persistent Homology of filtrations. CoRR (2013)
Filippo Utro, Marc Pybus, Laxmi Parida
Sum of parts is greater than the whole: inference of common genetic history of populations. BMC Genom. 14 (S-1) (2013)
Jonas S. Almeida, Andreas W. M. Dress, Titus Kühne, Laxmi Parida
ICT for Bridging Biology and Medicine (Dagstuhl Perspectives Workshop 13342). Dagstuhl Manifestos 3 (1) (2013)
Jonas S. Almeida, Andreas W. M. Dress, Titus Kühne, Laxmi Parida
ICT Strategies for Bridging Biology and Precision Medicine (Dagstuhl Perspectives Workshop 13342). Dagstuhl Reports 3 (8) (2013)
Laxmi Parida
Using Random Graphs in Population Genomics. CiE (2013)
Dan He, Zhanyong Wang, Buhm Han, Laxmi Parida, Eleazar Eskin
IPED: Inheritance Path Based Pedigree Reconstruction Algorithm Using Genotype Data. RECOMB (2013)
Dan He, Irina Rish, David Haws, Simon Teyssedre, Zivan Karaman, Laxmi Parida
MINT: Mutual Information based Transductive Feature Selection for Genetic Trait Prediction. CoRR (2013)
Alberto Apostolico, Matteo Comin, Andreas W. M. Dress, Laxmi Parida
Ultrametric networks: a new tool for phylogenetic analysis. Algorithms Mol. Biol. 8 (2013)
Niina Haiminen, Filippo Utro, Claude Lebreton, Pascal Flament, Zivan Karaman, Laxmi Parida
Chromosomal Representation of Populations via Indexing Ancestral Genomes. Algorithms 6 (3) (2013)
Dan He, Zhanyong Wang, Buhm Han, Laxmi Parida, Eleazar Eskin
IPED: Inheritance Path-based Pedigree Reconstruction Algorithm Using Genotype Data. J. Comput. Biol. 20 (10) (2013)
Amihood Amir, Laxmi Parida
Combinatorial Pattern Matching (CPM 2010). Inf. Comput. 213 (2012)
Filippo Utro, Omar Cornejo, Donald Livingstone, Juan Motamayor, Laxmi Parida
ARG-based genome-wide analysis of cacao cultivars. BMC Bioinform. 13 (S-19) (2012)
Alberto Apostolico, Andreas W. M. Dress, Laxmi Parida
Structure Discovery in Biology: Motifs, Networks & Phylogenies (Dagstuhl Seminar 12291). Dagstuhl Reports 2 (7) (2012)
Laxmi Parida, Cinzia Pizzi, Simona E. Rombo
Characterization and Extraction of Irredundant Tandem Motifs. SPIRE (2012)
Asif Javed, Marc Pybus, Marta Melé, Filippo Utro, Jaume Bertranpetit, Francesc Calafell, Laxmi Parida
IRiS: Construction of ARG networks at genomic scales. Bioinform. 27 (17) (2011)
Debprakash Patnaik, Patrick Butler, Naren Ramakrishnan, Laxmi Parida, Benjamin J. Keller, David A. Hanauer
Experiences with mining temporal event sequences from electronic medical records: initial successes and some challenges. KDD (2011)
Laxmi Parida, Pier Palamara, Asif Javed
A minimal descriptor of an ancestral recombinations graph. BMC Bioinform. 12 (S-1) (2011)
Asif Javed, Laxmi Parida
: population genomics from a recombination perspective. C3S2E (2010)
Laxmi Parida, Gene Myers
APBC 2010. The Eighth Asia Pacific Bioinformatics Conference Bangalore, India, 18-21 January 2010. BMC Bioinform. 11 (S-1) (2010)
Marta Melé, Asif Javed, Marc Pybus, Francesc Calafell, Laxmi Parida, Jaume Bertranpetit
A New Method to Reconstruct Recombination Events at a Genomic Scale. PLoS Comput. Biol. 6 (11) (2010)
Alberto Apostolico, Matteo Comin, Laxmi Parida
VARUN: Discovering Extensible Motifs under Saturation Constraints. IEEE ACM Trans. Comput. Biol. Bioinform. 7 (4) (2010)
Laxmi Parida
Combinatorics in Recombinational Population Genomics. ISBRA (2010)
Alberto Apostolico, Andreas W. M. Dress, Laxmi Parida
10231 Abstracts Collection - Structure Discovery in Biology: Motifs, Networks & Phylogenies. Structure Discovery in Biology: Motifs, Networks & Phylogenies (2010)
Laxmi Parida
Ancestral Recombinations Graph: A Reconstructability Perspective Using Random-Graphs Framework. J. Comput. Biol. 17 (10) (2010)
Laxmi Parida, Asif Javed, Marta Melé, Francesc Calafell, Jaume Bertranpetit
Minimizing recombinations in consensus networks for phylogeographic studies. BMC Bioinform. 10 (S-1) (2009)
Alberto Apostolico, Laxmi Parida, Simona E. Rombo
Motif patterns in 2D. Theor. Comput. Sci. 390 (1) (2008)
Laxmi Parida, Marta Melé, Francesc Calafell, Jaume Bertranpetit
Estimating the Ancestral Recombinations Graph (ARG) as Compatible Networks of SNP Patterns. J. Comput. Biol. 15 (9) (2008)
Matteo Comin, Laxmi Parida
Detection of subtle variations as consensus motifs. Theor. Comput. Sci. 395 (2-3) (2008)
Laxmi Parida
Statistical Significance of Large Gene Clusters. J. Comput. Biol. 14 (9) (2007)
Ruhong Zhou, Laxmi Parida, Kush Kapila, Sudhir P. Mudur
PROTERAN: animated terrain evolution for visual analysis of patterns in protein folding trajectory. Bioinform. 23 (1) (2007)
Matteo Comin, Laxmi Parida
Subtle Motif Discovery for Detection of DNA Regulatory Sites. APBC (2007)
Laxmi Parida
Gapped Permutation Pattern Discovery for Gene Order Comparisons. J. Comput. Biol. 14 (1) (2007)
Laxmi Parida
Discovering Topological Motifs Using a Compact Notation. J. Comput. Biol. 14 (3) (2007)
Ajay K. Royyuru, Gabriela Alexe, Daniel E. Platt, Ravi Vijaya Satya, Laxmi Parida, Saharon Rosset, Gyan Bhanot
Inferring Common Origins from mtDNA. RECOMB (2006)
Alberto Apostolico, Matteo Comin, Laxmi Parida
Mining, compressing and classifying with extensible motifs. Algorithms Mol. Biol. 1 (2006)
Laxmi Parida
Using PQ Structures for Genomic Rearrangement Phylogeny. J. Comput. Biol. 13 (10) (2006)
Laxmi Parida
Gapped Permutation Patterns for Comparative Genomics. WABI (2006)
Laxmi Parida
A PQ Framework for Reconstructions of Common Ancestors and Phylogeny. Comparative Genomics (2006)
Alberto Apostolico, Matteo Comin, Laxmi Parida
Bridging Lossy and Lossless Compression by Motif Pattern Discovery. GTIT-C (2006)
Md. Enamul Karim, Laxmi Parida, Arun Lakhotia
Using Permutation Patterns for Content-Based Phylogeny. PRIB (2006)
Ravi Vijaya Satya, Amar Mukherjee, Gabriela Alexe, Laxmi Parida, Gyan Bhanot
Constructing Near-Perfect Phylogenies with multiple homoplasy events. ISMB (Supplement of Bioinformatics) (2006)
Gad M. Landau, Laxmi Parida, Oren Weimann
Using PQ Trees for Comparative Genomics. CPM (2005)
Gad M. Landau, Laxmi Parida, Oren Weimann
. J. Comput. Biol. 12 (10) (2005)
Abhijit Chattaraj, Laxmi Parida
An inexact-suffix-tree-based algorithm for detecting extensible patterns. Theor. Comput. Sci. 335 (1) (2005)
Alberto Apostolico, Matteo Comin, Laxmi Parida
Off-Line Compression by Extensible Motifs. DCC (2005)
Md. Enamul Karim, Andrew Walenstein, Arun Lakhotia, Laxmi Parida
Malware phylogeny generation using permutations of code. J. Comput. Virol. 1 (1-2) (2005)
Laxmi Parida, Naren Ramakrishnan
Redescription Mining: Structure Theory and Algorithms. AAAI (2005)
Alberto Apostolico, Matteo Comin, Laxmi Parida
Bridging Lossy and Lossless Compression by Motif Pattern Discovery. Electron. Notes Discret. Math. 21 (2005)
Alberto Apostolico, Matteo Comin, Laxmi Parida
Conservative extraction of over-represented extensible motifs. ISMB (Supplement of Bioinformatics) (2005)
Laxmi Parida, Ruhong Zhou
-Hairpin. PLoS Comput. Biol. 1 (1) (2005)
J. Feng, Laxmi Parida, Ruhong Zhou
Protein folding trajectory analysis using patterned clusters. APBC (2005)
Alberto Apostolico, Matteo Comin, Laxmi Parida
Motifs in Ziv-Lempel-Welch Clef. Data Compression Conference (2004)
Alberto Apostolico, Laxmi Parida
Incremental Paradigms of Motif Discovery. J. Comput. Biol. 11 (1) (2004)
Revital Eres, Gad M. Landau, Laxmi Parida
Permutation Pattern Discovery in Biosequences. J. Comput. Biol. 11 (6) (2004)

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Publication Activity (10 Years)

Top Topics

Top Venues

Laxmi Parida