| Year |
Citation |
Score |
| 2023 |
Romashchenko N, Linard B, Pardi F, Rivals E. EPIK: precise and scalable evolutionary placement with informative k-mers. Bioinformatics (Oxford, England). 39. PMID 37975872 DOI: 10.1093/bioinformatics/btad692 |
0.32 |
|
| 2021 |
De Maio N, Alekseyenko AV, Coleman-Smith WJ, Pardi F, Suchard MA, Tamuri AU, Truszkowski J, Goldman N. A phylogenetic approach for weighting genetic sequences. Bmc Bioinformatics. 22: 285. PMID 34049487 DOI: 10.1186/s12859-021-04183-8 |
0.724 |
|
| 2020 |
Truszkowski J, Scornavacca C, Pardi F. Computing the probability of gene trees concordant with the species tree in the multispecies coalescent. Theoretical Population Biology. PMID 33333117 DOI: 10.1016/j.tpb.2020.12.002 |
0.704 |
|
| 2020 |
Linard B, Romashchenko N, Pardi F, Rivals E. PEWO: a collection of workflows to benchmark phylogenetic placement. Bioinformatics (Oxford, England). PMID 32697844 DOI: 10.1093/Bioinformatics/Btaa657 |
0.379 |
|
| 2019 |
Linard B, Swenson K, Pardi F. Rapid alignment-free phylogenetic identification of metagenomic sequences. Bioinformatics (Oxford, England). PMID 30698645 DOI: 10.1093/Bioinformatics/Btz068 |
0.439 |
|
| 2019 |
Pardi F, Scornavacca C. Correction: Reconstructible Phylogenetic Networks: Do Not Distinguish the Indistinguishable Plos Computational Biology. 15. DOI: 10.1371/Journal.Pcbi.1007137.S001 |
0.32 |
|
| 2018 |
Kelk S, Pardi F, Scornavacca C, van Iersel L. Finding a most parsimonious or likely tree in a network with respect to an alignment. Journal of Mathematical Biology. PMID 30121824 DOI: 10.1007/S00285-018-1282-2 |
0.311 |
|
| 2017 |
Gambette P, van Iersel L, Jones M, Lafond M, Pardi F, Scornavacca C. Rearrangement moves on rooted phylogenetic networks. Plos Computational Biology. 13: e1005611. PMID 28763439 DOI: 10.1371/Journal.Pcbi.1005611 |
0.351 |
|
| 2016 |
Gambette P, van Iersel L, Kelk S, Pardi F, Scornavacca C. Do Branch Lengths Help to Locate a Tree in a Phylogenetic Network? Bulletin of Mathematical Biology. PMID 27659024 DOI: 10.1007/S11538-016-0199-4 |
0.386 |
|
| 2016 |
Binet M, Gascuel O, Scornavacca C, P Douzery EJ, Pardi F. Fast and accurate branch lengths estimation for phylogenomic trees. Bmc Bioinformatics. 17: 23. PMID 26744021 DOI: 10.1186/S12859-015-0821-8 |
0.434 |
|
| 2015 |
Pardi F, Scornavacca C. Reconstructible phylogenetic networks: do not distinguish the indistinguishable. Plos Computational Biology. 11: e1004135. PMID 25849429 DOI: 10.1371/Journal.Pcbi.1004135 |
0.32 |
|
| 2012 |
Pardi F, Gascuel O. Combinatorics of distance-based tree inference Proceedings of the National Academy of Sciences of the United States of America. 109: 16443-16448. PMID 23012403 DOI: 10.1073/Pnas.1118368109 |
0.353 |
|
| 2010 |
Pardi F, Guillemot S, Gascuel O. Robustness of Phylogenetic Inference Based on Minimum Evolution Bulletin of Mathematical Biology. 72: 1820-1839. PMID 20449671 DOI: 10.1007/S11538-010-9510-Y |
0.366 |
|
| 2010 |
Alon N, Chor B, Pardi F, Rapoport A. Approximate maximum parsimony and ancestral maximum likelihood Ieee/Acm Transactions On Computational Biology and Bioinformatics. 7: 183-187. PMID 20150680 DOI: 10.1109/Tcbb.2008.13 |
0.32 |
|
| 2008 |
Faller B, Pardi F, Steel M. Distribution of phylogenetic diversity under random extinction Journal of Theoretical Biology. 251: 286-296. PMID 18199459 DOI: 10.1016/J.Jtbi.2007.11.034 |
0.376 |
|
| 2008 |
Tress ML, Wesselink JJ, Frankish A, López G, Goldman N, Löytynoja A, Massingham T, Pardi F, Whelan S, Harrow J, Valencia A. Determination and validation of principal gene products. Bioinformatics (Oxford, England). 24: 11-7. PMID 18006548 DOI: 10.1093/Bioinformatics/Btm547 |
0.661 |
|
| 2007 |
Birney E, Stamatoyannopoulos JA, Dutta A, Guigó R, Gingeras TR, Margulies EH, Weng Z, Snyder M, Dermitzakis ET, Thurman RE, Kuehn MS, Taylor CM, Neph S, Koch CM, ... ... Pardi F, et al. Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project. Nature. 447: 799-816. PMID 17571346 DOI: 10.1038/Nature05874 |
0.676 |
|
| 2007 |
Margulies EH, Cooper GM, Asimenos G, Thomas DJ, Dewey CN, Siepel A, Birney E, Keefe D, Schwartz AS, Hou M, Taylor J, Nikolaev S, Montoya-Burgos JI, Löytynoja A, Whelan S, ... Pardi F, et al. Analyses of deep mammalian sequence alignments and constraint predictions for 1% of the human genome. Genome Research. 17: 760-74. PMID 17567995 DOI: 10.1101/Gr.6034307 |
0.689 |
|
| 2007 |
Pardi F, Goldman N. Resource-aware taxon selection for maximizing phylogenetic diversity. Systematic Biology. 56: 431-44. PMID 17558965 DOI: 10.1080/10635150701411279 |
0.544 |
|
| 2005 |
Pardi F, Goldman N. Species choice for comparative genomics: being greedy works. Plos Genetics. 1: e71. PMID 16327885 DOI: 10.1371/Journal.Pgen.0010071 |
0.642 |
|
| 2005 |
Pardi F, Levinson DF, Lewis CM. GSMA: Software implementation of the genome search meta-analysis method Bioinformatics. 21: 4430-4431. PMID 16249265 DOI: 10.1093/Bioinformatics/Bti725 |
0.405 |
|
| 2005 |
Fisher SA, Abecasis GR, Yashar BM, Zareparsi S, Swaroop A, Iyengar SK, Klein BE, Klein R, Lee KE, Majewski J, Schultz DW, Klein ML, Seddon JM, Santangelo SL, Weeks DE, ... ... Pardi F, et al. Meta-analysis of genome scans of age-related macular degeneration. Human Molecular Genetics. 14: 2257-64. PMID 15987700 DOI: 10.1093/Hmg/Ddi230 |
0.389 |
|
| 2005 |
Pardi F, Sibly RM, Wilkinson MJ, Whittaker JC. On the structural differences between markers and genomic AC microsatellites Journal of Molecular Evolution. 60: 688-693. PMID 15983876 DOI: 10.1007/S00239-004-0274-6 |
0.377 |
|
| 2005 |
Pardi F, Goldman N. Species choice for comparative genomics: Being greedy works Plos Genetics. 1: 0672-0675. DOI: 10.1371 /journal.pgen.0010071 |
0.554 |
|
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