Pesquisa | BVS Doenças Infecciosas e Parasitárias

1.

Gain-loss-duplication models for copy number evolution on a phylogeny: Exact algorithms for computing the likelihood and its gradient.

Csurös, Miklós.

Theor Popul Biol ; 145: 80-94, 2022 06.

Artigo em Inglês | MEDLINE | ID: mdl-35314171

2.

Non-identifiability of identity coefficients at biallelic loci.

Csurös, Miklós.

Theor Popul Biol ; 92: 22-9, 2014 Mar.

Artigo em Inglês | MEDLINE | ID: mdl-24269334

3.

Joint genotype inference with germline and somatic mutations.

Bareke, Eric; Saillour, Virginie; Spinella, Jean-François; Vidal, Ramon; Healy, Jasmine; Sinnett, Daniel; Csurös, Miklós.

BMC Bioinformatics ; 14 Suppl 5: S3, 2013.

Artigo em Inglês | MEDLINE | ID: mdl-23734724

4.

A detailed history of intron-rich eukaryotic ancestors inferred from a global survey of 100 complete genomes.

Csuros, Miklos; Rogozin, Igor B; Koonin, Eugene V.

PLoS Comput Biol ; 7(9): e1002150, 2011 Sep.

Artigo em Inglês | MEDLINE | ID: mdl-21935348

5.

Count: evolutionary analysis of phylogenetic profiles with parsimony and likelihood.

Csurös, Miklós.

Bioinformatics ; 26(15): 1910-2, 2010 Aug 01.

Artigo em Inglês | MEDLINE | ID: mdl-20551134

6.

Streamlining and large ancestral genomes in Archaea inferred with a phylogenetic birth-and-death model.

Csurös, Miklós; Miklós, István.

Mol Biol Evol ; 26(9): 2087-95, 2009 Sep.

Artigo em Inglês | MEDLINE | ID: mdl-19570746

7.

Reconsidering the significance of genomic word frequencies.

Csurös, Miklós; Noé, Laurent; Kucherov, Gregory.

Trends Genet ; 23(11): 543-6, 2007 Nov.

Artigo em Inglês | MEDLINE | ID: mdl-17964682

8.

A glimpse of a putative pre-intron phase of eukaryotic evolution.

Sverdlov, Alexander V; Csuros, Miklos; Rogozin, Igor B; Koonin, Eugene V.

Trends Genet ; 23(3): 105-8, 2007 Mar.

Artigo em Inglês | MEDLINE | ID: mdl-17239982

9.

Extremely intron-rich genes in the alveolate ancestors inferred with a flexible maximum-likelihood approach.

Csurös, Miklós; Rogozin, Igor B; Koonin, Eugene V.

Mol Biol Evol ; 25(5): 903-11, 2008 May.

Artigo em Inglês | MEDLINE | ID: mdl-18296415

10.

Malin: maximum likelihood analysis of intron evolution in eukaryotes.

Csurös, Miklós.

Bioinformatics ; 24(13): 1538-9, 2008 Jul 01.

Artigo em Inglês | MEDLINE | ID: mdl-18474506

11.

In search of lost introns.

Csurös, Miklós; Holey, J Andrew; Rogozin, Igor B.

Bioinformatics ; 23(13): i87-96, 2007 Jul 01.

Artigo em Inglês | MEDLINE | ID: mdl-17646350

12.

Splice Sites Seldom Slide: Intron Evolution in Oomycetes.

Sêton Bocco, Steven; Csurös, Miklós.

Genome Biol Evol ; 8(8): 2340-50, 2016 08 25.

Artigo em Inglês | MEDLINE | ID: mdl-27412607

13.

Fast recovery of evolutionary trees with thousands of nodes.

Csurös, Miklós.

J Comput Biol ; 9(2): 277-97, 2002.

Artigo em Inglês | MEDLINE | ID: mdl-12015882

14.

Pooled Genomic Indexing (PGI): analysis and design of experiments.

Csurös, Miklós; Milosavljevic, Aleksandar.

J Comput Biol ; 11(5): 1001-21, 2004.

Artigo em Inglês | MEDLINE | ID: mdl-15700414

15.

Maximum-scoring segment sets.

Csurös, Miklós.

IEEE/ACM Trans Comput Biol Bioinform ; 1(4): 139-50, 2004.

Artigo em Inglês | MEDLINE | ID: mdl-17051696

16.

Clone-array pooled shotgun mapping and sequencing: design and analysis of experiments.

Csürös, Miklós; Li, Bingshan; Milosavljevic, Aleksandar.

Genome Inform ; 14: 186-95, 2003.

Artigo em Inglês | MEDLINE | ID: mdl-15706533

17.

Whence genes in pieces: reconstruction of the exon-intron gene structures of the last eukaryotic common ancestor and other ancestral eukaryotes.

Koonin, Eugene V; Csuros, Miklos; Rogozin, Igor B.

Wiley Interdiscip Rev RNA ; 4(1): 93-105, 2013.

Artigo em Inglês | MEDLINE | ID: mdl-23139082

18.

Evolution of divergent life history strategies in marine alphaproteobacteria.

Luo, Haiwei; Csuros, Miklós; Hughes, Austin L; Moran, Mary Ann.

mBio ; 4(4)2013 Jul 09.

Artigo em Inglês | MEDLINE | ID: mdl-23839216

19.

On the estimation of intron evolution.

Csurös, Miklós.

PLoS Comput Biol ; 2(7): e84; author reply e83, 2006 Jul 28.

Artigo em Inglês | MEDLINE | ID: mdl-16863393

20.

Origin and evolution of spliceosomal introns.

Rogozin, Igor B; Carmel, Liran; Csuros, Miklos; Koonin, Eugene V.

Biol Direct ; 7: 11, 2012 Apr 16.

Artigo em Inglês | MEDLINE | ID: mdl-22507701

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Gain-loss-duplication models for copy number evolution on a phylogeny: Exact algorithms for computing the likelihood and its gradient.

Non-identifiability of identity coefficients at biallelic loci.

Joint genotype inference with germline and somatic mutations.

A detailed history of intron-rich eukaryotic ancestors inferred from a global survey of 100 complete genomes.

Count: evolutionary analysis of phylogenetic profiles with parsimony and likelihood.

Streamlining and large ancestral genomes in Archaea inferred with a phylogenetic birth-and-death model.

Reconsidering the significance of genomic word frequencies.

A glimpse of a putative pre-intron phase of eukaryotic evolution.

Extremely intron-rich genes in the alveolate ancestors inferred with a flexible maximum-likelihood approach.

Malin: maximum likelihood analysis of intron evolution in eukaryotes.

In search of lost introns.

Splice Sites Seldom Slide: Intron Evolution in Oomycetes.

Fast recovery of evolutionary trees with thousands of nodes.

Pooled Genomic Indexing (PGI): analysis and design of experiments.

Maximum-scoring segment sets.

Clone-array pooled shotgun mapping and sequencing: design and analysis of experiments.

Whence genes in pieces: reconstruction of the exon-intron gene structures of the last eukaryotic common ancestor and other ancestral eukaryotes.

Evolution of divergent life history strategies in marine alphaproteobacteria.

On the estimation of intron evolution.

Origin and evolution of spliceosomal introns.