The Power of Inbreeding: NGS-Based GWAS of Rice Reveals Convergent Evolution during Rice Domestication

Hongru Wang , Xun Xu , Filipe Garrett Vieira , Yunhua Xiao
Molecular Plant 9 ( 7) 975 -985

101
2016
Molecular evolution of the major chemosensory gene families in insects

A Sánchez-Gracia , F G Vieira , J Rozas
Heredity 103 ( 3) 208 -216

427
2009
Evolutionary Genomics and Conservation of the Endangered Przewalski's Horse.

Clio Der Sarkissian , Luca Ermini , Mikkel Schubert , Melinda A. Yang
Current Biology 25 ( 19) 2577 -2583

107
2015
Arctic-adapted dogs emerged at the Pleistocene-Holocene transition.

Mikkel-Holger S. Sinding , Shyam Gopalakrishnan , Jazmín Ramos-Madrigal , Marc de Manuel
Science 368 ( 6498) 1495 -1499

13
2020
Population genomics of grey wolves and wolf-like canids in North America.

Mikkel-Holger S. Sinding , Shyam Gopalakrishan , Filipe G. Vieira , Jose A. Samaniego Castruita
PLOS Genetics 14 ( 11)

19
2018
Male-biased gene expression resolves sexual conflict through the evolution of sex-specific genetic architecture.

Alison E. Wright , Matteo Fumagalli , Christopher R. Cooney , Natasha I. Bloch
Evolution Letters (2018) (In press). 2 ( 2) 52 -61

36
2018
Genomic and proteomic identification of Late Holocene remains: Setting baselines for Black Sea odontocetes

Vincent Biard , Pavel Gol'din , Elena Gladilina , Karina Vishnyakova
Journal of Archaeological Science 15 262 -271

3
2017
Characterizing restriction enzyme‐associated loci in historic ragweed (Ambrosia artemisiifolia) voucher specimens using custom‐designed RNA probes

Fátima Sánchez Barreiro , Filipe G. Vieira , Michael D. Martin , James Haile
Molecular Ecology Resources 17 ( 2) 209 -220

13
2017
Quantifying Population Genetic Differentiation from Next-Generation Sequencing Data

Matteo Fumagalli , Filipe G. Vieira , Thorfinn Sand Korneliussen , Tyler Linderoth
Genetics 195 ( 3) 979 -992

203
2013
Estimating IBD tracts from low coverage NGS data.

Filipe G. Vieira , Anders Albrechtsen , Rasmus Nielsen
Bioinformatics 32 ( 14) 2096 -2102

23
2016
ngsTools: methods for population genetics analyses from next-generation sequencing data

Matteo Fumagalli , Filipe G. Vieira , Tyler Linderoth , Rasmus Nielsen
Bioinformatics 30 ( 10) 1486 -1487

170
2014
Mycobacterial Phylogenomics: An Enhanced Method for Gene Turnover Analysis Reveals Uneven Levels of Gene Gain and Loss among Species and Gene Families

Pablo Librado , Filipe G. Vieira , Alejandro Sánchez-Gracia , Sergios-Orestis Kolokotronis
Genome Biology and Evolution 6 ( 6) 1454 -1465

13
2014
Ancient DNA analysis of Scandinavian medieval drinking horns and the horn of the last aurochs bull

Maiken Hemme Bro-Jørgensen , Christian Carøe , Filipe G. Vieira , Sofia Nestor
Journal of Archaeological Science 99 47 -54

8
2018
BpWrapper: BioPerl-based sequence and tree utilities for rapid prototyping of bioinformatics pipelines.

Yözen Hernández , Rocky Bernstein , Pedro Pagan , Levy Vargas
BMC Bioinformatics 19 ( 1) 76 -76

5
2018
No longer locally extinct? Tracing the origins of a lion ( Panthera leo ) living in Gabon

Ross Barnett , Mikkel-Holder S Sinding , Filipe G Vieira , Marie Lisandra Zepeda Mendoza
Conservation Genetics 19 ( 3) 611 -618

5
2018
Interspecific Gene Flow Shaped the Evolution of the Genus Canis.

Bent Petersen , Thomas Sicheritz-Ponten , Lutz Bachmann , Øystein Wiig
Current Biology 28 ( 21) 4152

48
2018
Estimating inbreeding coefficients from NGS data: Impact on genotype calling and allele frequency estimation

Filipe G. Vieira , Matteo Fumagalli , Anders Albrechtsen , Rasmus Nielsen
Genome Research 23 ( 11) 1852 -1861

85
2013
Asian wild rice is a hybrid swarm with extensive gene flow and feralization from domesticated rice.

Hongru Wang , Filipe G. Vieira , Jacob E. Crawford , Chengcai Chu
Genome Research 27 ( 6) 1029 -1038

58
2017