S1FigData_PvlkRAFdataset_2 samples Pvl07 to Pvl09

VCF file for SNPs used in GEMMA analysis

Alan Brelsford (571681)
David Toews (3250758)
Darren Irwin (3250761)

March 2018

Variant Call Format file (GZipped) for individuals used for genotype-phenotype associations. Sample ...

VCF file containing information on the identified SNPs

Mukrimin, Mukrimin
Kovalchuk, Andriy
Neves, Leandro G.
Jaber, Emad H.
Haapanen, Matti
Kirst, Matias
Asiegbu, Fred O.

June 2018

The VCF file sontains information on the genetic variants (SNPs) identified by exome resequencing ge...

VCF file

Elizabeth G. Mandeville (3264372)
Thomas L. Parchman (3194763)
David B. McDonald (3250317)
C. Alex Buerkle (2143213)

December 2016

This is the raw VCF file containing all 32,978 variant genetic sites initially identified from assem...

S1FigData_PvlkRAFdataset_2 samples Pvl07 to Pvl09

Gilabert, Aude
Otto, Thomas D.
Rutledge, Gavin G.
Franzon, Blaise
Ollomo, Benjamin
Arnathau, Céline
Durand, Patrick
Moukodoum, Nancy D.
Okouga, Alain-Prince
Ngoubangoye, Barthélémy
Makanga, Boris
Boundenga, Larson
Paupy, Christophe
Renaud, François
Prugnolle, Franck
Rougeron, Virginie

August 2018

This archive contains the vcf files listing all the high quality positions kept to draw the referenc...

S1FigData_PvlkRAFdataset_1 samples Pvl01 to Pvl06

Gilabert, Aude
Otto, Thomas D.
Rutledge, Gavin G.
Franzon, Blaise
Ollomo, Benjamin
Arnathau, Céline
Durand, Patrick
Moukodoum, Nancy D.
Okouga, Alain-Prince
Ngoubangoye, Barthélémy
Makanga, Boris
Boundenga, Larson
Paupy, Christophe
Renaud, François
Prugnolle, Franck
Rougeron, Virginie

August 2018

This archive contains the vcf files listing all the high quality positions kept to draw the referenc...

S1FigData_PvlkRAFdataset_3 samples Pvl10 and Pvl11

Gilabert, Aude
Otto, Thomas D.
Rutledge, Gavin G.
Franzon, Blaise
Ollomo, Benjamin
Arnathau, Céline
Durand, Patrick
Moukodoum, Nancy D.
Okouga, Alain-Prince
Ngoubangoye, Barthélémy
Makanga, Boris
Boundenga, Larson
Paupy, Christophe
Renaud, François
Prugnolle, Franck
Rougeron, Virginie

August 2018

This archive contains the vcf files listing all the high quality positions kept to draw the referenc...

Main vcf file with allele frequency estimates

Martin Kardos (3285978)
Gordon Luikart (2871419)
Rowan Bunch (3313518)
Sarah Dewey (3313512)
William Edwards (1770799)
Sean McWilliam (9473)
John Stephenson (3313515)
Fred W. Allendorf (108378)
John T. Hogg (3247221)
James Kijas (216935)

November 2016

vcf including SNPs on all chromosomes, and allele frequency estimates. See README file for more info...

Anntotated VCF file

Bergland, Alan O.
Behrman, Emily L.
O'Brien, Katherine R.
Schmidt, Paul S.
Petrov, Dmitri A.

December 2014

Annotated VCF file containing allele frequency and read depths of the 14 samples described in Bergla...

Treusch et al. Data

Sebastian Treusch (682525)
Frank W. Albert (133765)
Joshua S. Bloom (528532)
Iulia E. Kotenko (682526)
Leonid Kruglyak (4562)

November 2016

The data archive contains VCF files derived from the sequenced X-QTL samples, allele frequency measu...

full_filt.vcf

Dayan, David I
Du, Xiao
Baris, Tara Z
wagner, Dominique N
Crawford, Douglas L
Oleksiak, Marjorie F

February 2019

Fully filtered vcf file containing the genotypes for the 239 individuals genotyped at 5,907 single n...

VinVoile.VQSR.HighQualitybiall.vcf

Coi, Anna-Lisa
Bigey, Frederic
Mallet, Sandrine
Marsit, Souhir
Zara, Giacomo
Gladieux, Pierre
Galeote, Virginie
Budroni, Marilena
Dequin, Sylvie
Legras, Jean-Luc

February 2017

Compressed (tgz) Vcf file containing a subset of high quality biallelic variant filtered out from th...

VCF file containing bi-allelic SNPs

Zhen, Ying
Harrigan, Ryan J.
Ruegg, Kristen C.
Anderson, Eric C.
Ng, Thomas C.
Lao, Sirena
Lohmueller, Kirk E.
Smith, Thomas B.

July 2017

VCF file contains 255,290 bi-allelic SNPs identified from RADseq data from 182 samples using stacks ...

VCF file (gzipped)

Mandeville, Elizabeth
Walters, Annika
Nordberg, Brittany
Higgins, Karly
Burckhardt, Jason
Wagner, Catherine

June 2019

VCF file containing data for 1286 individuals and 12666 loci. Minor allele frequency cut-off of 0.05...

VCF file of 117 M. tuberculosis samples

Michael Hall (12193211)

July 2023

This is the VCF of variants from the 117 M. tuberculosis samples that were used to construct the ref...

Reference allele and alternative allele/indel frequencies observed for all positions of F8 and VWF for all subjects.

Eric Manderstedt (4814349)
Rosanna Nilsson (6640646)
Christina Lind-Halldén (3163089)
Rolf Ljung (6640649)
Jan Astermark (6640652)
Christer Halldén (224663)

April 2019

(A) Reference allele frequencies. Expected frequencies for hemizygote (F8) and heterozygote (VWF) po...

VCF file for SNPs used in GEMMA analysis

Alan Brelsford (571681)
David Toews (3250758)
Darren Irwin (3250761)

March 2018

Variant Call Format file (GZipped) for individuals used for genotype-phenotype associations. Sample ...

VCF file containing information on the identified SNPs

Mukrimin, Mukrimin
Kovalchuk, Andriy
Neves, Leandro G.
Jaber, Emad H.
Haapanen, Matti
Kirst, Matias
Asiegbu, Fred O.

June 2018

The VCF file sontains information on the genetic variants (SNPs) identified by exome resequencing ge...

VCF file

Elizabeth G. Mandeville (3264372)
Thomas L. Parchman (3194763)
David B. McDonald (3250317)
C. Alex Buerkle (2143213)

December 2016

This is the raw VCF file containing all 32,978 variant genetic sites initially identified from assem...

S1FigData_PvlkRAFdataset_2 samples Pvl07 to Pvl09

Gilabert, Aude
Otto, Thomas D.
Rutledge, Gavin G.
Franzon, Blaise
Ollomo, Benjamin
Arnathau, Céline
Durand, Patrick
Moukodoum, Nancy D.
Okouga, Alain-Prince
Ngoubangoye, Barthélémy
Makanga, Boris
Boundenga, Larson
Paupy, Christophe
Renaud, François
Prugnolle, Franck
Rougeron, Virginie

August 2018

This archive contains the vcf files listing all the high quality positions kept to draw the referenc...

S1FigData_PvlkRAFdataset_1 samples Pvl01 to Pvl06

Gilabert, Aude
Otto, Thomas D.
Rutledge, Gavin G.
Franzon, Blaise
Ollomo, Benjamin
Arnathau, Céline
Durand, Patrick
Moukodoum, Nancy D.
Okouga, Alain-Prince
Ngoubangoye, Barthélémy
Makanga, Boris
Boundenga, Larson
Paupy, Christophe
Renaud, François
Prugnolle, Franck
Rougeron, Virginie

August 2018

This archive contains the vcf files listing all the high quality positions kept to draw the referenc...

S1FigData_PvlkRAFdataset_3 samples Pvl10 and Pvl11

Gilabert, Aude
Otto, Thomas D.
Rutledge, Gavin G.
Franzon, Blaise
Ollomo, Benjamin
Arnathau, Céline
Durand, Patrick
Moukodoum, Nancy D.
Okouga, Alain-Prince
Ngoubangoye, Barthélémy
Makanga, Boris
Boundenga, Larson
Paupy, Christophe
Renaud, François
Prugnolle, Franck
Rougeron, Virginie

August 2018

This archive contains the vcf files listing all the high quality positions kept to draw the referenc...

Main vcf file with allele frequency estimates

Martin Kardos (3285978)
Gordon Luikart (2871419)
Rowan Bunch (3313518)
Sarah Dewey (3313512)
William Edwards (1770799)
Sean McWilliam (9473)
John Stephenson (3313515)
Fred W. Allendorf (108378)
John T. Hogg (3247221)
James Kijas (216935)

November 2016

vcf including SNPs on all chromosomes, and allele frequency estimates. See README file for more info...

Anntotated VCF file

Bergland, Alan O.
Behrman, Emily L.
O'Brien, Katherine R.
Schmidt, Paul S.
Petrov, Dmitri A.

December 2014

Annotated VCF file containing allele frequency and read depths of the 14 samples described in Bergla...

Treusch et al. Data

Sebastian Treusch (682525)
Frank W. Albert (133765)
Joshua S. Bloom (528532)
Iulia E. Kotenko (682526)
Leonid Kruglyak (4562)

November 2016

The data archive contains VCF files derived from the sequenced X-QTL samples, allele frequency measu...

full_filt.vcf

Dayan, David I
Du, Xiao
Baris, Tara Z
wagner, Dominique N
Crawford, Douglas L
Oleksiak, Marjorie F

February 2019

Fully filtered vcf file containing the genotypes for the 239 individuals genotyped at 5,907 single n...

VinVoile.VQSR.HighQualitybiall.vcf

Coi, Anna-Lisa
Bigey, Frederic
Mallet, Sandrine
Marsit, Souhir
Zara, Giacomo
Gladieux, Pierre
Galeote, Virginie
Budroni, Marilena
Dequin, Sylvie
Legras, Jean-Luc

February 2017

Compressed (tgz) Vcf file containing a subset of high quality biallelic variant filtered out from th...

VCF file containing bi-allelic SNPs

Zhen, Ying
Harrigan, Ryan J.
Ruegg, Kristen C.
Anderson, Eric C.
Ng, Thomas C.
Lao, Sirena
Lohmueller, Kirk E.
Smith, Thomas B.

July 2017

VCF file contains 255,290 bi-allelic SNPs identified from RADseq data from 182 samples using stacks ...

VCF file (gzipped)

Mandeville, Elizabeth
Walters, Annika
Nordberg, Brittany
Higgins, Karly
Burckhardt, Jason
Wagner, Catherine

June 2019

VCF file containing data for 1286 individuals and 12666 loci. Minor allele frequency cut-off of 0.05...

VCF file of 117 M. tuberculosis samples

Michael Hall (12193211)

July 2023

This is the VCF of variants from the 117 M. tuberculosis samples that were used to construct the ref...

Reference allele and alternative allele/indel frequencies observed for all positions of F8 and VWF for all subjects.

Eric Manderstedt (4814349)
Rosanna Nilsson (6640646)
Christina Lind-Halldén (3163089)
Rolf Ljung (6640649)
Jan Astermark (6640652)
Christer Halldén (224663)

April 2019

(A) Reference allele frequencies. Expected frequencies for hemizygote (F8) and heterozygote (VWF) po...

VCF file for SNPs used in GEMMA analysis

Alan Brelsford (571681)
David Toews (3250758)
Darren Irwin (3250761)

March 2018

Variant Call Format file (GZipped) for individuals used for genotype-phenotype associations. Sample ...

VCF file containing information on the identified SNPs

Mukrimin, Mukrimin
Kovalchuk, Andriy
Neves, Leandro G.
Jaber, Emad H.
Haapanen, Matti
Kirst, Matias
Asiegbu, Fred O.

June 2018

The VCF file sontains information on the genetic variants (SNPs) identified by exome resequencing ge...

VCF file

Elizabeth G. Mandeville (3264372)
Thomas L. Parchman (3194763)
David B. McDonald (3250317)
C. Alex Buerkle (2143213)

December 2016

This is the raw VCF file containing all 32,978 variant genetic sites initially identified from assem...

S1FigData_PvlkRAFdataset_2 samples Pvl07 to Pvl09

Abstract

Extracted data

S1FigData_PvlkRAFdataset_2 samples Pvl07 to Pvl09

Abstract

Extracted data

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