ACI/EurMcwi (MCW)
|
|
| Sequenced By: |
Medical College of Wisconsin (Dr. Howard Jacob) |
| Platform: |
Illumina HiSeq 2000 |
| Secondary Analysis: |
BWA v0.7.7 and GATK v3.2-2 |
| Breeder: |
Medical College of Wisconsin |
| Description: |
Provided by the Medical College of Wisconsin (Dr. Howard Jacob) |
|
|
ACI/EurMcwi (RGD)
|
|
| Platform: |
Illumina HiSeq 2000 |
| Secondary Analysis: |
BWA mem 0.7.15, GATK v.3.6-0 |
| Description: |
Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD |
|
|
ACI/N (MCW)
|
|
| Sequenced By: |
Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner) |
| Platform: |
SOLiD 4 and 5500 |
| Secondary Analysis: |
liftOver (Batch Coordinate Conversion)--genome.ucsc.edu |
| Breeder: |
National Institutes of Health |
| Description: |
Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin |
|
|
BBDP/Wor (RGD)
|
|
| Platform: |
Illumina HiSeq 2000 |
| Secondary Analysis: |
BWA mem 0.7.15, GATK v.3.6-0 |
| Description: |
Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD |
|
|
BN/SsN (MCW)
|
|
| Sequenced By: |
Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner) |
| Platform: |
SOLiD 4 and 5500 |
| Secondary Analysis: |
liftOver (Batch Coordinate Conversion)--genome.ucsc.edu |
| Breeder: |
National Institutes of Health |
| Description: |
Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin |
|
|
Buf/N (MCW)
|
|
| Sequenced By: |
Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner) |
| Platform: |
SOLiD 4 and 5500 |
| Secondary Analysis: |
liftOver (Batch Coordinate Conversion)--genome.ucsc.edu |
| Breeder: |
National Institutes of Health |
| Description: |
Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin |
|
|
COP/CrCrl (MCW & UW)
|
|
| Sequenced By: |
Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull) |
| Platform: |
Illumina HiSeq 2000 |
| Secondary Analysis: |
BWA v0.7.7 and GATK v3.2-2 |
| Breeder: |
Charles River Laboratories |
| Description: |
Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull) |
|
|
F344/NCrl (RGD)
|
|
| Platform: |
Illumina HiSeq 2000 |
| Secondary Analysis: |
BWA mem 0.7.15, GATK v.3.6-0 |
| Description: |
Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD |
|
|
F344/NRrrc (MCW)
|
|
| Sequenced By: |
Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner) |
| Platform: |
SOLiD 4 and 5500 |
| Secondary Analysis: |
liftOver (Batch Coordinate Conversion)--genome.ucsc.edu |
| Breeder: |
National Institutes of Health |
| Description: |
Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin |
|
|
FHH/EurMcwi (MCW)
|
|
| Sequenced By: |
Medical College of Wisconsin (Dr. Howard Jacob) |
| Platform: |
Illumina HiSeq 2000 |
| Secondary Analysis: |
BWA v0.7.7 and GATK v3.2-2 |
| Breeder: |
Medical College of Wisconsin |
| Description: |
Provided by the Medical College of Wisconsin (Dr. Howard Jacob) |
|
|
FHH/EurMcwi (RGD)
|
|
| Platform: |
Illumina HiSeq 2000 |
| Secondary Analysis: |
BWA mem 0.7.15, GATK v.3.6-0 |
| Description: |
Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD |
|
|
FHL/EurMcwi (MCW)
|
|
| Sequenced By: |
Medical College of Wisconsin (Dr. Howard Jacob) |
| Platform: |
Illumina HiSeq 2000 |
| Secondary Analysis: |
BWA v0.7.7 and GATK v3.2-2 |
| Breeder: |
Medical College of Wisconsin |
| Description: |
Provided by the Medical College of Wisconsin (Dr. Howard Jacob) |
|
|
FHL/EurMcwi (RGD)
|
|
| Platform: |
Illumina HiSeq 2000 |
| Secondary Analysis: |
BWA mem 0.7.15, GATK v.3.6-0 |
| Description: |
Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD |
|
|
GH/OmrMcwi (MCW)
|
|
| Sequenced By: |
Medical College of Wisconsin (Dr. Howard Jacob) |
| Platform: |
Illumina HiSeq 2000 |
| Secondary Analysis: |
BWA v0.7.7 and GATK v3.2-2 |
| Breeder: |
Medical College of Wisconsin |
| Description: |
Provided by the Medical College of Wisconsin (Dr. Howard Jacob) |
|
|
GK/Ox (RGD)
|
|
| Platform: |
Illumina HiSeq 2000 |
| Secondary Analysis: |
BWA mem 0.7.15, GATK v.3.6-0 |
| Description: |
Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD |
|
|
LE/Stm (RGD)
|
|
| Platform: |
Illumina HiSeq 2000 |
| Secondary Analysis: |
BWA mem 0.7.15, GATK v.3.6-0 |
| Description: |
Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD |
|
|
LEW/Crl (RGD)
|
|
| Platform: |
Illumina HiSeq 2000 |
| Secondary Analysis: |
BWA mem 0.7.15, GATK v.3.6-0 |
| Description: |
Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD |
|
|
LEW/NCrlBR (RGD)
|
|
| Platform: |
Illumina HiSeq 2000 |
| Secondary Analysis: |
BWA mem 0.7.15, GATK v.3.6-0 |
| Description: |
Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD |
|
|
LH/MavRrrc (RGD)
|
|
| Platform: |
Illumina HiSeq 2000 |
| Secondary Analysis: |
BWA mem 0.7.15, GATK v.3.6-0 |
| Description: |
Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD |
|
|
LL/MavRrrc (RGD)
|
|
| Platform: |
Illumina HiSeq 2000 |
| Secondary Analysis: |
BWA mem 0.7.15, GATK v.3.6-0 |
| Description: |
Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD |
|
|
LN/MavRrrc (RGD)
|
|
| Platform: |
Illumina HiSeq 2000 |
| Secondary Analysis: |
BWA mem 0.7.15, GATK v.3.6-0 |
| Description: |
Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD |
|
|
M520/N (MCW)
|
|
| Sequenced By: |
Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner) |
| Platform: |
SOLiD 4 and 5500 |
| Secondary Analysis: |
liftOver (Batch Coordinate Conversion)--genome.ucsc.edu |
| Breeder: |
National Institutes of Health |
| Description: |
Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin |
|
|
MHS/Gib (RGD)
|
|
| Platform: |
Illumina HiSeq 2000 |
| Secondary Analysis: |
BWA mem 0.7.15, GATK v.3.6-0 |
| Description: |
Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD |
|
|
MNS/Gib (RGD)
|
|
| Platform: |
Illumina HiSeq 2000 |
| Secondary Analysis: |
BWA mem 0.7.15, GATK v.3.6-0 |
| Description: |
Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD |
|
|
MR/N (MCW)
|
|
| Sequenced By: |
Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner) |
| Platform: |
SOLiD 4 and 5500 |
| Secondary Analysis: |
liftOver (Batch Coordinate Conversion)--genome.ucsc.edu |
| Breeder: |
National Institutes of Health |
| Description: |
Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin |
|
|
SBH/Ygl (MCW)
|
|
| Sequenced By: |
Medical College of Wisconsin (Dr. Howard Jacob) |
| Platform: |
Illumina HiSeq 2000 |
| Secondary Analysis: |
BWA v0.7.7 and GATK v3.2-2 |
| Breeder: |
Medical College of Wisconsin |
| Description: |
SBH/Ygl sequenced by MCW |
|
|
SBH/Ygl (RGD)
|
|
| Platform: |
Illumina HiSeq 2000 |
| Secondary Analysis: |
BWA mem 0.7.15, GATK v.3.6-0 |
| Description: |
Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD |
|
|
SBN/Ygl (MCW)
|
|
| Sequenced By: |
Medical College of Wisconsin (Dr. Howard Jacob) |
| Platform: |
Illumina HiSeq 2000 |
| Secondary Analysis: |
BWA v0.7.7 and GATK v3.2-2 |
| Breeder: |
Medical College of Wisconsin |
| Description: |
SBN/Ygl sequenced by MCW |
|
|
SBN/Ygl (RGD)
|
|
| Platform: |
Illumina HiSeq 2000 |
| Secondary Analysis: |
BWA mem 0.7.15, GATK v.3.6-0 |
| Description: |
Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD |
|
|
SHR/NHsd (RGD)
|
|
| Platform: |
Illumina HiSeq 2000 |
| Secondary Analysis: |
BWA mem 0.7.15, GATK v.3.6-0 |
| Description: |
Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD |
|
|
SHRSP/Gcrc (RGD)
|
|
| Platform: |
Illumina HiSeq 2000 |
| Secondary Analysis: |
BWA mem 0.7.15, GATK v.3.6-0 |
| Description: |
Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD |
|
|
SR/JrHsd (MCW)
|
|
| Sequenced By: |
Medical College of Wisconsin (Dr. Howard Jacob) |
| Platform: |
Illumina HiSeq 2000 |
| Secondary Analysis: |
BWA v0.7.7 and GATK v3.2-2 |
| Breeder: |
Harlan Laboratories |
| Description: |
Provided by the Medical College of Wisconsin (Dr. Howard Jacob) |
|
|
SR/JrHsd (RGD)
|
|
| Platform: |
Illumina HiSeq 2000 |
| Secondary Analysis: |
BWA mem 0.7.15, GATK v.3.6-0 |
| Description: |
Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD |
|
|
SS/Jr (RGD)
|
|
| Platform: |
Illumina HiSeq 2000 |
| Secondary Analysis: |
BWA mem 0.7.15, GATK v.3.6-0 |
| Description: |
Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD |
|
|
SS/JrHsdMcwi (MCW)
|
|
| Sequenced By: |
Medical College of Wisconsin (Dr. Howard Jacob) |
| Platform: |
Illumina HiSeq 2000 |
| Secondary Analysis: |
BWA v0.7.7 and GATK v3.2-2 |
| Breeder: |
Medical College of Wisconsin |
| Description: |
Provided by the Medical College of Wisconsin (Dr. Howard Jacob) |
|
|
SS/JrHsdMcwi (RGD)
|
|
| Platform: |
Illumina HiSeq 2000 |
| Secondary Analysis: |
BWA mem 0.7.15, GATK v.3.6-0 |
| Description: |
Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD |
|
|
WAG/Rij (RGD)
|
|
| Platform: |
Illumina HiSeq 2000 |
| Secondary Analysis: |
BWA mem 0.7.15, GATK v.3.6-0 |
| Description: |
Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD |
|
|
WKY/Gcrc (RGD)
|
|
| Platform: |
Illumina HiSeq 2000 |
| Secondary Analysis: |
BWA mem 0.7.15, GATK v.3.6-0 |
| Description: |
Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD |
|
|
WKY/N (MCW)
|
|
| Sequenced By: |
Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner) |
| Platform: |
SOLiD 4 and 5500 |
| Secondary Analysis: |
liftOver (Batch Coordinate Conversion)--genome.ucsc.edu |
| Breeder: |
National Institutes of Health |
| Description: |
Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin |
|
|
WKY/NCrl (RGD)
|
|
| Platform: |
Illumina HiSeq 2000 |
| Secondary Analysis: |
BWA mem 0.7.15, GATK v.3.6-0 |
| Description: |
Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD |
|
|
WKY/NHsd (RGD)
|
|
| Platform: |
Illumina HiSeq 2000 |
| Secondary Analysis: |
BWA mem 0.7.15, GATK v.3.6-0 |
| Description: |
Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD |
|
|
WN/N (MCW)
|
|
| Sequenced By: |
Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner) |
| Platform: |
SOLiD 4 and 5500 |
| Secondary Analysis: |
liftOver (Batch Coordinate Conversion)--genome.ucsc.edu |
| Breeder: |
National Institutes of Health |
| Description: |
Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin |
|
|
Molecular Pathway Annotations
