pavca_MI
Palmer Lab - UCSD
Apurva Chitre
07 February, 2020
1 Phenotype information
PI: Shelly Flagel
Domain: Central nervous system
Sub-domain: behavior
2 Trait descriptions
3 Demographic information
4 Age distribution
5 Raw trait distribution
5.1 pavca MI AvgLatLev D4D5
5.2 pavca MI AvgLatMag D4D5
5.3 pavca MI d1 avg lev lat
5.4 pavca MI d1 avg mag lat
5.5 pavca MI d1 index
5.6 pavca MI d1 latency score
5.7 pavca MI d1 lever cs
5.8 pavca MI d1 magazine cs
5.9 pavca MI d1 magazine ncs
5.10 pavca MI d1 prob diff
5.11 pavca MI d1 prob lev
5.12 pavca MI d1 prob mag
5.13 pavca MI d1 response bias
5.14 pavca MI d2 avg lev lat
5.15 pavca MI d2 avg mag lat
5.16 pavca MI d2 index
5.17 pavca MI d2 latency score
5.18 pavca MI d2 lever cs
5.19 pavca MI d2 magazine cs
5.20 pavca MI d2 magazine ncs
5.21 pavca MI d2 prob diff
5.22 pavca MI d2 prob lev
5.23 pavca MI d2 prob mag
5.24 pavca MI d2 response bias
5.25 pavca MI d3 avg lev lat
5.26 pavca MI d3 avg mag lat
5.27 pavca MI d3 index
5.28 pavca MI d3 latency score
5.29 pavca MI d3 lever cs
5.30 pavca MI d3 magazine cs
5.31 pavca MI d3 magazine ncs
5.32 pavca MI d3 prob diff
5.33 pavca MI d3 prob lev
5.34 pavca MI d3 prob mag
5.35 pavca MI d3 response bias
5.36 pavca MI d4 avg lev lat
5.37 pavca MI d4 avg mag lat
5.38 pavca MI d4 index
5.39 pavca MI d4 latency score
5.40 pavca MI d4 lever cs
5.41 pavca MI d4 magazine cs
5.42 pavca MI d4 magazine ncs
5.43 pavca MI d4 prob diff
5.44 pavca MI d4 prob lev
5.45 pavca MI d4 prob mag
5.46 pavca MI d4 response bias
5.47 pavca MI d5 avg lev lat
5.48 pavca MI d5 avg mag lat
5.49 pavca MI d5 index
5.50 pavca MI d5 latency score
5.51 pavca MI d5 lever cs
5.52 pavca MI d5 magazine cs
5.53 pavca MI d5 magazine ncs
5.54 pavca MI d5 prob diff
5.55 pavca MI d5 prob lev
5.56 pavca MI d5 prob mag
5.57 pavca MI d5 response bias
5.58 pavca MI IndexLearning
5.59 pavca MI IndexScore D4D5
5.60 pavca MI LatencyScore D4D5
5.61 pavca MI LeverCS D4D5
5.62 pavca MI MagazineCS D4D5
5.63 pavca MI MagazineNCS D4D5
5.64 pavca MI ProbDiff D4D5
5.65 pavca MI ProbLever D4D5
5.66 pavca MI ProbMag D4D5
5.67 pavca MI ResponseBias D4D5
6 Check if age is significant and explains more than 2% of variance
Age not regressed out for any traits7 Check if other covariates are significant and explain more than 2% of variance
8 SNP Heritability Estimates h2
9 Summary of QTLs
10 Manhattan plots
10.1 pavca MI AvgLatLev D4D5
10.2 pavca MI AvgLatMag D4D5
10.3 pavca MI d1 avg lev lat
10.4 pavca MI d1 avg mag lat
10.5 pavca MI d1 index
10.6 pavca MI d1 latency score
10.7 pavca MI d1 lever cs
10.8 pavca MI d1 magazine cs
10.9 pavca MI d1 magazine ncs
10.10 pavca MI d1 prob diff
10.11 pavca MI d1 prob lev
10.12 pavca MI d1 prob mag
10.13 pavca MI d1 response bias
10.14 pavca MI d2 avg lev lat
10.15 pavca MI d2 avg mag lat
10.16 pavca MI d2 index
10.17 pavca MI d2 latency score
10.18 pavca MI d2 lever cs
10.19 pavca MI d2 magazine cs
10.20 pavca MI d2 magazine ncs
10.21 pavca MI d2 prob diff
10.22 pavca MI d2 prob lev
10.23 pavca MI d2 prob mag
10.24 pavca MI d2 response bias
10.25 pavca MI d3 avg lev lat
10.26 pavca MI d3 avg mag lat
10.27 pavca MI d3 index
10.28 pavca MI d3 latency score
10.29 pavca MI d3 lever cs
10.30 pavca MI d3 magazine cs
10.31 pavca MI d3 magazine ncs
10.32 pavca MI d3 prob diff
10.33 pavca MI d3 prob lev
10.34 pavca MI d3 prob mag
10.35 pavca MI d3 response bias
10.36 pavca MI d4 avg lev lat
10.37 pavca MI d4 avg mag lat
10.38 pavca MI d4 index
10.39 pavca MI d4 latency score
10.40 pavca MI d4 lever cs
10.41 pavca MI d4 magazine cs
10.42 pavca MI d4 magazine ncs
10.43 pavca MI d4 prob diff
10.44 pavca MI d4 prob lev
10.45 pavca MI d4 prob mag
10.46 pavca MI d4 response bias
10.47 pavca MI d5 avg lev lat
10.48 pavca MI d5 avg mag lat
10.49 pavca MI d5 index
10.50 pavca MI d5 latency score
10.51 pavca MI d5 lever cs
10.52 pavca MI d5 magazine cs
10.53 pavca MI d5 magazine ncs
10.54 pavca MI d5 prob diff
10.55 pavca MI d5 prob lev
10.56 pavca MI d5 prob mag
10.57 pavca MI d5 response bias
10.58 pavca MI IndexLearning
10.59 pavca MI IndexScore D4D5
10.60 pavca MI LatencyScore D4D5
10.61 pavca MI LeverCS D4D5
10.62 pavca MI MagazineCS D4D5
10.63 pavca MI MagazineNCS D4D5
10.64 pavca MI ProbDiff D4D5
10.65 pavca MI ProbLever D4D5
10.66 pavca MI ProbMag D4D5
10.67 pavca MI ResponseBias D4D5
11 Regional Association plots
11.1 pavca MI d3 prob diff chr14:87727130
Size of interval : 813,014 bp
Number of genes in interval: 9
11.1.1 Putatively causal coding variants: pavca MI d3 prob diff chr14:87727130
11.1.2 eQTL info: pavca MI d3 prob diff chr14:87727130
Trait topSNP : chr14:87727130
Trait topSNP -log10P : 5.794
11.1.3 PheWAS: P-values for other phenotypes at trait topSNP :
pavca MI d3 prob diff chr14:87727130
11.1.4 PheWAS: Lowest P-values for other phenotypes in a 3Mb window
pavca MI d3 prob diff chr14:87727130
11.2 pavca MI AvgLatMag D4D5 chr17:56513004
Size of interval : 1,279,199 bp
Number of genes in interval: 16
11.2.1 Putatively causal coding variants: pavca MI AvgLatMag D4D5 chr17:56513004
HIGH or MODERATE impact variants absent
11.2.2 eQTL info: pavca MI AvgLatMag D4D5 chr17:56513004
No cis EQTLs detected
11.2.3 PheWAS: P-values for other phenotypes at trait topSNP :
pavca MI AvgLatMag D4D5 chr17:56513004
11.2.4 PheWAS: Lowest P-values for other phenotypes in a 3Mb window
pavca MI AvgLatMag D4D5 chr17:56513004
11.3 pavca MI MagazineCS D4D5 chr17:56513004
Size of interval : 1,279,199 bp
Number of genes in interval: 16
11.3.1 Putatively causal coding variants: pavca MI MagazineCS D4D5 chr17:56513004
HIGH or MODERATE impact variants absent
11.3.2 eQTL info: pavca MI MagazineCS D4D5 chr17:56513004
No cis EQTLs detected
11.3.3 PheWAS: P-values for other phenotypes at trait topSNP :
pavca MI MagazineCS D4D5 chr17:56513004
11.3.4 PheWAS: Lowest P-values for other phenotypes in a 3Mb window
pavca MI MagazineCS D4D5 chr17:56513004
11.4 pavca MI ProbMag D4D5 chr17:56513004
Size of interval : 1,279,199 bp
Number of genes in interval: 16
11.4.1 Putatively causal coding variants: pavca MI ProbMag D4D5 chr17:56513004
HIGH or MODERATE impact variants absent
11.4.2 eQTL info: pavca MI ProbMag D4D5 chr17:56513004
No cis EQTLs detected
11.4.3 PheWAS: P-values for other phenotypes at trait topSNP :
pavca MI ProbMag D4D5 chr17:56513004
11.4.4 PheWAS: Lowest P-values for other phenotypes in a 3Mb window
pavca MI ProbMag D4D5 chr17:56513004
11.5 pavca MI d5 response bias chr17:56513004
Size of interval : 1,279,199 bp
Number of genes in interval: 16
11.5.1 Putatively causal coding variants: pavca MI d5 response bias chr17:56513004
HIGH or MODERATE impact variants absent
11.5.2 eQTL info: pavca MI d5 response bias chr17:56513004
No cis EQTLs detected
11.5.3 PheWAS: P-values for other phenotypes at trait topSNP :
pavca MI d5 response bias chr17:56513004
11.5.4 PheWAS: Lowest P-values for other phenotypes in a 3Mb window
pavca MI d5 response bias chr17:56513004
11.6 pavca MI d4 avg mag lat chr17:56513004
Size of interval : 1,279,199 bp
Number of genes in interval: 16
11.6.1 Putatively causal coding variants: pavca MI d4 avg mag lat chr17:56513004
HIGH or MODERATE impact variants absent
11.6.2 eQTL info: pavca MI d4 avg mag lat chr17:56513004
No cis EQTLs detected
11.6.3 PheWAS: P-values for other phenotypes at trait topSNP :
pavca MI d4 avg mag lat chr17:56513004
11.6.4 PheWAS: Lowest P-values for other phenotypes in a 3Mb window
pavca MI d4 avg mag lat chr17:56513004
11.7 pavca MI d5 avg mag lat chr17:56513004
Size of interval : 1,279,199 bp
Number of genes in interval: 16
11.7.1 Putatively causal coding variants: pavca MI d5 avg mag lat chr17:56513004
HIGH or MODERATE impact variants absent
11.7.2 eQTL info: pavca MI d5 avg mag lat chr17:56513004
No cis EQTLs detected
11.7.3 PheWAS: P-values for other phenotypes at trait topSNP :
pavca MI d5 avg mag lat chr17:56513004
11.7.4 PheWAS: Lowest P-values for other phenotypes in a 3Mb window
pavca MI d5 avg mag lat chr17:56513004
11.8 pavca MI d3 magazine cs chr17:57293334
Size of interval : 4,109,382 bp
Number of genes in interval: 44
11.8.1 Putatively causal coding variants: pavca MI d3 magazine cs chr17:57293334
HIGH or MODERATE impact variants absent
11.8.2 eQTL info: pavca MI d3 magazine cs chr17:57293334
No cis EQTLs detected
11.8.3 PheWAS: P-values for other phenotypes at trait topSNP :
pavca MI d3 magazine cs chr17:57293334
11.8.4 PheWAS: Lowest P-values for other phenotypes in a 3Mb window
pavca MI d3 magazine cs chr17:57293334
11.9 pavca MI d3 avg mag lat chr17:57301086
Size of interval : 4,109,382 bp
Number of genes in interval: 44
11.9.1 Putatively causal coding variants: pavca MI d3 avg mag lat chr17:57301086
HIGH or MODERATE impact variants absent
11.9.2 eQTL info: pavca MI d3 avg mag lat chr17:57301086
No cis EQTLs detected
11.9.3 PheWAS: P-values for other phenotypes at trait topSNP :
pavca MI d3 avg mag lat chr17:57301086
11.9.4 PheWAS: Lowest P-values for other phenotypes in a 3Mb window
pavca MI d3 avg mag lat chr17:57301086
11.10 pavca MI d3 prob mag chr17:57301086
Size of interval : 4,109,382 bp
Number of genes in interval: 44
11.10.1 Putatively causal coding variants: pavca MI d3 prob mag chr17:57301086
HIGH or MODERATE impact variants absent
11.10.2 eQTL info: pavca MI d3 prob mag chr17:57301086
No cis EQTLs detected
11.10.3 PheWAS: P-values for other phenotypes at trait topSNP :
pavca MI d3 prob mag chr17:57301086
11.10.4 PheWAS: Lowest P-values for other phenotypes in a 3Mb window
pavca MI d3 prob mag chr17:57301086
11.11 pavca MI d5 lever cs chr1:54455791
Size of interval : 0 bp
Number of genes in interval: 1
11.11.1 Putatively causal coding variants: pavca MI d5 lever cs chr1:54455791
HIGH or MODERATE impact variants absent
11.11.2 eQTL info: pavca MI d5 lever cs chr1:54455791
No cis EQTLs detected
11.11.3 PheWAS: P-values for other phenotypes at trait topSNP :
pavca MI d5 lever cs chr1:54455791
11.11.4 PheWAS: Lowest P-values for other phenotypes in a 3Mb window
pavca MI d5 lever cs chr1:54455791
11.12 pavca MI d1 latency score chr20:2329610
Size of interval : 2,978,036 bp
Number of genes in interval: 264
11.12.1 Putatively causal coding variants: pavca MI d1 latency score chr20:2329610
11.12.2 eQTL info: pavca MI d1 latency score chr20:2329610
Trait topSNP : chr20:2329610
Trait topSNP -log10P : 5.895
11.12.2.1 AABR07044362.1
Ensembl gene name : ENSRNOG00000058490
RGD link: No RGD entry
11.12.2.2 Abcf1
Ensembl gene name : ENSRNOG00000000799
ATP binding cassette subfamily F member 1
RGD link: Abcf1
Human GWAS Catalog link: Abcf1
Pubmed link: Abcf1
Alliance of Genome Resources link: Abcf111.12.2.3 Abhd16a
Ensembl gene name : ENSRNOG00000056637
abhydrolase domain containing 16A
RGD link: Abhd16a
Human GWAS Catalog link: Abhd16a
Pubmed link: Abhd16a
Alliance of Genome Resources link: Abhd16a11.12.2.4 Atat1
Ensembl gene name : ENSRNOG00000000809
alpha tubulin acetyltransferase 1
RGD link: Atat1
Human GWAS Catalog link: Atat1
Pubmed link: Atat1
Alliance of Genome Resources link: Atat111.12.2.5 Cchcr1
Ensembl gene name : ENSRNOG00000050233
coiled-coil alpha-helical rod protein 1
RGD link: Cchcr1
Human GWAS Catalog link: Cchcr1
Pubmed link: Cchcr1
Alliance of Genome Resources link: Cchcr111.12.2.6 Ddx39b
Ensembl gene name : ENSRNOG00000000841
DExD-box helicase 39B
RGD link: Ddx39b
Human GWAS Catalog link: Ddx39b
Pubmed link: Ddx39b
Alliance of Genome Resources link: Ddx39b11.12.2.7 Dhx16
Ensembl gene name : ENSRNOG00000030157
DEAH-box helicase 16
RGD link: Dhx16
Human GWAS Catalog link: Dhx16
Pubmed link: Dhx16
Alliance of Genome Resources link: Dhx1611.12.2.8 Fkbpl
Ensembl gene name : ENSRNOG00000000432
FK506 binding protein-like
RGD link: Fkbpl
Human GWAS Catalog link: Fkbpl
Pubmed link: Fkbpl
Alliance of Genome Resources link: Fkbpl11.12.2.9 Flot1
Ensembl gene name : ENSRNOG00000000826
flotillin 1
RGD link: Flot1
Human GWAS Catalog link: Flot1
Pubmed link: Flot1
Alliance of Genome Resources link: Flot111.12.2.10 Ggact
Ensembl gene name : ENSRNOG00000027040
gamma-glutamylamine cyclotransferase
RGD link: Ggact
Human GWAS Catalog link: Ggact
Pubmed link: Ggact
Alliance of Genome Resources link: Ggact11.12.2.11 Mrps18b
Ensembl gene name : ENSRNOG00000000804
mitochondrial ribosomal protein S18B
RGD link: Mrps18b
Human GWAS Catalog link: Mrps18b
Pubmed link: Mrps18b
Alliance of Genome Resources link: Mrps18b11.12.2.12 Olr1747-ps
Ensembl gene name : ENSRNOG00000048232
olfactory receptor pseudogene 1747
RGD link: Olr1747-ps
Human GWAS Catalog link: No Human GWAS Catalog entry
Pubmed link: NA
Alliance of Genome Resources link: NA11.12.2.13 Olr1748
Ensembl gene name : ENSRNOG00000056715
olfactory receptor 1748
RGD link: Olr1748
Human GWAS Catalog link: No Human GWAS Catalog entry
Pubmed link: NA
Alliance of Genome Resources link: NA11.12.2.14 Olr1750
Ensembl gene name : ENSRNOG00000043481
olfactory receptor 1750
RGD link: Olr1750
Human GWAS Catalog link: No Human GWAS Catalog entry
Pubmed link: NA
Alliance of Genome Resources link: NA11.12.2.15 RGD1562652
Ensembl gene name : ENSRNOG00000026051
similar to class I histocompatibility antigen alpha chain - cotton-top tamarin
RGD link: RGD1562652
Human GWAS Catalog link: No Human GWAS Catalog entry
Pubmed link: NA
Alliance of Genome Resources link: NA11.12.2.16 Rn50_20_0040.5
Ensembl gene name : ENSRNOG00000045658
RGD link: No RGD entry
11.12.2.17 Rn50_20_0045.3
Ensembl gene name : ENSRNOG00000031065
RGD link: No RGD entry
11.12.2.18 Rn50_20_0045.4
Ensembl gene name : ENSRNOG00000027873
RGD link: No RGD entry
11.12.2.19 Rn50_20_0046.8
Ensembl gene name : ENSRNOG00000058238
RGD link: No RGD entry
11.12.2.20 Rn60_20_0032.5
Ensembl gene name : ENSRNOG00000058784
RGD link: No RGD entry
11.12.2.21 Rn60_20_0032.7
Ensembl gene name : ENSRNOG00000061940
RGD link: No RGD entry
11.12.2.22 Rn60_20_0038.1
Ensembl gene name : ENSRNOG00000050215
RGD link: No RGD entry
11.12.2.23 Rps2-ps1
Ensembl gene name : ENSRNOG00000058852
ribosomal protein S2, pseudogene 1
RGD link: Rps2-ps1
Human GWAS Catalog link: No Human GWAS Catalog entry
Pubmed link: NA
Alliance of Genome Resources link: NA11.12.2.24 Rps2-ps2
Ensembl gene name : ENSRNOG00000060523
ribosomal protein S2, pseudogene 2
RGD link: Rps2-ps2
Human GWAS Catalog link: No Human GWAS Catalog entry
Pubmed link: NA
Alliance of Genome Resources link: NA11.12.2.25 RT1-CE1
Ensembl gene name : ENSRNOG00000050183
RT1 class I, locus1
RGD link: RT1-CE1
Human GWAS Catalog link: No Human GWAS Catalog entry
Pubmed link: NA
Alliance of Genome Resources link: NA11.12.2.26 RT1-CE16
Ensembl gene name : ENSRNOG00000047706
RT1 class I, locus CE16
RGD link: RT1-CE16
Human GWAS Catalog link: No Human GWAS Catalog entry
Pubmed link: NA
Alliance of Genome Resources link: NA11.12.2.27 RT1-CE4
Ensembl gene name : ENSRNOG00000039744
RT1 class I, locus CE4
RGD link: RT1-CE4
Human GWAS Catalog link: No Human GWAS Catalog entry
Pubmed link: NA
Alliance of Genome Resources link: NA11.12.2.28 RT1-M4
Ensembl gene name : ENSRNOG00000060412
RT1 class Ib, locus M4
RGD link: RT1-M4
Human GWAS Catalog link: No Human GWAS Catalog entry
Pubmed link: NA
Alliance of Genome Resources link: NA11.12.2.29 RT1-M6-1
Ensembl gene name : ENSRNOG00000022107
RT1 class I, locus M6, gene 1
RGD link: RT1-M6-1
Human GWAS Catalog link: No Human GWAS Catalog entry
Pubmed link: NA
Alliance of Genome Resources link: NA11.12.2.30 RT1-M6-2
Ensembl gene name : ENSRNOG00000040052
RT1 class I, locus M6, gene 2
RGD link: RT1-M6-2
Human GWAS Catalog link: No Human GWAS Catalog entry
Pubmed link: NA
Alliance of Genome Resources link: NA11.12.2.31 RT1-N2
Ensembl gene name : ENSRNOG00000029386
RT1 class Ib, locus N2
RGD link: RT1-N2
Human GWAS Catalog link: No Human GWAS Catalog entry
Pubmed link: NA
Alliance of Genome Resources link: NA11.12.2.32 RT1-S2
Ensembl gene name : ENSRNOG00000029001
RT1 class Ib, locus S2
RGD link: RT1-S2
Human GWAS Catalog link: No Human GWAS Catalog entry
Pubmed link: NA
Alliance of Genome Resources link: NA11.12.2.33 RT1-S3
Ensembl gene name : ENSRNOG00000000777
RT1 class Ib, locus S3
RGD link: RT1-S3
Human GWAS Catalog link: No Human GWAS Catalog entry
Pubmed link: NA
Alliance of Genome Resources link: NA11.12.2.34 RT1-T24-2
Ensembl gene name : ENSRNOG00000000787
RT1 class I, locus T24, gene 2
RGD link: RT1-T24-2
Human GWAS Catalog link: No Human GWAS Catalog entry
Pubmed link: NA
Alliance of Genome Resources link: NA11.12.2.35 RT1-T24-3
Ensembl gene name : ENSRNOG00000045924
RT1 class I, locus T24, gene 3
RGD link: RT1-T24-3
Human GWAS Catalog link: No Human GWAS Catalog entry
Pubmed link: NA
Alliance of Genome Resources link: NA11.12.3 PheWAS: P-values for other phenotypes at trait topSNP :
pavca MI d1 latency score chr20:2329610
11.12.4 PheWAS: Lowest P-values for other phenotypes in a 3Mb window
pavca MI d1 latency score chr20:2329610
11.13 pavca MI d5 response bias chr4:150303174
Size of interval : 1,065,559 bp
Number of genes in interval: 16
11.13.1 Putatively causal coding variants: pavca MI d5 response bias chr4:150303174
11.13.2 eQTL info: pavca MI d5 response bias chr4:150303174
Trait topSNP : chr4:150303174
Trait topSNP -log10P : 5.706
11.13.3 PheWAS: P-values for other phenotypes at trait topSNP :
pavca MI d5 response bias chr4:150303174
11.13.4 PheWAS: Lowest P-values for other phenotypes in a 3Mb window
pavca MI d5 response bias chr4:150303174
11.14 pavca MI d1 lever cs chr5:56280155
Size of interval : 2,222,261 bp
Number of genes in interval: 8
11.14.1 Putatively causal coding variants: pavca MI d1 lever cs chr5:56280155
HIGH or MODERATE impact variants absent
11.14.2 eQTL info: pavca MI d1 lever cs chr5:56280155
Trait topSNP : chr5:56280155
Trait topSNP -log10P : 6.303
11.14.2.1 Fnip1
Ensembl gene name : ENSRNOG00000009104
folliculin interacting protein 1
RGD link: Fnip1
Human GWAS Catalog link: Fnip1
Pubmed link: Fnip1
Alliance of Genome Resources link: Fnip111.14.2.2 Galt
Ensembl gene name : ENSRNOG00000014766
galactose-1-phosphate uridylyltransferase
RGD link: Galt
Human GWAS Catalog link: Galt
Pubmed link: Galt
Alliance of Genome Resources link: Galt11.14.2.3 Mef2c
Ensembl gene name : ENSRNOG00000033134
myocyte enhancer factor 2C
RGD link: Mef2c
Human GWAS Catalog link: Mef2c
Pubmed link: Mef2c
Alliance of Genome Resources link: Mef2c11.14.2.4 Reck
Ensembl gene name : ENSRNOG00000014863
reversion-inducing-cysteine-rich protein with kazal motifs
RGD link: Reck
Human GWAS Catalog link: Reck
Pubmed link: Reck
Alliance of Genome Resources link: Reck11.14.2.5 RGD1309079
Ensembl gene name : ENSRNOG00000008519
similar to Ab2-095
RGD link: RGD1309079
Human GWAS Catalog link: No Human GWAS Catalog entry
Pubmed link: NA
Alliance of Genome Resources link: NA11.14.3 PheWAS: P-values for other phenotypes at trait topSNP :
pavca MI d1 lever cs chr5:56280155
11.14.4 PheWAS: Lowest P-values for other phenotypes in a 3Mb window
pavca MI d1 lever cs chr5:56280155
11.15 pavca MI d1 avg lev lat chr5:56280155
Size of interval : 2,222,261 bp
Number of genes in interval: 8
11.15.1 Putatively causal coding variants: pavca MI d1 avg lev lat chr5:56280155
HIGH or MODERATE impact variants absent
11.15.2 eQTL info: pavca MI d1 avg lev lat chr5:56280155
Trait topSNP : chr5:56280155
Trait topSNP -log10P : 5.843
11.15.2.1 Fnip1
Ensembl gene name : ENSRNOG00000009104
folliculin interacting protein 1
RGD link: Fnip1
Human GWAS Catalog link: Fnip1
Pubmed link: Fnip1
Alliance of Genome Resources link: Fnip111.15.2.2 Galt
Ensembl gene name : ENSRNOG00000014766
galactose-1-phosphate uridylyltransferase
RGD link: Galt
Human GWAS Catalog link: Galt
Pubmed link: Galt
Alliance of Genome Resources link: Galt11.15.2.3 Mef2c
Ensembl gene name : ENSRNOG00000033134
myocyte enhancer factor 2C
RGD link: Mef2c
Human GWAS Catalog link: Mef2c
Pubmed link: Mef2c
Alliance of Genome Resources link: Mef2c11.15.2.4 Reck
Ensembl gene name : ENSRNOG00000014863
reversion-inducing-cysteine-rich protein with kazal motifs
RGD link: Reck
Human GWAS Catalog link: Reck
Pubmed link: Reck
Alliance of Genome Resources link: Reck11.15.2.5 RGD1309079
Ensembl gene name : ENSRNOG00000008519
similar to Ab2-095
RGD link: RGD1309079
Human GWAS Catalog link: No Human GWAS Catalog entry
Pubmed link: NA
Alliance of Genome Resources link: NA11.15.3 PheWAS: P-values for other phenotypes at trait topSNP :
pavca MI d1 avg lev lat chr5:56280155
11.15.4 PheWAS: Lowest P-values for other phenotypes in a 3Mb window
pavca MI d1 avg lev lat chr5:56280155
11.16 pavca MI d1 prob lev chr5:56280155
Size of interval : 2,222,261 bp
Number of genes in interval: 8
11.16.1 Putatively causal coding variants: pavca MI d1 prob lev chr5:56280155
HIGH or MODERATE impact variants absent
11.16.2 eQTL info: pavca MI d1 prob lev chr5:56280155
Trait topSNP : chr5:56280155
Trait topSNP -log10P : 6.178
11.16.2.1 Fnip1
Ensembl gene name : ENSRNOG00000009104
folliculin interacting protein 1
RGD link: Fnip1
Human GWAS Catalog link: Fnip1
Pubmed link: Fnip1
Alliance of Genome Resources link: Fnip111.16.2.2 Galt
Ensembl gene name : ENSRNOG00000014766
galactose-1-phosphate uridylyltransferase
RGD link: Galt
Human GWAS Catalog link: Galt
Pubmed link: Galt
Alliance of Genome Resources link: Galt11.16.2.3 Mef2c
Ensembl gene name : ENSRNOG00000033134
myocyte enhancer factor 2C
RGD link: Mef2c
Human GWAS Catalog link: Mef2c
Pubmed link: Mef2c
Alliance of Genome Resources link: Mef2c11.16.2.4 Reck
Ensembl gene name : ENSRNOG00000014863
reversion-inducing-cysteine-rich protein with kazal motifs
RGD link: Reck
Human GWAS Catalog link: Reck
Pubmed link: Reck
Alliance of Genome Resources link: Reck11.16.2.5 RGD1309079
Ensembl gene name : ENSRNOG00000008519
similar to Ab2-095
RGD link: RGD1309079
Human GWAS Catalog link: No Human GWAS Catalog entry
Pubmed link: NA
Alliance of Genome Resources link: NA11.16.3 PheWAS: P-values for other phenotypes at trait topSNP :
pavca MI d1 prob lev chr5:56280155
11.16.4 PheWAS: Lowest P-values for other phenotypes in a 3Mb window
pavca MI d1 prob lev chr5:56280155
11.17 pavca MI d1 avg lev lat chr8:71448327
Size of interval : 6,017,678 bp
Number of genes in interval: 110
11.17.1 Putatively causal coding variants: pavca MI d1 avg lev lat chr8:71448327
11.17.2 eQTL info: pavca MI d1 avg lev lat chr8:71448327
No cis EQTLs detected
11.17.3 PheWAS: P-values for other phenotypes at trait topSNP :
pavca MI d1 avg lev lat chr8:71448327
11.17.4 PheWAS: Lowest P-values for other phenotypes in a 3Mb window
pavca MI d1 avg lev lat chr8:71448327
11.18 pavca MI d3 prob diff chr8:81251790
Size of interval : 1,092,985 bp
Number of genes in interval: 9
11.18.1 Putatively causal coding variants: pavca MI d3 prob diff chr8:81251790
HIGH or MODERATE impact variants absent
11.18.2 eQTL info: pavca MI d3 prob diff chr8:81251790
Trait topSNP : chr8:81251790
Trait topSNP -log10P : 5.678
11.18.3 PheWAS: P-values for other phenotypes at trait topSNP :
pavca MI d3 prob diff chr8:81251790
11.18.4 PheWAS: Lowest P-values for other phenotypes in a 3Mb window
pavca MI d3 prob diff chr8:81251790
11.19 pavca MI d3 index chr8:81358172
Size of interval : 1,092,985 bp
Number of genes in interval: 9
11.19.1 Putatively causal coding variants: pavca MI d3 index chr8:81358172
HIGH or MODERATE impact variants absent
11.19.2 eQTL info: pavca MI d3 index chr8:81358172
Trait topSNP : chr8:81358172
Trait topSNP -log10P : 5.742
11.19.3 PheWAS: P-values for other phenotypes at trait topSNP :
pavca MI d3 index chr8:81358172
11.19.4 PheWAS: Lowest P-values for other phenotypes in a 3Mb window
pavca MI d3 index chr8:81358172
11.20 pavca MI d3 latency score chr8:81358172
Size of interval : 1,092,985 bp
Number of genes in interval: 9
11.20.1 Putatively causal coding variants: pavca MI d3 latency score chr8:81358172
HIGH or MODERATE impact variants absent
11.20.2 eQTL info: pavca MI d3 latency score chr8:81358172
Trait topSNP : chr8:81358172
Trait topSNP -log10P : 5.743
11.20.3 PheWAS: P-values for other phenotypes at trait topSNP :
pavca MI d3 latency score chr8:81358172
11.20.4 PheWAS: Lowest P-values for other phenotypes in a 3Mb window
pavca MI d3 latency score chr8:81358172
11.21 pavca MI d2 magazine ncs chr8:91345411
Size of interval : 3,150,087 bp
Number of genes in interval: 32
11.21.1 Putatively causal coding variants: pavca MI d2 magazine ncs chr8:91345411
11.21.2 eQTL info: pavca MI d2 magazine ncs chr8:91345411
Trait topSNP : chr8:91345411
Trait topSNP -log10P : 5.972
11.21.2.1 Bckdhb
Ensembl gene name : ENSRNOG00000009928
branched chain keto acid dehydrogenase E1 subunit beta
RGD link: Bckdhb
Human GWAS Catalog link: Bckdhb
Pubmed link: Bckdhb
Alliance of Genome Resources link: Bckdhb11.21.3 PheWAS: P-values for other phenotypes at trait topSNP :
pavca MI d2 magazine ncs chr8:91345411
P-values for other phenotypes at trait topSNP not significant enough to be reported
11.21.4 PheWAS: Lowest P-values for other phenotypes in a 3Mb window
pavca MI d2 magazine ncs chr8:91345411