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# CENTER: Hybrid Rat Diversity Program at the Medical College of Wisconsin
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# PRINCIPAL INVESTIGATOR: Melinda Dwinell, Ph.D.
# FUNDS: This work is supported by Grant ID R24OD024617, Office of the Director
# PROJECT: Analysis of genome variants for HRDP rat strains. Data integration and dissemination through RGD tools.
# ABSTRACT: Whole genome sequencing from male inbred rats was done on rat strains from the Hybrid Rat Diversity Program (HRDP).
Spleen samples from adult male rats (n=1 per strain) were collected from naive rats.
DNA was extracted using a Qiagen DNeasy kit.
Samples were sequenced using the Illumina NovaSeq6000 platform.
# REFERENCES: A revamped rat reference genome improves the discovery of genetic diversity in laboratory rats. bioRxiv 2023 Sep 28. PMID: 37214860
# LINKS: https://rgd.mcw.edu/wg/hrdp_panel/, https://download.rgd.mcw.edu/strain_specific_variants/Dwinell_MCW_HybridRatDiversityProgram/Feb2024/mRatBN7/
# CONTACT: HRDP@mcw.edu
# ANALYSIS: This is an analysis of single nucleotide variants and short indels from HRDP rat strain samples
1) Eperiment type: Whole genome sequencing
2) Platform: Illumina-NovaSeq6000
3) Software: BWA mem 0.7.17, GATK-4.1.3.0, Picard-2.20.7
4) Genome Assembly: mRatBN7.2 = GCA_015227675.2
5) Pipline description:
We followed the GATK Best Practices recommendations. FASTQ files were converted to unmapped BAMs (Picard's FastqToSam), adapter sequences
were marked (Picard's MarkIlluminaAdapters), and aligned to reference mRatBN7.2 genome (BWA MEM algorithm). Next duplicates were marked
(Picard’s MarkDuplicates) per read group and base quality score was recalibrated (GATK BQSR) across multiple sequencing runs. The variants
were called using GATK HaplotypeCaller. Variants with low coverage, low quality, strand biased and supported by low-confidence read alignment
were removed (GATK Hard Filter) and remaining variants were annotated with a functional effect prediction tool - SnpEff.
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# METADATA: 125 Rat samples information
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| Sample_Name | Rat_Strain | RGD_ID | Description | Run |AssayType| BioProject | BioSample | Instrument | AvgSpotLen| Bases | Bytes |LibraryLayout | LibrarySelection | LibrarySource | Sex | Deev_Stage | Tissue_type | Colleced_by | Lab_Host | Tax_ID | Scientific_Name | Common_Name|
|-------------------------| ----------------- | ------------- | --------------------------------------------- | ----------- |---------| ----------- | -------------| ------------------------- | ----------| ------------- | ------------- | ------------- | ----------------- | -------------- | -------- | ------------- | ------------ | ---------------------- | ------------- | -------|-------------------| ---------- |
| ACI_EurMcwi_2019 | ACI/EurMcwi | 7364991 | ACI/EurMcwi rat sample sequenced in 2019 | SRR24926901 | WGS | PRJNA974695 | SAMN35294599 | Illumina NovaSeq 6000 | 300 | 149760676118 | 53678555080 | PAIRED | RANDOM | GENOMIC | male | young adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| ACI_EurMcwi_2019NG | ACI/EurMcwi | 7364991 | ACI/EurMcwi rat sample sequenced in 2019 | SRR24926900 | WGS | PRJNA974695 | SAMN35294600 | Illumina NovaSeq 6000 | 300 | 214907340600 | 67291335351 | PAIRED | RANDOM | GENOMIC | male | young adult | spleen | sequenced by Novogene | MCW | 10116 | Rattus norvegicus | Norway rat |
| ACI_N_2020 | ACI/N | 10000 | ACI/N rat sample sequenced in 2020 | SRR24926788 | WGS | PRJNA974695 | SAMN35294601 | Illumina NovaSeq 6000 | 302 | 90064358908 | 31912877612 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | NIH | 10116 | Rattus norvegicus | Norway rat |
| BDIX_NemOdaMcwi_2022 | BDIX/NemOdaMcwi | 156368567 | BDIX/NemOdaMcwi rat sample sequenced in 2022 | SRR24926821 | WGS | PRJNA974695 | SAMN35294602 | Illumina NovaSeq 6000 | 301 | 172572491089 | 58543257536 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| BN_Crl_2021 | BN/Crl | 737972 | BN/Crl rat sample sequenced in 2019 | SRR24926786 | WGS | PRJNA974695 | SAMN35294603 | Illumina NovaSeq 6000 | 301 | 64789217686 | 22505442701 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | Charles River | 10116 | Rattus norvegicus | Norway rat |
| BN_Lx_CubMcwi_2019 | BN-Lx/CubMcwi | 38676495 | BN-Lx/CubMcwi rat sample sequenced in 2019 | SRR24926820 | WGS | PRJNA974695 | SAMN35294612 | Illumina NovaSeq 6000 | 300 | 144299338036 | 51840998259 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| BN_Lx_CubMcwi_2019NG | BN-Lx/CubMcwi | 38676495 | BN-Lx/CubMcwi rat sample sequenced in 2019 | SRR24926789 | WGS | PRJNA974695 | SAMN35294613 | Illumina NovaSeq 6000 | 300 | 172353912600 | 54891409665 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by Novogene | MCW | 10116 | Rattus norvegicus | Norway rat |
| BN_NHsdMcwi_2019 | BN/NHsdMcwi | 61498 | BN/NHsdMcwi rat sample sequenced in 2019 | SRR24926876 | WGS | PRJNA974695 | SAMN35294604 | Illumina NovaSeq 6000 | 300 | 134147063006 | 46808785919 | PAIRED | RANDOM | GENOMIC | male | young adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| BN_NHsdMcwi_2019NG | BN/NHsdMcwi | 61498 | BN/NHsdMcwi rat sample sequenced in 2019 | SRR24926809 | WGS | PRJNA974695 | SAMN35294605 | Illumina NovaSeq 6000 | 300 | 136691334600 | 42821871121 | PAIRED | RANDOM | GENOMIC | male | young adult | spleen | sequenced by Novogene | MCW | 10116 | Rattus norvegicus | Norway rat |
| BN_NHsdMcwi_2020 | BN/NHsdMcwi | 61498 | BN/NHsdMcwi rat sample sequenced in 2020 | SRR24926787 | WGS | PRJNA974695 | SAMN35294606 | Illumina NovaSeq 6000 | 302 | 83873894052 | 28695691490 | PAIRED | RANDOM | GENOMIC | male | young adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| BN_NHsdMcwi_2021 | BN/NHsdMcwi | 61498 | BN/NHsdMcwi rat sample sequenced in 2021 | SRR24926785 | WGS | PRJNA974695 | SAMN35294607 | Illumina NovaSeq 6000 | 300 | 47567540745 | 16384763292 | PAIRED | RANDOM | GENOMIC | male | young adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| BN_NHsdMcwi_2022 | BN/NHsdMcwi | 61498 | BN/NHsdMcwi rat sample sequenced in 2022 | SRR24926851 | WGS | PRJNA974695 | SAMN35294608 | Illumina NovaSeq 6000 | 301 | 108046715889 | 36447578996 | PAIRED | RANDOM | GENOMIC | male | young adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| BN_NHsdMcwi_2023 | BN/NHsdMcwi | 61498 | BN/NHsdMcwi rat sample sequenced in 2023 | SRR24926891 | WGS | PRJNA974695 | SAMN35294609 | Illumina NovaSeq 6000 | 301 | 134341982020 | 45259407151 | PAIRED | RANDOM | GENOMIC | male | young adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| BN_RijHsd_2021 | BN/RijHsd | 5508393 | BN/RijHsd rat sample sequenced in 2021 | SRR24926783 | WGS | PRJNA974695 | SAMN35294610 | Illumina NovaSeq 6000 | 300 | 50566735675 | 17246411063 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | Envigo/Inotiv | 10116 | Rattus norvegicus | Norway rat |
| BN_SsN_2020 | BN/SsN | 61115 | BN/SsN rat sample sequenced in 2020 | SRR24926807 | WGS | PRJNA974695 | SAMN35294611 | Illumina NovaSeq 6000 | 302 | 93625529620 | 32268678449 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | NIH | 10116 | Rattus norvegicus | Norway rat |
| BUF_MnaMcwi_2022 | BUF/MnaMcwi | 156403001 | BUF/MnaMcwi rat sample sequenced in 2022 | SRR24926784 | WGS | PRJNA974695 | SAMN35294614 | Illumina NovaSeq 6000 | 301 | 158347075895 | 53384603994 | PAIRED | RANDOM | GENOMIC | male | young adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| BUF_N_2020 | BUF/N | 60986 | BUF/N rat sample sequenced in 2020 | SRR24926806 | WGS | PRJNA974695 | SAMN35294615 | Illumina NovaSeq 6000 | 302 | 80460922290 | 27860772918 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | NIH | 10116 | Rattus norvegicus | Norway rat |
| BXH2_CubMcwi_2020 | BXH2/CubMcwi | 149735530 | BXH2/CubMcwi rat sample sequenced in 2020 | SRR24926805 | WGS | PRJNA974695 | SAMN35294616 | Illumina NovaSeq 6000 | 302 | 89632086980 | 30833587398 | PAIRED | RANDOM | GENOMIC | male | young adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| BXH2_CubMcwi_2023 | BXH2/CubMcwi | 149735530 | BXH2/CubMcwi rat sample sequenced in 2023 | SRR24926890 | WGS | PRJNA974695 | SAMN35294617 | Illumina NovaSeq 6000 | 301 | 182347345546 | 60575825449 | PAIRED | RANDOM | GENOMIC | male | young adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| BXH3_CubMcwi_2020 | BXH3/CubMcwi | 149735533 | BXH3/CubMcwi rat sample sequenced in 2020 | SRR24926804 | WGS | PRJNA974695 | SAMN35294618 | Illumina NovaSeq 6000 | 302 | 89089710684 | 30773436943 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| BXH6_CubMcwi_2021 | BXH6/CubMcwi | 156420150 | BXH6/CubMcwi rat sample sequenced in 2021 | SRR24926782 | WGS | PRJNA974695 | SAMN35294619 | Illumina NovaSeq 6000 | 300 | 101612222239 | 34078963219 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| DA_OlaHsd_2019 | DA/OlaHsd | 734475 | DA/OlaHsd rat sample sequenced in 2019 | SRR24926799 | WGS | PRJNA974695 | SAMN35294620 | Illumina NovaSeq 6000 | 300 | 133001589588 | 47580116324 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | Envigo/Inotiv | 10116 | Rattus norvegicus | Norway rat |
| DA_OlaHsd_2019NG | DA/OlaHsd | 734475 | DA/OlaHsd rat sample sequenced in 2019 | SRR24926855 | WGS | PRJNA974695 | SAMN35294621 | Illumina NovaSeq 6000 | 300 | 174709106400 | 55021334413 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by Novogene | Envigo/Inotiv | 10116 | Rattus norvegicus | Norway rat |
| F344_DuCrl_2019 | F344/DuCrl | 734478 | F344/DuCrl rat sample sequenced in 2019 | SRR24926777 | WGS | PRJNA974695 | SAMN35294622 | Illumina NovaSeq 6000 | 300 | 144751789168 | 51288300437 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | Charles River | 10116 | Rattus norvegicus | Norway rat |
| F344_DuCrl_2019NG | F344/DuCrl | 734478 | F344/DuCrl rat sample sequenced in 2019 | SRR24926823 | WGS | PRJNA974695 | SAMN35294623 | Illumina NovaSeq 6000 | 300 | 156505047000 | 49734949460 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by Novogene | Charles River | 10116 | Rattus norvegicus | Norway rat |
| F344_DuCrl_2021 | F344/DuCrl | 734478 | F344/DuCrl rat sample sequenced in 2021 | SRR24926781 | WGS | PRJNA974695 | SAMN35294624 | Illumina NovaSeq 6000 | 300 | 49187986508 | 16543835773 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | Charles River | 10116 | Rattus norvegicus | Norway rat |
| F344_N_2020 | F344/N | 13506918 | F344/N rat sample sequenced in 2020 | SRR24926803 | WGS | PRJNA974695 | SAMN35294625 | Illumina NovaSeq 6000 | 302 | 78371685082 | 27319231732 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | NIH | 10116 | Rattus norvegicus | Norway rat |
| F344_NCrl_2019 | F344/NCrl | 737926 | F344/NCrl rat sample sequenced in 2019 | SRR24926899 | WGS | PRJNA974695 | SAMN35294626 | Illumina NovaSeq 6000 | 300 | 142681954096 | 51004065939 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | Charles River | 10116 | Rattus norvegicus | Norway rat |
| F344_NCrl_2019NG | F344/NCrl | 737926 | F344/NCrl rat sample sequenced in 2019 | SRR24926877 | WGS | PRJNA974695 | SAMN35294627 | Illumina NovaSeq 6000 | 300 | 277742263200 | 87417294496 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by Novogene | Charles River | 10116 | Rattus norvegicus | Norway rat |
| F344_NHsd_2021 | F344/NHsd | 61109 | F344/NHsd rat sample sequenced in 2021 | SRR24926780 | WGS | PRJNA974695 | SAMN35294628 | Illumina NovaSeq 6000 | 301 | 54691588343 | 18590775533 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | Envigo/Inotiv | 10116 | Rattus norvegicus | Norway rat |
| F344_StmMcwi_2019 | F344/StmMcwi | 39456105 | F344/StmMcwi rat sample sequenced in 2019 | SRR24926886 | WGS | PRJNA974695 | SAMN35294629 | Illumina NovaSeq 6000 | 300 | 148065729624 | 52122932861 | PAIRED | RANDOM | GENOMIC | male | young adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| FHH_EurMcwi_2019 | FHH/EurMcwi | 629509 | FHH/EurMcwi rat sample sequenced in 2019 | SRR24926869 | WGS | PRJNA974695 | SAMN35294630 | Illumina NovaSeq 6000 | 300 | 117877768695 | 41781352338 | PAIRED | RANDOM | GENOMIC | male | young adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| FHH_EurMcwi_2019NG | FHH/EurMcwi | 629509 | FHH/EurMcwi rat sample sequenced in 2019 | SRR24926870 | WGS | PRJNA974695 | SAMN35294631 | Illumina NovaSeq 6000 | 300 | 178572015900 | 55799797513 | PAIRED | RANDOM | GENOMIC | male | young adult | spleen | sequenced by Novogene | MCW | 10116 | Rattus norvegicus | Norway rat |
| FXLE12_Stm_2019NG | FXLE12/Stm | 1302602 | FXLE12/Stm rat sample sequenced in 2019 | SRR24926871 | WGS | PRJNA974695 | SAMN35294632 | Illumina NovaSeq 6000 | 300 | 167073736500 | 55901500858 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by Novogene | NBRP Japan | 10116 | Rattus norvegicus | Norway rat |
| FXLE12_StmMcwi_2021 | FXLE12/StmMcwi | 153323324 | FXLE12/StmMcwi rat sample sequenced in 2021 | SRR24926779 | WGS | PRJNA974695 | SAMN35294633 | Illumina NovaSeq 6000 | 300 | 83285119941 | 27975018598 | PAIRED | RANDOM | GENOMIC | male | young adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| FXLE12_StmMcwi_2023 | FXLE12/StmMcwi | 153323324 | FXLE12/StmMcwi rat sample sequenced in 2023 | SRR24926889 | WGS | PRJNA974695 | SAMN35294634 | Illumina NovaSeq 6000 | 301 | 173842206479 | 58352564425 | PAIRED | RANDOM | GENOMIC | male | young adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| FXLE13_Stm_2019NG | FXLE13/Stm | 1302665 | FXLE13/Stm rat sample sequenced in 2019 | SRR24926872 | WGS | PRJNA974695 | SAMN35294635 | Illumina NovaSeq 6000 | 300 | 171322657200 | 55315498876 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by Novogene | NBRP Japan | 10116 | Rattus norvegicus | Norway rat |
| FXLE13_StmMcwi_2023 | FXLE13/StmMcwi | 156430094 | FXLE13/StmMcwi rat sample sequenced in 2023 | SRR24926878 | WGS | PRJNA974695 | SAMN35294636 | Illumina NovaSeq 6000 | 301 | 225846223059 | 75243896130 | PAIRED | RANDOM | GENOMIC | male | young adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| FXLE14_Stm_2019NG | FXLE14/Stm | 1302615 | FXLE14/Stm rat sample sequenced in 2019 | SRR24926873 | WGS | PRJNA974695 | SAMN35294637 | Illumina NovaSeq 6000 | 300 | 167169212400 | 54527052520 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by Novogene | NBRP Japan | 10116 | Rattus norvegicus | Norway rat |
| FXLE14_StmMcwi_2023 | FXLE14/StmMcwi | 156430095 | FXLE14/StmMcwi rat sample sequenced in 2023 | SRR24926879 | WGS | PRJNA974695 | SAMN35294638 | Illumina NovaSeq 6000 | 301 | 142021487832 | 47256971775 | PAIRED | RANDOM | GENOMIC | male | young adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| FXLE15_Stm_2019NG | FXLE15/Stm | 1302673 | FXLE15/Stm rat sample sequenced in 2019 | SRR24926874 | WGS | PRJNA974695 | SAMN35294639 | Illumina NovaSeq 6000 | 300 | 187550696100 | 60634049311 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by Novogene | NBRP Japan | 10116 | Rattus norvegicus | Norway rat |
| FXLE15_StmMcwi_2021 | FXLE15/StmMcwi | 153344518 | FXLE15/StmMcwi rat sample sequenced in 2021 | SRR24926778 | WGS | PRJNA974695 | SAMN35294640 | Illumina NovaSeq 6000 | 300 | 72628762350 | 24726075996 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| FXLE15_StmMcwi_2023 | FXLE15/StmMcwi | 153344518 | FXLE15/StmMcwi rat sample sequenced in 2023 | SRR24926880 | WGS | PRJNA974695 | SAMN35294641 | Illumina NovaSeq 6000 | 301 | 163991428889 | 54511189592 | PAIRED | RANDOM | GENOMIC | male | young adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| FXLE16_Stm_2020 | FXLE16/Stm | 1302619 | FXLE16/Stm rat sample sequenced in 2020 | SRR24926811 | WGS | PRJNA974695 | SAMN35294642 | Illumina NovaSeq 6000 | 302 | 72983725732 | 25486426823 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | NBRP Japan | 10116 | Rattus norvegicus | Norway rat |
| FXLE17_Stm_2019NG | FXLE17/Stm | 1302708 | FXLE17/Stm rat sample sequenced in 2019 | SRR24926875 | WGS | PRJNA974695 | SAMN35294643 | Illumina NovaSeq 6000 | 300 | 166640982000 | 54503301228 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by Novogene | NBRP Japan | 10116 | Rattus norvegicus | Norway rat |
| FXLE17_StmMcwi_2023 | FXLE17/StmMcwi | 156430100 | FXLE17/StmMcwi rat sample sequenced in 2023 | SRR24926881 | WGS | PRJNA974695 | SAMN35294644 | Illumina NovaSeq 6000 | 301 | 138373488067 | 46409299574 | PAIRED | RANDOM | GENOMIC | male | young adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| FXLE18_Stm_2020 | FXLE18/Stm | 1302682 | FXLE18/Stm rat sample sequenced in 2020 | SRR24926810 | WGS | PRJNA974695 | SAMN35294645 | Illumina NovaSeq 6000 | 302 | 95715207748 | 32876955307 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | NBRP Japan | 10116 | Rattus norvegicus | Norway rat |
| FXLE19_StmMcwi_2022 | FXLE19/StmMcwi | 1302690 | FXLE19/StmMcwi rat sample sequenced in 2022 | SRR24926850 | WGS | PRJNA974695 | SAMN35294646 | Illumina NovaSeq 6000 | 301 | 142238494593 | 48035391795 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| FXLE20_Stm_2019NG | FXLE20/Stm | 1302633 | FXLE20/Stm rat sample sequenced in 2019 | SRR24926845 | WGS | PRJNA974695 | SAMN35294647 | Illumina NovaSeq 6000 | 300 | 180701908200 | 58728613538 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by Novogene | NBRP Japan | 10116 | Rattus norvegicus | Norway rat |
| FXLE20_StmMcwi_2023 | FXLE20/StmMcwi | 156430109 | FXLE20/StmMcwi rat sample sequenced in 2023 | SRR24926882 | WGS | PRJNA974695 | SAMN35294648 | Illumina NovaSeq 6000 | 301 | 150001365782 | 49696510807 | PAIRED | RANDOM | GENOMIC | male | young adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| FXLE21_StmMcwi_2023 | FXLE21/StmMcwi | 156430103 | FXLE21/StmMcwi rat sample sequenced in 2023 | SRR24926883 | WGS | PRJNA974695 | SAMN35294649 | Illumina NovaSeq 6000 | 301 | 144972904405 | 48468342686 | PAIRED | RANDOM | GENOMIC | male | young adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| FXLE22_StmMcwi_2023 | FXLE22/StmMcwi | 156430104 | FXLE22/StmMcwi rat sample sequenced in 2023 | SRR24926839 | WGS | PRJNA974695 | SAMN35294650 | Illumina NovaSeq 6000 | 300 | 127962553124 | 42897339204 | PAIRED | RANDOM | GENOMIC | male | young adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| FXLE23_Stm_2022 | FXLE23/Stm | 1302601 | FXLE23/Stm rat sample sequenced in 2022 | SRR24926849 | WGS | PRJNA974695 | SAMN35294651 | Illumina NovaSeq 6000 | 301 | 129193421450 | 42974581292 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | NBRP Japan | 10116 | Rattus norvegicus | Norway rat |
| FXLE23_StmMcwi_2023 | FXLE23/StmMcwi | 156430105 | FXLE23/StmMcwi rat sample sequenced in 2023 | SRR24926840 | WGS | PRJNA974695 | SAMN35294652 | Illumina NovaSeq 6000 | 301 | 160796134697 | 53777190246 | PAIRED | RANDOM | GENOMIC | male | young adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| FXLE25_Stm_2022 | FXLE25/Stm | 1302603 | FXLE25/Stm rat sample sequenced in 2022 | SRR24926848 | WGS | PRJNA974695 | SAMN35294653 | Illumina NovaSeq 6000 | 301 | 163964804441 | 56342529296 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | NBRP Japan | 10116 | Rattus norvegicus | Norway rat |
| FXLE25_StmMcwi_2023 | FXLE25/StmMcwi | 1302603 | FXLE25/StmMcwi rat sample sequenced in 2023 | SRR24926884 | WGS | PRJNA974695 | SAMN35294654 | Illumina NovaSeq 6000 | 301 | 144482656831 | 48292614368 | PAIRED | RANDOM | GENOMIC | male | young adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| FXLE26_Stm_2022 | FXLE26/Stm | 1302598 | FXLE26/Stm rat sample sequenced in 2022 | SRR24926847 | WGS | PRJNA974695 | SAMN35294655 | Illumina NovaSeq 6000 | 300 | 144932358014 | 48769691298 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | NBRP Japan | 10116 | Rattus norvegicus | Norway rat |
| FXLE26_StmMcwi_2023 | FXLE26/StmMcwi | 156430108 | FXLE26/StmMcwi rat sample sequenced in 2023 | SRR24926885 | WGS | PRJNA974695 | SAMN35294656 | Illumina NovaSeq 6000 | 301 | 180156933791 | 59916147801 | PAIRED | RANDOM | GENOMIC | male | young adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| GK_FarMcwi_2019 | GK/FarMcwi | 10395297 | GK/FarMcwi rat sample sequenced in 2019 | SRR24926844 | WGS | PRJNA974695 | SAMN35294657 | Illumina NovaSeq 6000 | 300 | 142267960478 | 49723707783 | PAIRED | RANDOM | GENOMIC | male | young adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| GK_FarMcwi_2019NG | GK/FarMcwi | 10395297 | GK/FarMcwi rat sample sequenced in 2019 | SRR24926843 | WGS | PRJNA974695 | SAMN35294658 | Illumina NovaSeq 6000 | 300 | 192632545800 | 60531102851 | PAIRED | RANDOM | GENOMIC | male | young adult | spleen | sequenced by Novogene | MCW | 10116 | Rattus norvegicus | Norway rat |
| HXB10_IpcvMcwi_2019 | HXB10/IpcvMcwi | 38549351 | HXB10/IpcvMcwi rat sample sequenced in 2019 | SRR24926842 | WGS | PRJNA974695 | SAMN35294659 | Illumina NovaSeq 6000 | 300 | 132839206511 | 47453529125 | PAIRED | RANDOM | GENOMIC | male | young adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| HXB17_IpcvMcwi_2021 | HXB17/IpcvMcwi | 2307085 | HXB17/IpcvMcwi rat sample sequenced in 2021 | SRR24926865 | WGS | PRJNA974695 | SAMN35294660 | Illumina NovaSeq 6000 | 301 | 82090066520 | 28112460890 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| HXB18_IpcvMcwi_2021 | HXB18/IpcvMcwi | 156420148 | HXB18/IpcvMcwi rat sample sequenced in 2021 | SRR24926864 | WGS | PRJNA974695 | SAMN35294661 | Illumina NovaSeq 6000 | 300 | 89366730744 | 30761313906 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| HXB2_IpcvMcwi_2019 | HXB2/IpcvMcwi | 149735520 | HXB2/IpcvMcwi rat sample sequenced in 2019 | SRR24926841 | WGS | PRJNA974695 | SAMN35294662 | Illumina NovaSeq 6000 | 299 | 145838319485 | 52460103584 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| HXB20_IpcvMcwi_2020 | HXB20/IpcvMcwi | 149735521 | HXB20/IpcvMcwi rat sample sequenced in 2020 | SRR24926802 | WGS | PRJNA974695 | SAMN35294663 | Illumina NovaSeq 6000 | 302 | 81087415552 | 27739263168 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| HXB23_IpcvMcwi_2021 | HXB23/IpcvMcwi | 156420149 | HXB23/IpcvMcwi rat sample sequenced in 2021 | SRR24926863 | WGS | PRJNA974695 | SAMN35294664 | Illumina NovaSeq 6000 | 301 | 61333950141 | 20783594347 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| HXB31_IpcvMcwi_2019 | HXB31/IpcvMcwi | 149735519 | HXB31/IpcvMcwi rat sample sequenced in 2019 | SRR24926838 | WGS | PRJNA974695 | SAMN35294665 | Illumina NovaSeq 6000 | 300 | 143725558092 | 50672243314 | PAIRED | RANDOM | GENOMIC | male | young adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| HXB4_IpcvMcwi_2020 | HXB4/IpcvMcwi | 149735518 | HXB4/IpcvMcwi rat sample sequenced in 2020 | SRR24926801 | WGS | PRJNA974695 | SAMN35294666 | Illumina NovaSeq 6000 | 302 | 77242996322 | 26940571301 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| LE_Stm_2019 | LE/Stm | 629485 | LE/Stm rat sample sequenced in 2019 | SRR24926837 | WGS | PRJNA974695 | SAMN35294667 | Illumina NovaSeq 6000 | 300 | 148402745378 | 52180507008 | PAIRED | RANDOM | GENOMIC | male | young adult | spleen | sequenced by MCW | NBRP Japan | 10116 | Rattus norvegicus | Norway rat |
| LEW_Crl_2019 | LEW/Crl | 737932 | LEW/Crl rat sample sequenced in 2019 | SRR24926836 | WGS | PRJNA974695 | SAMN35294668 | Illumina NovaSeq 6000 | 300 | 146317213651 | 52304238801 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | Charles River | 10116 | Rattus norvegicus | Norway rat |
| LEW_Crl_2019NG | LEW/Crl | 737932 | LEW/Crl rat sample sequenced in 2019 | SRR24926835 | WGS | PRJNA974695 | SAMN35294669 | Illumina NovaSeq 6000 | 300 | 180956523000 | 56475139156 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by Novogene | Charles River | 10116 | Rattus norvegicus | Norway rat |
| LEXF10A_StmMcwi_2020 | LEXF10A/StmMcwi | 149735517 | LEXF10A/StmMcwi rat sample sequenced in 2020 | SRR24926800 | WGS | PRJNA974695 | SAMN35294670 | Illumina NovaSeq 6000 | 302 | 84720847012 | 29223427538 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| LEXF10B_StmMcwi_2022 | LEXF10B/StmMcwi | 156430091 | LEXF10B/StmMcwi rat sample sequenced in 2022 | SRR24926846 | WGS | PRJNA974695 | SAMN35294671 | Illumina NovaSeq 6000 | 301 | 124932977432 | 43316299894 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| LEXF10C_Stm_2022 | LEXF10C/Stm | 1302612 | LEXF10C/Stm rat sample sequenced in 2022 | SRR24926825 | WGS | PRJNA974695 | SAMN35294672 | Illumina NovaSeq 6000 | 301 | 151697639995 | 50692728109 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | NBRP Japan | 10116 | Rattus norvegicus | Norway rat |
| LEXF10C_StmMcwi_2023 | LEXF10C/StmMcwi | 156430092 | LEXF10C/StmMcwi rat sample sequenced in 2023 | SRR24926887 | WGS | PRJNA974695 | SAMN35294673 | Illumina NovaSeq 6000 | 301 | 185046366127 | 61916669295 | PAIRED | RANDOM | GENOMIC | male | young adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| LEXF11_Stm_2020 | LEXF11/Stm | 1302638 | LEXF11/Stm rat sample sequenced in 2020 | SRR24926798 | WGS | PRJNA974695 | SAMN35294674 | Illumina NovaSeq 6000 | 302 | 97274330766 | 33795349279 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | NBRP Japan | 10116 | Rattus norvegicus | Norway rat |
| LEXF1A_Stm_2019 | LEXF1A/Stm | 1302641 | LEXF1A/Stm rat sample sequenced in 2019 | SRR24926834 | WGS | PRJNA974695 | SAMN35294675 | Illumina NovaSeq 6000 | 300 | 156625133052 | 56407011426 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | NBRP Japan | 10116 | Rattus norvegicus | Norway rat |
| LEXF1C_Stm_2019 | LEXF1C/Stm | 1302666 | LEXF1C/Stm rat sample sequenced in 2019 | SRR24926808 | WGS | PRJNA974695 | SAMN35294676 | Illumina NovaSeq 6000 | 300 | 139177606876 | 48452266959 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | NBRP Japan | 10116 | Rattus norvegicus | Norway rat |
| LEXF1C_StmMcwi_2021 | LEXF1C/StmMcwi | 153344519 | LEXF1C/StmMcwi rat sample sequenced in 2021 | SRR24926862 | WGS | PRJNA974695 | SAMN35294677 | Illumina NovaSeq 6000 | 300 | 96841428997 | 32832767534 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| LEXF2A_Stm_2022 | LEXF2A/Stm | 1302605 | LEXF2A/Stm rat sample sequenced in 2022 | SRR24926824 | WGS | PRJNA974695 | SAMN35294678 | Illumina NovaSeq 6000 | 301 | 148735127450 | 52446845538 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | NBRP Japan | 10116 | Rattus norvegicus | Norway rat |
| LEXF2A_StmMcwi_2023 | LEXF2A/StmMcwi | 156430077 | LEXF2A/StmMcwi rat sample sequenced in 2023 | SRR24926888 | WGS | PRJNA974695 | SAMN35294679 | Illumina NovaSeq 6000 | 301 | 135997762639 | 45336710138 | PAIRED | RANDOM | GENOMIC | male | young adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| LEXF2B_Stm_2019 | LEXF2B/Stm | 1302710 | LEXF2B/Stm rat sample sequenced in 2019 | SRR24926833 | WGS | PRJNA974695 | SAMN35294680 | Illumina NovaSeq 6000 | 300 | 119028615937 | 41959346981 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | NBRP Japan | 10116 | Rattus norvegicus | Norway rat |
| LEXF2C_StmMcwi_2022 | LEXF2C/StmMcwi | 156430079 | LEXF2C/StmMcwi rat sample sequenced in 2022 | SRR24926898 | WGS | PRJNA974695 | SAMN35294681 | Illumina NovaSeq 6000 | 301 | 163213141424 | 57342676468 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| LEXF3_Stm_2020 | LEXF3/Stm | 1302707 | LEXF3/Stm rat sample sequenced in 2020 | SRR24926797 | WGS | PRJNA974695 | SAMN35294682 | Illumina NovaSeq 6000 | 302 | 91399647076 | 32219081258 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | NBRP Japan | 10116 | Rattus norvegicus | Norway rat |
| LEXF4_Stm_2020 | LEXF4/Stm | 1302604 | LEXF4/Stm rat sample sequenced in 2020 | SRR24926796 | WGS | PRJNA974695 | SAMN35294683 | Illumina NovaSeq 6000 | 302 | 81367472836 | 28482296585 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | NBRP Japan | 10116 | Rattus norvegicus | Norway rat |
| LEXF5_Stm_2019NG | LEXF5/Stm | 1302723 | LEXF5/Stm rat sample sequenced in 2019 | SRR24926832 | WGS | PRJNA974695 | SAMN35294684 | Illumina NovaSeq 6000 | 300 | 156186866400 | 50692182205 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by Novogene | NBRP Japan | 10116 | Rattus norvegicus | Norway rat |
| LEXF5_StmMcwi_2023 | LEXF5/StmMcwi | 156430082 | LEXF5/StmMcwi rat sample sequenced in 2023 | SRR24926866 | WGS | PRJNA974695 | SAMN35294685 | Illumina NovaSeq 6000 | 301 | 135530092261 | 44827241671 | PAIRED | RANDOM | GENOMIC | male | young adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| LEXF6B_Stm_2019NG | LEXF6B/Stm | 1302617 | LEXF6B/Stm rat sample sequenced in 2019 | SRR24926831 | WGS | PRJNA974695 | SAMN35294686 | Illumina NovaSeq 6000 | 300 | 199955616000 | 64663521879 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by Novogene | NBRP Japan | 10116 | Rattus norvegicus | Norway rat |
| LEXF6B_StmMcwi_2023 | LEXF6B/StmMcwi | 153344520 | LEXF6B/StmMcwi rat sample sequenced in 2023 | SRR24926867 | WGS | PRJNA974695 | SAMN35294687 | Illumina NovaSeq 6000 | 301 | 151417024551 | 50095018884 | PAIRED | RANDOM | GENOMIC | male | young adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| LEXF7A_Stm_2019NG | LEXF7A/Stm | 1302652 | LEXF7A/Stm rat sample sequenced in 2019 | SRR24926830 | WGS | PRJNA974695 | SAMN35294688 | Illumina NovaSeq 6000 | 300 | 217905671700 | 69499346336 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by Novogene | NBRP Japan | 10116 | Rattus norvegicus | Norway rat |
| LEXF7B_StmMcwi_2022 | LEXF7B/StmMcwi | 156430085 | LEXF7B/StmMcwi rat sample sequenced in 2022 | SRR24926897 | WGS | PRJNA974695 | SAMN35294689 | Illumina NovaSeq 6000 | 301 | 130090542197 | 43617645060 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| LEXF7C_StmMcwi_2022 | LEXF7C/StmMcwi | 156430086 | LEXF7C/StmMcwi rat sample sequenced in 2022 | SRR24926896 | WGS | PRJNA974695 | SAMN35294690 | Illumina NovaSeq 6000 | 301 | 117337071589 | 39436451421 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| LEXF8A_StmMcwi_2021 | LEXF8A/StmMcwi | 156430087 | LEXF8A/StmMcwi rat sample sequenced in 2021 | SRR24926861 | WGS | PRJNA974695 | SAMN35294691 | Illumina NovaSeq 6000 | 301 | 63755412160 | 21787623342 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| LEXF8D_Stm_2022 | LEXF8D/Stm | 1302699 | LEXF8D/Stm rat sample sequenced in 2022 | SRR24926895 | WGS | PRJNA974695 | SAMN35294692 | Illumina NovaSeq 6000 | 301 | 164796758008 | 55988480737 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | NBRP Japan | 10116 | Rattus norvegicus | Norway rat |
| LEXF8D_StmMcwi_2023 | LEXF8D/StmMcwi | 156430089 | LEXF8D/StmMcwi rat sample sequenced in 2023 | SRR24926868 | WGS | PRJNA974695 | SAMN35294693 | Illumina NovaSeq 6000 | 301 | 166051439648 | 55116481711 | PAIRED | RANDOM | GENOMIC | male | young adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| LEXF9_StmMcwi_2022 | LEXF9/StmMcwi | 156430090 | LEXF9/StmMcwi rat sample sequenced in 2022 | SRR24926894 | WGS | PRJNA974695 | SAMN35294694 | Illumina NovaSeq 6000 | 301 | 158739842951 | 53118079119 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| LH_MavRrrcAek_2020 | LH/MavRrrcAek | 10755352 | LH/MavRrrcAek rat sample sequenced in 2020 | SRR24926795 | WGS | PRJNA974695 | SAMN35294695 | Illumina NovaSeq 6000 | 302 | 108478384598 | 37798663291 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | Dr. Kwitek | 10116 | Rattus norvegicus | Norway rat |
| LL_MavRrrcAek_2020 | LL/MavRrrcAek | 149735516 | LL/MavRrrcAek rat sample sequenced in 2020 | SRR24926794 | WGS | PRJNA974695 | SAMN35294696 | Illumina NovaSeq 6000 | 302 | 85952464318 | 29831486112 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | Dr. Kwitek | 10116 | Rattus norvegicus | Norway rat |
| LN_MavRrrcAek_2020 | LN/MavRrrcAek | 10755354 | LN/MavRrrcAek rat sample sequenced in 2020 | SRR24926793 | WGS | PRJNA974695 | SAMN35294697 | Illumina NovaSeq 6000 | 302 | 81207904794 | 28734730105 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | Dr. Kwitek | 10116 | Rattus norvegicus | Norway rat |
| M520_N_2020 | M520/N | 10024 | M520/N rat sample sequenced in 2020 | SRR24926792 | WGS | PRJNA974695 | SAMN35294698 | Illumina NovaSeq 6000 | 302 | 70344845806 | 24317353097 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | NIH | 10116 | Rattus norvegicus | Norway rat |
| M520_NRrrcMcwi_2019 | M520/NRrrcMcwi | 40818401 | M520/NRrrcMcwi rat sample sequenced in 2019 | SRR24926829 | WGS | PRJNA974695 | SAMN35294699 | Illumina NovaSeq 6000 | 300 | 151870115447 | 54163347657 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| M520_NRrrcMcwi_2019NG | M520/NRrrcMcwi | 40818401 | M520/NRrrcMcwi rat sample sequenced in 2019 | SRR24926828 | WGS | PRJNA974695 | SAMN35294700 | Illumina NovaSeq 6000 | 300 | 190633977300 | 59388168412 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by Novogene | MCW | 10116 | Rattus norvegicus | Norway rat |
| MR_N_2020 | MR/N | 70449 | MR/N rat sample sequenced in 2020 | SRR24926791 | WGS | PRJNA974695 | SAMN35294701 | Illumina NovaSeq 6000 | 302 | 103418891924 | 35978842541 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | NIH | 10116 | Rattus norvegicus | Norway rat |
| MR_NRrrc_2022 | MR/NRrrc | 153323320 | MR/NRrrc rat sample sequenced in 2022 | SRR24926893 | WGS | PRJNA974695 | SAMN35294702 | Illumina NovaSeq 6000 | 301 | 129864821056 | 44092763428 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | RRRC | 10116 | Rattus norvegicus | Norway rat |
| MWF_SimwMcwi_2019 | MWF/SimwMcwi | 155888488 | MWF/SimwMcwi rat sample sequenced in 2019 | SRR24926827 | WGS | PRJNA974695 | SAMN35294703 | Illumina NovaSeq 6000 | 300 | 125409790099 | 44309451351 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| MWF_SimwMcwi_2019NG | MWF/SimwMcwi | 155888488 | MWF/SimwMcwi rat sample sequenced in 2019 | SRR24926826 | WGS | PRJNA974695 | SAMN35294704 | Illumina NovaSeq 6000 | 300 | 175229691000 | 54937229867 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by Novogene | MCW | 10116 | Rattus norvegicus | Norway rat |
| PVG_Seac_2019 | PVG/Seac | 1302722 | PVG/Seac rat sample sequenced in 2019 | SRR24926822 | WGS | PRJNA974695 | SAMN35294705 | Illumina NovaSeq 6000 | 300 | 128848947489 | 45176231646 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | NBRP Japan | 10116 | Rattus norvegicus | Norway rat |
| RCS_LavRrrcMcwi_2021 | RCS/LavRrrcMcwi | 156362762 | RCS/LavRrrcMcwi rat sample sequenced in 2021 | SRR24926860 | WGS | PRJNA974695 | SAMN35294706 | Illumina NovaSeq 6000 | 300 | 57173408617 | 19361650775 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| SHR_NCrl_2021 | SHR/NCrl | 1357994 | SHR/NCrl rat sample sequenced in 2021 | SRR24926859 | WGS | PRJNA974695 | SAMN35294707 | Illumina NovaSeq 6000 | 301 | 56870438756 | 19603671439 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | Charles River | 10116 | Rattus norvegicus | Norway rat |
| SHR_NHsd_2021 | SHR/NHsd | 724574 | SHR/NHsd rat sample sequenced in 2021 | SRR24926858 | WGS | PRJNA974695 | SAMN35294708 | Illumina NovaSeq 6000 | 301 | 49784400998 | 16930389204 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | Envigo/Inotiv | 10116 | Rattus norvegicus | Norway rat |
| SHR_OlalpcvMcwi_2019 | SHR/OlalpcvMcwi | 38549352 | SHR/OlalpcvMcwi rat sample sequenced in 2019 | SRR24926819 | WGS | PRJNA974695 | SAMN35294709 | Illumina NovaSeq 6000 | 299 | 144785387092 | 50995518893 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| SHR_OlalpcvMcwi_2019NG | SHR/OlalpcvMcwi | 38549352 | SHR/OlalpcvMcwi rat sample sequenced in 2019 | SRR24926818 | WGS | PRJNA974695 | SAMN35294710 | Illumina NovaSeq 6000 | 300 | 178936977300 | 55639151559 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by Novogene | MCW | 10116 | Rattus norvegicus | Norway rat |
| SHRSP_A3NCrl_2019 | SHRSP/A3NCrl | 2311051 | SHRSP/A3NCrl rat sample sequenced in 2019 | SRR24926817 | WGS | PRJNA974695 | SAMN35294711 | Illumina NovaSeq 6000 | 300 | 132630949000 | 47962450621 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | Charles River | 10116 | Rattus norvegicus | Norway rat |
| SHRSP_A3NCrl_2019NG | SHRSP/A3NCrl | 2311051 | SHRSP/A3NCrl rat sample sequenced in 2019 | SRR24926816 | WGS | PRJNA974695 | SAMN35294712 | Illumina NovaSeq 6000 | 300 | 189106740000 | 59203316775 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by Novogene | Charles River | 10116 | Rattus norvegicus | Norway rat |
| SR_JrHsd_2020 | SR/JrHsd | 1582184 | SR/JrHsd rat sample sequenced in 2020 | SRR24926790 | WGS | PRJNA974695 | SAMN35294713 | Illumina NovaSeq 6000 | 302 | 101422470792 | 35256794544 | PAIRED | RANDOM | GENOMIC | female | adult | spleen | sequenced by MCW | Envigo/Inotiv | 10116 | Rattus norvegicus | Norway rat |
| SS_HsdMcwiCrl_2021 | SS/HsdMcwiCrl | 2308886 | SS/HsdMcwiCrl rat sample sequenced in 2021 | SRR24926857 | WGS | PRJNA974695 | SAMN35294714 | Illumina NovaSeq 6000 | 301 | 51460909224 | 17687835770 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | Charles River | 10116 | Rattus norvegicus | Norway rat |
| SS_JrHsd_2021 | SS/JrHsd | 1582190 | SR/JrHsd rat sample sequenced in 2021 | SRR24926854 | WGS | PRJNA974695 | SAMN35294715 | Illumina NovaSeq 6000 | 301 | 57723231457 | 20813913608 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | Envigo/Inotiv | 10116 | Rattus norvegicus | Norway rat |
| SS_JrHsdMcwi_2019 | SS/JrHsdMcwi | 61499 | SS/JrHsdMcwi rat sample sequenced in 2019 | SRR24926815 | WGS | PRJNA974695 | SAMN35294716 | Illumina NovaSeq 6000 | 300 | 119693992119 | 42330219573 | PAIRED | RANDOM | GENOMIC | male | young adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat |
| SS_JrHsdMcwi_2019NG | SS/JrHsdMcwi | 61499 | SS/JrHsdMcwi rat sample sequenced in 2019 | SRR24926814 | WGS | PRJNA974695 | SAMN35294717 | Illumina NovaSeq 6000 | 300 | 188110273800 | 59525264347 | PAIRED | RANDOM | GENOMIC | male | young adult | spleen | sequenced by Novogene | MCW | 10116 | Rattus norvegicus | Norway rat |
| WAG_RijCrl_2020 | WAG/RijCrl | 2312498 | WAG/RijCrl rat sample sequenced in 2020 | SRR24926856 | WGS | PRJNA974695 | SAMN35294718 | Illumina NovaSeq 6000 | 302 | 85332169606 | 30334679717 | PAIRED | RANDOM | GENOMIC | female | adult | spleen | sequenced by MCW | Charles River | 10116 | Rattus norvegicus | Norway rat |
| WKY_N_2020 | WKY/N | 70454 | WKY/N rat sample sequenced in 2020 | SRR24926853 | WGS | PRJNA974695 | SAMN35294719 | Illumina NovaSeq 6000 | 302 | 92533472554 | 32340691783 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | NIH | 10116 | Rattus norvegicus | Norway rat |
| WKY_NCrl_2019 | WKY/NCrl | 1358112 | WKY/NCrl rat sample sequenced in 2019 | SRR24926813 | WGS | PRJNA974695 | SAMN35294720 | Illumina NovaSeq 6000 | 300 | 168797089913 | 60312612808 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | Charles River | 10116 | Rattus norvegicus | Norway rat |
| WKY_NCrl_2019NG | WKY/NCrl | 1358112 | WKY/NCrl rat sample sequenced in 2019 | SRR24926812 | WGS | PRJNA974695 | SAMN35294721 | Illumina NovaSeq 6000 | 300 | 191994360900 | 60150486765 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by Novogene | Charles River | 10116 | Rattus norvegicus | Norway rat |
| WKY_NHsd_2022 | WKY/NHsd | 61105 | WKY/NHsd rat sample sequenced in 2022 | SRR24926892 | WGS | PRJNA974695 | SAMN35294722 | Illumina NovaSeq 6000 | 301 | 140676261947 | 47643215465 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | Envigo/Inotiv | 10116 | Rattus norvegicus | Norway rat |
| WN_N_2020 | WN/N | 10045 | WN/N rat sample sequenced in 2020 | SRR24926852 | WGS | PRJNA974695 | SAMN35294723 | Illumina NovaSeq 6000 | 302 | 89354811720 | 30992997457 | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | NIH | 10116 | Rattus norvegicus | Norway rat |
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