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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: Dwinell MR, Takizawa A, Tutaj M, Malloy L, Schilling R, Endsley A, Demos WM, Smith JR, Wang SJ, De Pons J, Kundurthi A, Geurts AM, Kwitek AE.
Establishing the hybrid rat diversity program: a resource for dissecting complex traits. Mamm Genome. 2025 Mar;36(1):25-37.
doi: 10.1007/s00335-024-10102-y. Epub 2025 Feb 5. PMID: 39907792; PMCID: PMC11880076.
Li K, Smith ML, Blazier JC, Kochan KJ, Wood JMD, Howe K, Kwitek AE, Dwinell MR, Chen H, Ciosek JL, Masterson P, Murphy TD, Kalbfleisch TS, Doris PA.
Construction and evaluation of a new rat reference genome assembly, GRCr8, from long reads and long-range scaffolding. Genome Res. 2024 Nov 20;34(11):2081-2093.
doi: 10.1101/gr.279292.124. PMID: 39516046; PMCID: PMC11610589.
# LINKS: https://rgd.mcw.edu/wg/hrdp_panel/, https://download.rgd.mcw.edu/strain_specific_variants/Dwinell_MCW_HybridRatDiversityProgram/
# 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-4.5.5.0, Picard-2.25.0, Samtools_v1.22.1, Bcftools_v1.22
4) Genome Assembly: GRCr8 = GCA_036323735.1
5) Pipline short 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 GRCr8 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. Variants were called
using GATK HaplotypeCaller in GVCF mode, with joint genotyping performed across samples using GenomicsDBImport and GenotypeGVCFs.
Variants with low coverage, low quality, strand biased and supported by low-confidence read alignment were removed (GATK Hard Filter).
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# METADATA: 146 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 | Dev_Stage | Tissue_type | Collected_by | Lab_Host | Tax_ID | Scientific_Name | Common_Name| Collection_Date|
|-------------------------| ----------------- | ------------- | --------------------------------------------- | ----------- |---------| ----------- | -------------| ------------------------- | ----------| ------------- | ------------- | ------------- | ----------------- | -------------- | -------- | ------------- | ------------ | ---------------------- | ------------- | -------|-------------------| ---------- | ----------------
| 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 | 2019 |
| 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 | 2019 |
| 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 | 2020 |
| 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 | 2022 |
| 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 | 2019 |
| 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 | 2019 |
| 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 | 2019 |
| 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 | 2019 |
| 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 | 2019 |
| 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 | 2020 |
| 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 | 2021 |
| 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 | 2022 |
| 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 | 2023 |
| 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 | 2021 |
| 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 | 2020 |
| 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 | 2022 |
| 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 | 2020 |
| 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 | 2020 |
| 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 | 2023 |
| 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 | 2020 |
| 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 | 2021 |
| 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 | 2019 |
| 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 | 2019 |
| 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 | 2019 |
| 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 | 2019 |
| 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 | 2021 |
| 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 | 2020 |
| 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 | 2019 |
| 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 | 2019 |
| 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 | 2021 |
| 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 | 2019 |
| 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 | 2019 |
| 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 | 2019 |
| 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 | 2019 |
| 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 | 2021 |
| 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 | 2023 |
| 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 | 2019 |
| 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 | 2023 |
| 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 | 2019 |
| 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 | 2023 |
| 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 | 2019 |
| 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 | 2021 |
| 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 | 2023 |
| 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 | 2020 |
| 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 | 2019 |
| 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 | 2023 |
| 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 | 2020 |
| 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 | 2022 |
| 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 | 2019 |
| 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 | 2023 |
| 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 | 2023 |
| 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 | 2023 |
| 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 | 2022 |
| 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 | 2023 |
| 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 | 2022 |
| 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 | 2023 |
| 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 | 2022 |
| 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 | 2023 |
| 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 | 2019 |
| 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 | 2019 |
| 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 | 2019 |
| 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 | 2021 |
| 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 | 2021 |
| 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 | 2019 |
| 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 | 2020 |
| 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 | 2021 |
| 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 | 2019 |
| 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 | 2020 |
| 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 | 2019 |
| 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 | 2019 |
| 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 | 2019 |
| 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 | 2020 |
| 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 | 2022 |
| 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 | 2022 |
| 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 | 2023 |
| 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 | 2020 |
| 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 | 2019 |
| 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 | 2019 |
| 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 | 2021 |
| 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 | 2022 |
| 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 | 2023 |
| 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 | 2019 |
| 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 | 2022 |
| 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 | 2020 |
| 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 | 2020 |
| 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 | 2019 |
| 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 | 2023 |
| 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 | 2019 |
| 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 | 2023 |
| 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 | 2019 |
| 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 | 2022 |
| 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 | 2022 |
| 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 | 2021 |
| 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 | 2022 |
| 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 | 2023 |
| 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 | 2022 |
| 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 | 2020 |
| 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 | 2020 |
| 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 | 2020 |
| 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 | 2020 |
| 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 | 2019 |
| 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 | 2019 |
| 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 | 2020 |
| 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 | 2022 |
| 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 | 2019 |
| 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 | 2019 |
| 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 | 2019 |
| 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 | 2021 |
| 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 | 2021 |
| 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 | 2021 |
| 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 | 2019 |
| 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 | 2019 |
| 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 | 2019 |
| 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 | 2019 |
| 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 | 2020 |
| 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 | 2021 |
| 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 | 2021 |
| 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 | 2019 |
| 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 | 2019 |
| 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 | 2020 |
| 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 | 2020 |
| 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 | 2019 |
| 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 | 2019 |
| 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 | 2022 |
| 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 | 2020 |
| BN_NHsdMcwi_2024L | BN/NHsdMcwi | 61498 | BN/NHsdMcwi rat sample sequenced in 2024 | NA | WGS | PRJNA974695 | NA | Illumina NovaSeq 6000 | NA | NA | NA | PAIRED | RANDOM | GENOMIC | male | adult | liver | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat | 2024 |
| BN_NHsdMcwi_2024S | BN/NHsdMcwi | 61498 | BN/NHsdMcwi rat sample sequenced in 2024 | NA | WGS | PRJNA974695 | NA | Illumina NovaSeq 6000 | NA | NA | NA | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat | 2024 |
| BXH10_CubMcwi_2024 | BXH10/CubMcwi | 616572806 | BXH10/CubMcwi rat sample sequenced in 2024 | NA | WGS | PRJNA974695 | NA | Illumina NovaSeq 6000 | NA | NA | NA | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat | 2024 |
| BXH12-1_CubMcwi_2024 | BXH12/CubMcwi | 156430110 | BXH12/CubMcwi rat sample sequenced in 2024 | NA | WGS | PRJNA974695 | NA | Illumina NovaSeq 6000 | NA | NA | NA | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat | 2024 |
| BXH13_CubMcwi_2024 | BXH13/CubMcwi | 401827899 | BXH13/CubMcwi rat sample sequenced in 2024 | NA | WGS | PRJNA974695 | NA | Illumina NovaSeq 6000 | NA | NA | NA | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat | 2024 |
| COP_HsdUwmRrrc_2024 | COP/HsdUwmRrrc | 155260360 | COP/HsdUwmRrrc rat sample sequenced in 2024 | NA | WGS | PRJNA974695 | NA | Illumina NovaSeq 6000 | NA | NA | NA | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat | 2024 |
| FXLE16_StmMcwi_2024 | FXLE16/StmMcwi | 156430099 | FXLE16/StmMcwi rat sample sequenced in 2024 | NA | WGS | PRJNA974695 | NA | Illumina NovaSeq 6000 | NA | NA | NA | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat | 2024 |
| FXLE18_StmMcwi_2024 | FXLE18/StmMcwi | 156430101 | FXLE18/StmMcwi rat sample sequenced in 2024 | NA | WGS | PRJNA974695 | NA | Illumina NovaSeq 6000 | NA | NA | NA | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat | 2024 |
| FXLE24_StmMcwi_2024 | FXLE24/StmMcwi | 156430106 | FXLE24/StmMcwi rat sample sequenced in 2024 | NA | WGS | PRJNA974695 | NA | Illumina NovaSeq 6000 | NA | NA | NA | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat | 2024 |
| HTX_KyoMcwi_2024 | HTX/KyoMcwi | 156406412 | HTX/KyoMcwi rat sample sequenced in 2024 | NA | WGS | PRJNA974695 | NA | Illumina NovaSeq 6000 | NA | NA | NA | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat | 2024 |
| HXB1_lpcvMcwi_2024 | HXB1/IpcvMcwi | 156420144 | HXB1/IpcvMcwi rat sample sequenced in 2024 | NA | WGS | PRJNA974695 | NA | Illumina NovaSeq 6000 | NA | NA | NA | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat | 2024 |
| HXB13_lpcvMcwi_2024 | HXB13/IpcvMcwi | 156420146 | HXB13/IpcvMcwi rat sample sequenced in 2024 | NA | WGS | PRJNA974695 | NA | Illumina NovaSeq 6000 | NA | NA | NA | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat | 2024 |
| HXB5_IpcvMcwi_2024 | HXB5/IpcvMcwi | 616572805 | HXB5/IpcvMcwi rat sample sequenced in 2024 | NA | WGS | PRJNA974695 | NA | Illumina NovaSeq 6000 | NA | NA | NA | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat | 2024 |
| HXB7_lpcvMcwi_2024 | HXB7/IpcvMcwi | 156420145 | HXB7/IpcvMcwi rat sample sequenced in 2024 | NA | WGS | PRJNA974695 | NA | Illumina NovaSeq 6000 | NA | NA | NA | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat | 2024 |
| LE_StmMcwi_2024 | LE/StmMcwi | 39456107 | LE/StmMcwi rat sample sequenced in 2024 | NA | WGS | PRJNA974695 | NA | Illumina NovaSeq 6000 | NA | NA | NA | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat | 2024 |
| LEXF1A_Stm_2024 | LEXF1A/Stm | 1302641 | LEXF1A/Stm rat sample sequenced in 2024 | NA | WGS | PRJNA974695 | NA | Illumina NovaSeq 6000 | NA | NA | NA | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat | 2024 |
| LEXF3_StmMcwi_2024 | LEXF3/StmMcwi | 156430080 | LEXF3/StmMcwi rat sample sequenced in 2024 | NA | WGS | PRJNA974695 | NA | Illumina NovaSeq 6000 | NA | NA | NA | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat | 2024 |
| LH_MavRrrcAek_2024 | LH/MavRrrcAek | 10755352 | LH/MavRrrcAek rat sample sequenced in 2024 | NA | WGS | PRJNA974695 | NA | Illumina NovaSeq 6000 | NA | NA | NA | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat | 2024 |
| MNS_NMcwi_2024 | MNS/NMcwi | 156420139 | MNS/NMcwi rat sample sequenced in 2024 | NA | WGS | PRJNA974695 | NA | Illumina NovaSeq 6000 | NA | NA | NA | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat | 2024 |
| PVG_SeacMcwi_2024 | PVG/SeacMcwi | 156354230 | PVG/SeacMcwi rat sample sequenced in 2024 | NA | WGS | PRJNA974695 | NA | Illumina NovaSeq 6000 | NA | NA | NA | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat | 2024 |
| WAG_RijCrl_2024 | WAG/RijCrl | 2312498 | WAG/RijCrl rat sample sequenced in 2024 | NA | WGS | PRJNA974695 | NA | Illumina NovaSeq 6000 | NA | NA | NA | PAIRED | RANDOM | GENOMIC | male | adult | spleen | sequenced by MCW | MCW | 10116 | Rattus norvegicus | Norway rat | 2024 |
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