0b248354b16bae38d735588644d54244d966dd1a hiram Thu Jun 29 13:13:24 2023 -0700 adding population and subpopulation descriptions refs #31561 diff --git src/hg/makeDb/doc/hg38/hprc.metaData.tsv src/hg/makeDb/doc/hg38/hprc.metaData.tsv index 4a38a2a..81fb9bc 100644 --- src/hg/makeDb/doc/hg38/hprc.metaData.tsv +++ src/hg/makeDb/doc/hg38/hprc.metaData.tsv @@ -1,48 +1,52 @@ +# obtained from: https://github.com/human-pangenomics/HPP_Year1_Assemblies/blob/main/sample_metadata/hprc_year1_assemblies_v2_sample_metadata.txt +# and: https://github.com/human-pangenomics/HPP_Year1_Assemblies/blob/main/genbank_changes/y1_genbank_assembly_accession_ids.txt +# # Sample Cohort Sex FamilyID Subpopulation Superpopulation maternal paternal Superpopulation Notes +# HG002 HPRC_PLUS male 3140 PGP - GCA_018852615.1 GCA_018852605.1 Ashkenazim Jewish HG00438 HPRC female SH012 CHS EAS GCA_018471515.1 GCA_018472595.1 HG005 HPRC_PLUS male 3150 PGP - GCA_018506965.1 GCA_018506945.1 Chinese HG00621 HPRC male SH066 CHS EAS GCA_018472605.1 GCA_018472575.1 HG00673 HPRC male SH079 CHS EAS GCA_018472565.1 GCA_018472585.1 HG00733 HPRC_PLUS female PR05 PUR AMR GCA_018506975.1 GCA_018506955.1 HG00735 HPRC female PR06 PUR AMR GCA_018472765.1 GCA_018472715.1 HG00741 HPRC female PR09 PUR AMR GCA_018471095.1 GCA_018471105.1 HG01071 HPRC female PR17 PUR AMR GCA_018472685.1 GCA_018472725.1 HG01106 HPRC male PR25 PUR AMR GCA_018471345.1 GCA_018471075.1 HG01109 HPRC_PLUS male PR33 PUR AMR GCA_018504365.1 GCA_018504645.1 HG01123 HPRC female CLM02 CLM AMR GCA_018469665.1 GCA_018469695.1 HG01175 HPRC female PR36 PUR AMR GCA_018471085.1 GCA_018471065.1 HG01243 HPRC_PLUS male PR22 PUR AMR GCA_018504375.1 GCA_018504045.1 HG01258 HPRC male CLM16 CLM AMR GCA_018469405.1 GCA_018469675.1 HG01358 HPRC male CLM31 CLM AMR GCA_018469865.1 GCA_018469965.1 HG01361 HPRC female CLM32 CLM AMR GCA_018469685.1 GCA_018469705.1 HG01891 HPRC female BB05 ACB AFR GCA_018467155.1 GCA_018467165.1 HG01928 HPRC male PEL011 PEL AMR GCA_018472695.1 GCA_018472705.1 HG01952 HPRC male PEL019 PEL AMR GCA_018471545.1 GCA_018471555.1 HG01978 HPRC female PEL26 PEL AMR GCA_018472865.1 GCA_018472845.1 HG02055 HPRC_PLUS male BB15 ACB AFR GCA_018506125.1 GCA_018505855.1 HG02080 HPRC_PLUS female VN068 KHV EAS GCA_018504085.1 GCA_018504055.1 HG02109 HPRC_PLUS female BB18 ACB AFR GCA_018505825.1 GCA_018505865.1 HG02145 HPRC_PLUS male BB20 ACB AFR GCA_018852585.1 GCA_018852595.1 HG02148 HPRC female PEL39 PEL AMR GCA_018471535.1 GCA_018471525.1 HG02257 HPRC female BB21 ACB AFR GCA_018466845.1 GCA_018466835.1 HG02486 HPRC male BB55 ACB AFR GCA_018467015.1 GCA_018467005.1 HG02559 HPRC female BB68 ACB AFR GCA_018466985.1 GCA_018466855.1 HG02572 HPRC male GB21 GWD AFR GCA_018470445.1 GCA_018470435.1 HG02622 HPRC female GB31 GWD AFR GCA_018469875.1 GCA_018469925.1 HG02630 HPRC female GB33 GWD AFR GCA_018469955.1 GCA_018469945.1 HG02717 HPRC male GB50 GWD AFR GCA_018469935.1 GCA_018470425.1 HG02723 HPRC_PLUS female GB52 GWD AFR GCA_018504065.1 GCA_018504075.1 HG02818 HPRC_PLUS female GB66 GWD AFR GCA_018503585.1 GCA_018503575.1 HG02886 HPRC female GB89 GWD AFR GCA_018470455.1 GCA_018470465.1 HG03098 HPRC_PLUS male SL16 MSL AFR GCA_018506165.1 GCA_018506155.1 HG03453 HPRC female SL50 MSL AFR GCA_018472855.1 GCA_018473305.1 HG03486 HPRC_PLUS female SL61 MSL AFR GCA_018503525.1 GCA_018503245.1 HG03492 HPRC_PLUS male PK43 PJL SAS GCA_018505845.1 GCA_018505835.1 HG03516 HPRC female NG107 ESN AFR GCA_018469425.1 GCA_018469415.1 HG03540 HPRC female GB125 GWD AFR GCA_018473295.1 GCA_018473315.1 HG03579 HPRC male SL72 MSL AFR GCA_018472825.1 GCA_018472835.1 NA18906 HPRC_PLUS female Y020 YRI AFR GCA_018503255.1 GCA_018503285.1 NA19240 HPRC_PLUS female Y117 YRI AFR GCA_018503275.1 GCA_018503265.1 NA20129 HPRC_PLUS female 2433 ASW AFR GCA_018504635.1 GCA_018504625.1 NA21309 HPRC_PLUS female 2565 HAPMAP - GCA_018504655.1 GCA_018504665.1 MAASAI IN KINYAWA, KENYA