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Add RodriguezVarela2024 samples #1372

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Add RodriguezVarela2024 samples #1372

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e2ce900
Add RodriguezVarela2024 samples
ZoePochon Feb 7, 2025
81c19b0
Update ancientsinglegenome-hostassociated_samples.tsv
ZoePochon Feb 7, 2025
987d397
Add RodriguezVarela2024 libraries
ZoePochon Feb 7, 2025
347e6dd
Update CHANGELOG.md
ZoePochon Feb 7, 2025
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4 changes: 4 additions & 0 deletions CHANGELOG.md
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Expand Up @@ -13,10 +13,14 @@ and this project follows to [Calendar Versioning](https://calver.org/).

#### Ancient Single Genome: Host Associated

- RodriguezVarela 2024 10.1126/sciadv.adp8625 (added by @ZoePochon)

#### Ancient Metagenome: Environmental

### Changed

- Added three new species names to singlegenome_species.json (added by @ZoePochon)

### Removed

## v24.12: Old Town of Corfu
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8 changes: 8 additions & 0 deletions ...entsinglegenome-hostassociated/libraries/ancientsinglegenome-hostassociated_libraries.tsv
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Expand Up @@ -3159,3 +3159,11 @@ Fiddaman2023 2023 10.1126/science.adg2238 OL1584 SRA PRJEB64489 ERS16164996 OL15
Fiddaman2023 2023 10.1126/science.adg2238 OL1584 SRA PRJEB64489 ERS16164996 OL1584ii double AmpliTaq Gold DNA none Illumina NovaSeq 6000 SINGLE Targeted-Capture 23678785 ERR11752806 fastq_all ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/006/ERR11752806/ERR11752806.fastq.gz 048c5746773f3c55c700d50f2e3dbb18 1664874891
Fiddaman2023 2023 10.1126/science.adg2238 OL1585 SRA PRJEB64489 ERS16164997 OL1585 double AmpliTaq Gold DNA none Illumina NovaSeq 6000 SINGLE Targeted-Capture 20374738 ERR11752797 fastq_all ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/097/ERR11752797/ERR11752797.fastq.gz f984b19b9778e16891f45ab5bc7394e4 584538336
Fiddaman2023 2023 10.1126/science.adg2238 OL1585 SRA PRJEB64489 ERS16164997 OL1585 double AmpliTaq Gold DNA none Illumina HiSeq 2500 SINGLE Targeted-Capture 2994421 ERR11752832 fastq_all ftp.sra.ebi.ac.uk/vol1/fastq/ERR117/032/ERR11752832/ERR11752832.fastq.gz 05838e7aa914b34d6e43e0585467c2fc 109193304
RodriguezVarela2024 2024 10.1126/sciadv.adp8625 ldo052 ENA PRJEB72246 ERS20844405 ldo052-b1e1l1p1 double AmpliTaq Gold DNA none Illumina NovaSeq 6000 SINGLE WGS 305483324 ERR13472628 fastq_all ftp.sra.ebi.ac.uk/vol1/fastq/ERR134/028/ERR13472628/ERR13472628.fastq.gz f24e63f36222625b085df0bf6db03310 13435471604
RodriguezVarela2024 2024 10.1126/sciadv.adp8625 ldo054 ENA PRJEB72246 ERS20844406 ldo054-b1e1l1p1 double AmpliTaq Gold DNA none Illumina NovaSeq 6000 SINGLE WGS 182031259 ERR13472629 fastq_all ftp.sra.ebi.ac.uk/vol1/fastq/ERR134/029/ERR13472629/ERR13472629.fastq.gz b92ebd364384ad0d310c66b5b7163097 8279491119
RodriguezVarela2024 2024 10.1126/sciadv.adp8625 ldo060 ENA PRJEB72246 ERS20844413 ldo060-b1e1l1p1 double AmpliTaq Gold DNA none Illumina NovaSeq 6000 SINGLE WGS 131534263 ERR13472637 fastq_all ftp.sra.ebi.ac.uk/vol1/fastq/ERR134/037/ERR13472637/ERR13472637.fastq.gz 2aa39e4bda1fdc6583cd3d81359f7332 6217241214
RodriguezVarela2024 2024 10.1126/sciadv.adp8625 ldo050 ENA PRJEB72246 ERS20844404 ldo050-b1e1l1p1 double AmpliTaq Gold DNA none Illumina NovaSeq 6000 SINGLE WGS 114553091 ERR13472627 fastq_all ftp.sra.ebi.ac.uk/vol1/fastq/ERR134/027/ERR13472627/ERR13472627.fastq.gz 29b913c4540b46fcee71657f50bf915a 5562221281
RodriguezVarela2024 2024 10.1126/sciadv.adp8625 ldo042 ENA PRJEB72246 ERS20844396 ldo042-b1e1l1p1 double AmpliTaq Gold DNA none Illumina NovaSeq 6000 SINGLE WGS 496384678 ERR13472616 fastq_all ftp.sra.ebi.ac.uk/vol1/fastq/ERR134/016/ERR13472616/ERR13472616.fastq.gz c1129e5af16c93169a9f49f502a5dd55 27026125898
RodriguezVarela2024 2024 10.1126/sciadv.adp8625 ldo042 ENA PRJEB72246 ERS20844396 ldo042-b1e2l1p1 double AmpliTaq Gold DNA none Illumina NovaSeq 6000 SINGLE WGS 32330711 ERR13472617 fastq_all ftp.sra.ebi.ac.uk/vol1/fastq/ERR134/017/ERR13472617/ERR13472617.fastq.gz 957be09accf4b3c9c157f1235d56c1fa 1557579667
RodriguezVarela2024 2024 10.1126/sciadv.adp8625 ldo049 ENA PRJEB72246 ERS20844403 ldo049-b1e1l1p1 double AmpliTaq Gold DNA none Illumina NovaSeq 6000 SINGLE WGS 354810947 ERR13472625 fastq_all ftp.sra.ebi.ac.uk/vol1/fastq/ERR134/025/ERR13472625/ERR13472625.fastq.gz 5a9709f3d5ade306428d827982361c3b 16153185523
RodriguezVarela2024 2024 10.1126/sciadv.adp8625 ldo049 ENA PRJEB72246 ERS20844403 ldo049r-b1e1l1p1 double AmpliTaq Gold DNA none Illumina NovaSeq 6000 SINGLE WGS 147249795 ERR13472626 fastq_all ftp.sra.ebi.ac.uk/vol1/fastq/ERR134/026/ERR13472626/ERR13472626.fastq.gz 4de2f14b9addb8d393624b5c4b2f74bc 6674435548
6 changes: 6 additions & 0 deletions ancientsinglegenome-hostassociated/samples/ancientsinglegenome-hostassociated_samples.tsv
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Expand Up @@ -734,3 +734,9 @@ Fiddaman2023 2023 10.1126/science.adg2238 Naderi Tepe 38.01 57.02 Iran OL2267 Ga
Fiddaman2023 2023 10.1126/science.adg2238 Castillo de Montsoriu 41.783 2.540 Spain OL1999 Gallus gallus 400 10.1126/science.adg2238 virus Gallid alphaherpesvirus 2 bone chromosome SRA raw PRJEB64489 ERS16164995
Fiddaman2023 2023 10.1126/science.adg2238 Kazan City 55.791 49.121 Russia OL1584 Gallus gallus 400 10.1126/science.adg2238 virus Gallid alphaherpesvirus 2 bone chromosome SRA raw PRJEB64489 ERS16164996
Fiddaman2023 2023 10.1126/science.adg2238 Cheboksary City 56.152 47.246 Russia OL1585 Gallus gallus 400 10.1126/science.adg2238 virus Gallid alphaherpesvirus 2 bone chromosome SRA raw PRJEB64489 ERS16164997
RodriguezVarela2024 2024 10.1126/sciadv.adp8625 Las Gobas 42.675 -2.627 Spain ldo052 Homo sapiens 1200 10.1126/sciadv.adp8625 bacteria Streptococcus pneumoniae tooth chromosome ENA raw PRJEB72246 ERS20844405
RodriguezVarela2024 2024 10.1126/sciadv.adp8625 Las Gobas 42.675 -2.627 Spain ldo054 Homo sapiens 1200 10.1126/sciadv.adp8625 bacteria Streptococcus pneumoniae tooth chromosome ENA raw PRJEB72247 ERS20844406
RodriguezVarela2024 2024 10.1126/sciadv.adp8625 Las Gobas 42.675 -2.627 Spain ldo060 Homo sapiens 1200 10.1126/sciadv.adp8625 bacteria Erysipelothrix rhusiopathiae tooth chromosome ENA raw PRJEB72248 ERS20844413
RodriguezVarela2024 2024 10.1126/sciadv.adp8625 Las Gobas 42.675 -2.627 Spain ldo050 Homo sapiens 1200 10.1126/sciadv.adp8625 bacteria Erysipelothrix rhusiopathiae tooth chromosome ENA raw PRJEB72249 ERS20844404
RodriguezVarela2024 2024 10.1126/sciadv.adp8625 Las Gobas 42.675 -2.627 Spain ldo042 Homo sapiens 1200 10.1126/sciadv.adp8625 bacteria Yersinia enterocolitica tooth chromosome ENA raw PRJEB72250 ERS20844396
RodriguezVarela2024 2024 10.1126/sciadv.adp8625 Las Gobas 42.675 -2.627 Spain ldo049 Homo sapiens 1000 10.1126/sciadv.adp8625 virus Variola virus tooth chromosome ENA raw PRJEB72251 ERS20844403