Skip to content

Commit

Permalink
Merge branch 'master' into Zampirolo-et-al.-2024
Browse files Browse the repository at this point in the history
  • Loading branch information
@alexhbnr
alexhbnr committed Oct 4, 2024
2 parents 25b37be + be25e57 commit 2fb4c53
Show file tree
Hide file tree
Showing 25 changed files with 3,790 additions and 3,487 deletions.
3 changes: 2 additions & 1 deletion CHANGELOG.md
View file
Original file line number Diff line number Diff line change
Expand Up @@ -11,7 +11,8 @@ and this project follows to [Calendar Versioning](https://calver.org/).

#### Ancient Metagenome: Host Associated

- Austin 2024 10.1038/s41598-024-64818-7 (added by @alexhbnr)
- Austin 2024 10.1038/s41598-024-64818-7 (added by @alexhbnr and @jfy133)
- Bozzi 2024 10.1038/s41598-023-40246-x (added by @DavideBozzi and @alexhbn)

#### Ancient Single Genome: Host Associated

Expand Down
70 changes: 70 additions & 0 deletions ancientmetagenome-hostassociated/libraries/ancientmetagenome-hostassociated_libraries.tsv
View file

Large diffs are not rendered by default.

76 changes: 73 additions & 3 deletions ancientmetagenome-hostassociated/samples/ancientmetagenome-hostassociated_samples.tsv
View file
Original file line number Diff line number Diff line change
Expand Up @@ -863,10 +863,10 @@ FellowsYates2021 2021 10.1073/pnas.2021655118 El Collado 38.919 -0.121 Spain ECO
FellowsYates2021 2021 10.1073/pnas.2021655118 El Collado 38.919 -0.121 Spain ECO010.B Homo sapiens 9000 10.1073/pnas.2021655118 oral dental calculus ENA PRJEB34569 ERS3774463
FellowsYates2021 2021 10.1073/pnas.2021655118 El Mirón 38.919 -0.121 Spain EMN001.A Homo sapiens 9000 10.1073/pnas.2021655118 oral dental calculus ENA PRJEB34569 ERS3774464
FellowsYates2021 2021 10.1073/pnas.2021655118 Mota 7.29 37.47 Ethiopia MOA001.A Homo sapiens 4500 10.1073/pnas.2021655118 oral dental calculus ENA PRJEB34569 ERS3774465
FellowsYates2021 2021 10.1073/pnas.2021655118 Dolní Věstonice II 48.883 16.65 Czech Republic DLV001.A Homo sapiens 31000 10.1073/pnas.2021655118 oral dental calculus ENA PRJEB34569 ERS3774466
FellowsYates2021 2021 10.1073/pnas.2021655118 Dolní Věstonice II 48.883 16.650086 Czech Republic DLV002.A Homo sapiens 31000 10.1073/pnas.2021655118 oral dental calculus ENA PRJEB34569 ERS3774467
FellowsYates2021 2021 10.1073/pnas.2021655118 Dolní Věstonice II 48.883 16.65 Czechia DLV001.A Homo sapiens 31000 10.1073/pnas.2021655118 oral dental calculus ENA PRJEB34569 ERS3774466
FellowsYates2021 2021 10.1073/pnas.2021655118 Dolní Věstonice II 48.883 16.650086 Czechia DLV002.A Homo sapiens 31000 10.1073/pnas.2021655118 oral dental calculus ENA PRJEB34569 ERS3774467
FellowsYates2021 2021 10.1073/pnas.2021655118 Größe Ofnethöhle 48.818 10.45 Germany OFN001.A Homo sapiens 9200 10.1073/pnas.2021655118 oral dental calculus ENA PRJEB34569 ERS3774468
FellowsYates2021 2021 10.1073/pnas.2021655118 Pavlov I 48.873 16.672 Czech Republic PLV001.A Homo sapiens 29500 10.1073/pnas.2021655118 oral dental calculus ENA PRJEB34569 ERS3774469
FellowsYates2021 2021 10.1073/pnas.2021655118 Pavlov I 48.873 16.672 Czechia PLV001.A Homo sapiens 29500 10.1073/pnas.2021655118 oral dental calculus ENA PRJEB34569 ERS3774469
FellowsYates2021 2021 10.1073/pnas.2021655118 Grotte de Rigney 47.383 6.166 France RIG001.A Homo sapiens 15400 10.1073/pnas.2021655118 oral dental calculus ENA PRJEB34569 ERS3774470
FellowsYates2021 2021 10.1073/pnas.2021655118 Essaouira (Mogador) 31.51 -9.76 Morocco ESA003.A Homo sapiens 300 10.1073/pnas.2021655118 oral dental calculus ENA PRJEB34569 ERS3774471
FellowsYates2021 2021 10.1073/pnas.2021655118 Essaouira (Mogador) 31.51 -9.76 Morocco ESA004.A Homo sapiens 300 10.1073/pnas.2021655118 oral dental calculus ENA PRJEB34569 ERS3774472
Expand Down Expand Up @@ -1469,3 +1469,73 @@ Austin2024 2024 10.1038/s41598-024-64818-7 St. Louis and Missouri 38.65 -90.26 U
Austin2024 2024 10.1038/s41598-024-64818-7 St. Louis and Missouri 38.65 -90.26 USA ARP 27 S Homo sapiens 100 10.1038/s41598-024-64818-7 oral dental calculus SRA PRJNA1056444 SRS19976921
Austin2024 2024 10.1038/s41598-024-64818-7 St. Louis and Missouri 38.65 -90.26 USA ARP 28 S Homo sapiens 100 10.1038/s41598-024-64818-7 oral dental calculus SRA PRJNA1056444 SRS19976912
Austin2024 2024 10.1038/s41598-024-64818-7 St. Louis and Missouri 38.65 -90.26 USA ARP 29 S Homo sapiens 100 10.1038/s41598-024-64818-7 oral dental calculus SRA PRJNA1056444 SRS19976942
Bozzi2024 2024 10.1038/s41598-023-40246-x Mutum -19.82 -41.44 Brazil MN0003 Homo sapiens 100 10.1101/2022.01.27.477466 skeletal tissue tooth ENA PRJEB67998 ERS16595011
Bozzi2024 2024 10.1038/s41598-023-40246-x Rio Doce -20.24 -42.9 Brazil MN0008 Homo sapiens 100 10.1101/2022.01.27.477466 skeletal tissue bone ENA PRJEB67998 ERS16595020
Bozzi2024 2024 10.1038/s41598-023-40246-x Rio Mucuri -17.51 -41.34 Brazil MN0009 Homo sapiens 200 10.1101/2022.01.27.477466 skeletal tissue tooth ENA PRJEB67998 ERS16595017
Bozzi2024 2024 10.1038/s41598-023-40246-x Itamacuari -18.03 -41.68 Brazil MN00010 Homo sapiens 100 10.1101/2022.01.27.477466 skeletal tissue tooth ENA PRJEB67998 ERS16594997
Bozzi2024 2024 10.1038/s41598-023-40246-x Mutum -19.82 -41.44 Brazil MN00013 Homo sapiens 100 10.1101/2022.01.27.477466 skeletal tissue tooth ENA PRJEB67998 ERS16595018
Bozzi2024 2024 10.1038/s41598-023-40246-x Itapimirim -20 -40 Brazil MN00016 Homo sapiens 400 10.1101/2022.01.27.477466 skeletal tissue tooth ENA PRJEB67998 ERS16595006
Bozzi2024 2024 10.1038/s41598-023-40246-x Mutum -19.82 -41.44 Brazil MN00021 Homo sapiens 100 10.1101/2022.01.27.477466 skeletal tissue tooth ENA PRJEB67998 ERS16595013
Bozzi2024 2024 10.1038/s41598-023-40246-x Mutum -19.82 -41.44 Brazil MN00022 Homo sapiens 100 10.1101/2022.01.27.477466 skeletal tissue tooth ENA PRJEB67998 ERS16595004
Bozzi2024 2024 10.1038/s41598-023-40246-x Rio Mucuri -17.51 -41.34 Brazil MN00023 Homo sapiens 100 10.1101/2022.01.27.477466 skeletal tissue tooth ENA PRJEB67998 ERS16595003
Bozzi2024 2024 10.1038/s41598-023-40246-x Mutum -19.82 -41.44 Brazil MN00039 Homo sapiens 100 10.1101/2022.01.27.477466 skeletal tissue tooth ENA PRJEB67998 ERS16595002
Bozzi2024 2024 10.1038/s41598-023-40246-x Mutum -19.82 -41.44 Brazil MN00045 Homo sapiens 200 10.1101/2022.01.27.477466 skeletal tissue tooth ENA PRJEB67998 ERS16595007
Bozzi2024 2024 10.1038/s41598-023-40246-x Mucuri (Itambacuari) -18.03 -41.68 Brazil MN00056 Homo sapiens 100 10.1101/2022.01.27.477466 skeletal tissue tooth ENA PRJEB67998 ERS16595019
Bozzi2024 2024 10.1038/s41598-023-40246-x Rio Doce -20.24 -42.9 Brazil MN00064 Homo sapiens 200 10.1101/2022.01.27.477466 skeletal tissue tooth ENA PRJEB67998 ERS16595009
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown -13 -50 Brazil MN00067 Homo sapiens 100 10.1101/2022.01.27.477466 skeletal tissue tooth ENA PRJEB67998 ERS16595014
Bozzi2024 2024 10.1038/s41598-023-40246-x Mutum -19.82 -41.44 Brazil MN00068 Homo sapiens 100 10.1101/2022.01.27.477466 skeletal tissue tooth ENA PRJEB67998 ERS16595005
Bozzi2024 2024 10.1038/s41598-023-40246-x Rio Mucuri -17.51 -41.34 Brazil MN00069 Homo sapiens 100 10.1101/2022.01.27.477466 skeletal tissue tooth ENA PRJEB67998 ERS16595000
Bozzi2024 2024 10.1038/s41598-023-40246-x Rio Prado -16.61 -40.57 Brazil MN00346 Homo sapiens 100 10.1101/2022.01.27.477466 skeletal tissue tooth ENA PRJEB67998 ERS16595015
Bozzi2024 2024 10.1038/s41598-023-40246-x Laguna -28.48 -48.78 Brazil MN01701 Homo sapiens 1900 10.1101/2022.01.27.477466 skeletal tissue tooth ENA PRJEB67998 ERS16594998
Bozzi2024 2024 10.1038/s41598-023-40246-x Serra de Babilonia -18 -44 Brazil MN1943 Homo sapiens 900 10.1101/2022.01.27.477466 skeletal tissue tooth ENA PRJEB67998 ERS16595001
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown NA NA Denmark H10_P Homo sapiens 200 10.1371/journal.pone.0170940 skeletal tissue bone ENA PRJEB18722 ERS1485688
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown NA NA Denmark H10_T Homo sapiens 200 10.1371/journal.pone.0170940 skeletal tissue tooth ENA PRJEB18722 ERS1485690
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown NA NA Denmark H2_P Homo sapiens 200 10.1371/journal.pone.0170940 skeletal tissue bone ENA PRJEB18722 ERS1485694
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown NA NA Denmark H2_T Homo sapiens 200 10.1371/journal.pone.0170940 skeletal tissue tooth ENA PRJEB18722 ERS1485696
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown NA NA Denmark H3_S Homo sapiens 200 10.1371/journal.pone.0170940 skeletal tissue bone ENA PRJEB18722 ERS1485698
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown NA NA Denmark H4_P Homo sapiens 200 10.1371/journal.pone.0170940 skeletal tissue bone ENA PRJEB18722 ERS1485700
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown NA NA Denmark H5_T Homo sapiens 200 10.1371/journal.pone.0170940 skeletal tissue tooth ENA PRJEB18722 ERS1485705
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown NA NA Denmark H7_P Homo sapiens 200 10.1371/journal.pone.0170940 skeletal tissue bone ENA PRJEB18722 ERS1485709
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown NA NA Denmark H8_P Homo sapiens 200 10.1371/journal.pone.0170940 skeletal tissue bone ENA PRJEB18722 ERS1485712
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown NA NA United Kingdom V10_T Homo sapiens 1000 10.1371/journal.pone.0170940 skeletal tissue tooth ENA PRJEB18722 ERS1485718
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown NA NA United Kingdom V11_P Homo sapiens 1000 10.1371/journal.pone.0170940 skeletal tissue bone ENA PRJEB18722 ERS1485719
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown NA NA United Kingdom V1_P Homo sapiens 1000 10.1371/journal.pone.0170940 skeletal tissue bone ENA PRJEB18722 ERS1485721
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown NA NA United Kingdom V1_T Homo sapiens 1000 10.1371/journal.pone.0170940 skeletal tissue tooth ENA PRJEB18722 ERS1485722
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown NA NA United Kingdom V2_T Homo sapiens 1000 10.1371/journal.pone.0170940 skeletal tissue tooth ENA PRJEB18722 ERS1485724
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown NA NA United Kingdom V4_P Homo sapiens 1000 10.1371/journal.pone.0170940 skeletal tissue bone ENA PRJEB18722 ERS1485727
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown NA NA United Kingdom V6_T Homo sapiens 1000 10.1371/journal.pone.0170940 skeletal tissue tooth ENA PRJEB18722 ERS1485732
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown NA NA United Kingdom V7_T Homo sapiens 1000 10.1371/journal.pone.0170940 skeletal tissue tooth ENA PRJEB18722 ERS1485734
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown NA NA United Kingdom V9_T Homo sapiens 1000 10.1371/journal.pone.0170940 skeletal tissue tooth ENA PRJEB18722 ERS1485738
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown NA NA Denmark H10_S Homo sapiens 200 10.1371/journal.pone.0170940 skeletal tissue bone ENA PRJEB18722 ERS1485689
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown NA NA Denmark H1_P Homo sapiens 200 10.1371/journal.pone.0170940 skeletal tissue bone ENA PRJEB18722 ERS1485691
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown NA NA Denmark H1_T Homo sapiens 200 10.1371/journal.pone.0170940 skeletal tissue tooth ENA PRJEB18722 ERS1485693
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown NA NA Denmark H5_S Homo sapiens 200 10.1371/journal.pone.0170940 skeletal tissue bone ENA PRJEB18722 ERS1485704
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown NA NA Denmark H6_T Homo sapiens 200 10.1371/journal.pone.0170940 skeletal tissue tooth ENA PRJEB18722 ERS1485708
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown NA NA Denmark H8_T Homo sapiens 200 10.1371/journal.pone.0170940 skeletal tissue tooth ENA PRJEB18722 ERS1485714
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown NA NA Denmark H9_P Homo sapiens 200 10.1371/journal.pone.0170940 skeletal tissue bone ENA PRJEB18722 ERS1485715
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown NA NA United Kingdom V2_P Homo sapiens 1000 10.1371/journal.pone.0170940 skeletal tissue bone ENA PRJEB18722 ERS1485723
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown NA NA United Kingdom V3_T Homo sapiens 1000 10.1371/journal.pone.0170940 skeletal tissue tooth ENA PRJEB18722 ERS1485726
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown NA NA United Kingdom V4_T Homo sapiens 1000 10.1371/journal.pone.0170940 skeletal tissue tooth ENA PRJEB18722 ERS1485728
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown NA NA United Kingdom V5_P Homo sapiens 1000 10.1371/journal.pone.0170940 skeletal tissue bone ENA PRJEB18722 ERS1485729
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown NA NA United Kingdom V6_P Homo sapiens 1000 10.1371/journal.pone.0170940 skeletal tissue bone ENA PRJEB18722 ERS1485731
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown NA NA United Kingdom V7_P Homo sapiens 1000 10.1371/journal.pone.0170940 skeletal tissue bone ENA PRJEB18722 ERS1485733
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown NA NA United Kingdom V8_P Homo sapiens 1000 10.1371/journal.pone.0170940 skeletal tissue bone ENA PRJEB18722 ERS1485735
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown NA NA United Kingdom V8_T Homo sapiens 1000 10.1371/journal.pone.0170940 skeletal tissue tooth ENA PRJEB18722 ERS1485736
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown NA NA Denmark H1_S Homo sapiens 200 10.1371/journal.pone.0170940 skeletal tissue bone ENA PRJEB18722 ERS1485692
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown NA NA Denmark H2_S Homo sapiens 200 10.1371/journal.pone.0170940 skeletal tissue bone ENA PRJEB18722 ERS1485695
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown NA NA Denmark H3_P Homo sapiens 200 10.1371/journal.pone.0170940 skeletal tissue bone ENA PRJEB18722 ERS1485697
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown NA NA Denmark H3_T Homo sapiens 200 10.1371/journal.pone.0170940 skeletal tissue tooth ENA PRJEB18722 ERS1485699
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown NA NA Denmark H4_S Homo sapiens 200 10.1371/journal.pone.0170940 skeletal tissue bone ENA PRJEB18722 ERS1485701
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown NA NA Denmark H4_T Homo sapiens 200 10.1371/journal.pone.0170940 skeletal tissue tooth ENA PRJEB18722 ERS1485702
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown NA NA Denmark H5_P Homo sapiens 200 10.1371/journal.pone.0170940 skeletal tissue bone ENA PRJEB18722 ERS1485703
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown NA NA Denmark H6_P Homo sapiens 200 10.1371/journal.pone.0170940 skeletal tissue bone ENA PRJEB18722 ERS1485706
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown NA NA Denmark H6_S Homo sapiens 200 10.1371/journal.pone.0170940 skeletal tissue bone ENA PRJEB18722 ERS1485707
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown NA NA Denmark H7_S Homo sapiens 200 10.1371/journal.pone.0170940 skeletal tissue bone ENA PRJEB18722 ERS1485710
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown NA NA Denmark H7_T Homo sapiens 200 10.1371/journal.pone.0170940 skeletal tissue tooth ENA PRJEB18722 ERS1485711
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown NA NA Denmark H8_S Homo sapiens 200 10.1371/journal.pone.0170940 skeletal tissue bone ENA PRJEB18722 ERS1485713
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown NA NA Denmark H9_T Homo sapiens 200 10.1371/journal.pone.0170940 skeletal tissue tooth ENA PRJEB18722 ERS1485716
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown NA NA United Kingdom V10_P Homo sapiens 1000 10.1371/journal.pone.0170940 skeletal tissue bone ENA PRJEB18722 ERS1485717
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown NA NA United Kingdom V11_T Homo sapiens 1000 10.1371/journal.pone.0170940 skeletal tissue tooth ENA PRJEB18722 ERS1485720
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown NA NA United Kingdom V3_P Homo sapiens 1000 10.1371/journal.pone.0170940 skeletal tissue bone ENA PRJEB18722 ERS1485725
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown NA NA United Kingdom V5_T Homo sapiens 1000 10.1371/journal.pone.0170940 skeletal tissue tooth ENA PRJEB18722 ERS1485730
Bozzi2024 2024 10.1038/s41598-023-40246-x Unknown NA NA United Kingdom V9_P Homo sapiens 1000 10.1371/journal.pone.0170940 skeletal tissue bone ENA PRJEB18722 ERS1485737
Loading

0 comments on commit 2fb4c53

Please sign in to comment.