Skip to content

Commit

Permalink
add Caccuri22, 10.1093/ve/veac042, resolve #816 (#841)
Browse files Browse the repository at this point in the history 
* add Caccuri22, 10.1093/ve/veac042, resolve #816

* fix caccuri22

* Autogenerated data updated by HIVDB Bot

---------

Co-authored-by: HIVDB Bot <[email protected]>
  • Loading branch information
@KaimingTao @hivdb-bot
KaimingTao and hivdb-bot authored Mar 28, 2023
1 parent fd13da7 commit 1d9a92b
Show file tree
Hide file tree
Showing 6 changed files with 133 additions and 4 deletions.
9 changes: 5 additions & 4 deletions tables/articles.csv
View file
Original file line number Diff line number Diff line change
Expand Up @@ -742,12 +742,13 @@ Filardi23,10.1126/scitranslmed.ade6023,NULL,"Filardi, B",2023,2023-03-13,NULL
Tauzin23,10.3390/vaccines11020242,NULL,"Tauzin, A",2023,2023-03-13,NULL
Chen23b,10.1021/acscentsci.3c00054,NULL,"Chen, SA",2023,2023-03-27,NULL
Kawashima23,10.1016/j.bbrc.2023.01.040,NULL,"Kawashima, S",2023,2023-03-27,NULL
Unoh22,10.1021/acs.jmedchem.2c00117,NULL,"Unoh, Y",2023,2023-03-27,NULL
Unoh22,10.1021/acs.jmedchem.2c00117,NULL,"Unoh, Y",2022,2023-03-27,NULL
Moghadasi23,10.1101/2023.02.25.530000,NULL,"Moghadasi, SA",2023,2023-03-28,NULL
Greasley22,10.1016/j.jbc.2022.101972,NULL,"Greasley, SE",2023,2023-03-28,NULL
Greasley22,10.1016/j.jbc.2022.101972,NULL,"Greasley, SE",2022,2023-03-28,NULL
Lan23,10.1101/2022.12.31.522389,NULL,"Lan, S",2023,2023-03-28,NULL
Rosales22,10.1101/2022.01.17.476685,NULL,"Rosales, R",2023,2023-03-28,NULL
Rosales22,10.1101/2022.01.17.476685,NULL,"Rosales, R",2022,2023-03-28,NULL
Tong23,NULL,https://www.croiconference.org/abstract/mechanism-and-resistance-studies-of-sars-cov-2-mpro-inhibitor-pomotrelvir-pbi-0451/,"Tong, X",2023,2023-03-28,NULL
Rodriguez23,NULL,https://www.croiconference.org/abstract/remdesivir-resistance-analyses-from-the-pinetree-study-in-outpatients-with-covid-19/,"Rodriguez, L",2023,2023-03-28,NULL
Rodriguez23b,NULL,https://www.croiconference.org/abstract/remdesivir-retains-potent-activity-against-sars-cov-2-variants-of-concern/,"Rodriguez, L",2023,2023-03-28,NULL
Dioverti22,10.1093/ofid/ofac064,NULL,"Dioverti, MV",2023,2023-03-28,NULL
Dioverti22,10.1093/ofid/ofac064,NULL,"Dioverti, MV",2022,2023-03-28,NULL
Caccuri22,10.1093/ve/veac042,NULL,"Caccuri, F",2022,2023-03-28,NULL
99 changes: 99 additions & 0 deletions tables/isolate_mutations.d/caccuri22-isomuts.csv
View file
Original file line number Diff line number Diff line change
@@ -0,0 +1,99 @@
iso_name,gene,position,amino_acid,count,total
hCoV-19/Italy/LOM-UNIBS-MB61-Day0/2020,RdRP,323,L,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day0/2020,S,614,G,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day0/2020,N,203,K,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day0/2020,N,204,R,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day7/2020,RdRP,323,L,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day7/2020,S,144,del,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day7/2020,S,614,G,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day7/2020,N,203,K,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day7/2020,N,204,R,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day20/2020,RdRP,323,L,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day20/2020,S,614,G,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day20/2020,N,203,K,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day20/2020,N,204,R,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day26/2020,PLpro,821,N,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day26/2020,RdRP,323,L,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day26/2020,nsp16,116,V,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day26/2020,S,242,del,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day26/2020,S,493,K,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day26/2020,S,614,G,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day26/2020,N,203,K,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day26/2020,N,204,R,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day34/2020,PLpro,821,N,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day34/2020,RdRP,323,L,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day34/2020,nsp16,116,V,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day34/2020,S,242,del,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day34/2020,S,493,K,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day34/2020,S,614,G,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day34/2020,N,203,K,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day34/2020,N,204,R,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day41/2020,PLpro,821,N,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day41/2020,RdRP,323,L,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day41/2020,nsp16,116,V,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day41/2020,S,242,del,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day41/2020,S,493,K,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day41/2020,S,614,G,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day41/2020,N,203,K,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day41/2020,N,204,R,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day48/2020,PLpro,821,N,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day48/2020,RdRP,323,L,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day48/2020,nsp16,116,V,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day48/2020,S,242,del,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day48/2020,S,493,K,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day48/2020,S,614,G,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day48/2020,N,203,K,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day48/2020,N,204,R,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day116/2020,PLpro,821,N,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day116/2020,RdRP,323,L,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day116/2020,nsp16,116,V,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day116/2020,S,182,N,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day116/2020,S,242,del,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day116/2020,S,493,K,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day116/2020,S,501,T,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day116/2020,S,614,G,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day116/2020,N,203,K,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day116/2020,N,204,R,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day125/2020,PLpro,821,N,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day125/2020,RdRP,323,L,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day125/2020,nsp16,116,V,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day125/2020,S,182,N,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day125/2020,S,242,del,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day125/2020,S,493,K,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day125/2020,S,501,T,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day125/2020,S,614,G,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day125/2020,N,203,K,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day125/2020,N,204,R,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day146/2020,PLpro,821,N,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day146/2020,RdRP,323,L,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day146/2020,nsp16,116,V,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day146/2020,S,182,N,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day146/2020,S,242,del,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day146/2020,S,493,K,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day146/2020,S,501,T,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day146/2020,S,614,G,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day146/2020,N,203,K,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day146/2020,N,204,R,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day158/2020,PLpro,821,N,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day158/2020,RdRP,323,L,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day158/2020,nsp16,116,V,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day158/2020,S,182,N,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day158/2020,S,242,del,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day158/2020,S,493,K,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day158/2020,S,501,T,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day158/2020,S,614,G,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day158/2020,N,203,K,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day158/2020,N,204,R,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day222/2020,PLpro,821,N,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day222/2020,RdRP,323,L,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day222/2020,nsp13,337,C,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day222/2020,nsp14,282,I,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day222/2020,nsp16,116,V,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day222/2020,S,182,N,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day222/2020,S,242,del,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day222/2020,S,493,K,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day222/2020,S,501,T,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day222/2020,S,614,G,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day222/2020,ORF3a,108,F,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day222/2020,N,203,K,NULL,NULL
hCoV-19/Italy/LOM-UNIBS-MB61-Day222/2020,N,204,R,NULL,NULL
13 changes: 13 additions & 0 deletions tables/isolates.d/caccuri22-iso.csv
View file
Original file line number Diff line number Diff line change
@@ -0,0 +1,13 @@
iso_name,var_name,site_directed,gisaid_id,genbank_accn,sra_accn,expandable
hCoV-19/Italy/LOM-UNIBS-MB61-Day0/2020,B.1.1,FALSE,2484209,NULL,NULL,TRUE
hCoV-19/Italy/LOM-UNIBS-MB61-Day7/2020,B.1.1,FALSE,2484210,NULL,NULL,TRUE
hCoV-19/Italy/LOM-UNIBS-MB61-Day20/2020,B.1.1,FALSE,2484211,NULL,NULL,TRUE
hCoV-19/Italy/LOM-UNIBS-MB61-Day26/2020,B.1.1,FALSE,2484212,NULL,NULL,TRUE
hCoV-19/Italy/LOM-UNIBS-MB61-Day34/2020,B.1.1,FALSE,2484213,NULL,NULL,TRUE
hCoV-19/Italy/LOM-UNIBS-MB61-Day41/2020,B.1.1,FALSE,2484214,NULL,NULL,TRUE
hCoV-19/Italy/LOM-UNIBS-MB61-Day48/2020,B.1.1,FALSE,2484215,NULL,NULL,TRUE
hCoV-19/Italy/LOM-UNIBS-MB61-Day116/2020,B.1.1,FALSE,2484216,NULL,NULL,TRUE
hCoV-19/Italy/LOM-UNIBS-MB61-Day125/2020,B.1.1,FALSE,2476401,NULL,NULL,TRUE
hCoV-19/Italy/LOM-UNIBS-MB61-Day146/2020,B.1.1,FALSE,2484217,NULL,NULL,TRUE
hCoV-19/Italy/LOM-UNIBS-MB61-Day158/2020,B.1.1,FALSE,2484218,NULL,NULL,TRUE
hCoV-19/Italy/LOM-UNIBS-MB61-Day222/2020,B.1.1,FALSE,2484219,NULL,NULL,TRUE
2 changes: 2 additions & 0 deletions tables/subject_infections/caccuri22-inf.csv
View file
Original file line number Diff line number Diff line change
@@ -0,0 +1,2 @@
ref_name,subject_name,infection_date_cmp,infection_date,infected_var_name,location,immune_status,severity,section
Caccuri22,Pt,<,2020-04-02,B,Italy,Primary,Severe,Results
13 changes: 13 additions & 0 deletions tables/subject_isolates/caccuri22-sbjiso.csv
View file
Original file line number Diff line number Diff line change
@@ -0,0 +1,13 @@
ref_name,subject_name,collection_date_cmp,collection_date,iso_name,iso_source,iso_culture,location,section
Caccuri22,Pt,=,2020-04-02,hCoV-19/Italy/LOM-UNIBS-MB61-Day0/2020,NP,FALSE,Italy,NULL
Caccuri22,Pt,=,2020-04-10,hCoV-19/Italy/LOM-UNIBS-MB61-Day7/2020,NP,FALSE,Italy,NULL
Caccuri22,Pt,=,2020-04-22,hCoV-19/Italy/LOM-UNIBS-MB61-Day20/2020,NP,FALSE,Italy,NULL
Caccuri22,Pt,=,2020-04-28,hCoV-19/Italy/LOM-UNIBS-MB61-Day26/2020,NP,FALSE,Italy,NULL
Caccuri22,Pt,=,2020-05-06,hCoV-19/Italy/LOM-UNIBS-MB61-Day34/2020,NP,FALSE,Italy,NULL
Caccuri22,Pt,=,2020-05-13,hCoV-19/Italy/LOM-UNIBS-MB61-Day41/2020,NP,FALSE,Italy,NULL
Caccuri22,Pt,=,2020-05-20,hCoV-19/Italy/LOM-UNIBS-MB61-Day48/2020,NP,FALSE,Italy,NULL
Caccuri22,Pt,=,2020-07-27,hCoV-19/Italy/LOM-UNIBS-MB61-Day116/2020,NP,FALSE,Italy,NULL
Caccuri22,Pt,=,2020-08-05,hCoV-19/Italy/LOM-UNIBS-MB61-Day125/2020,NP,FALSE,Italy,NULL
Caccuri22,Pt,=,2020-08-26,hCoV-19/Italy/LOM-UNIBS-MB61-Day146/2020,NP,FALSE,Italy,NULL
Caccuri22,Pt,=,2020-09-07,hCoV-19/Italy/LOM-UNIBS-MB61-Day158/2020,NP,FALSE,Italy,NULL
Caccuri22,Pt,=,2020-11-10,hCoV-19/Italy/LOM-UNIBS-MB61-Day222/2020,NP,FALSE,Italy,NULL
1 change: 1 addition & 0 deletions tables/subjects.csv
View file
Original file line number Diff line number Diff line change
Expand Up @@ -490,6 +490,7 @@ Brown21,BNT162b2_infected,Human,NULL,10
Brown21,CP,Human,NULL,13
Brown21,CP_B.1.1.7,Human,NULL,11
Cabañero-Navalon22,Patient,Human,1998,1
Caccuri22,Pt,Human,NULL,1
Cameroni21,AZD1222,Human,1983,12
Cameroni21,Ad26.COV2.S,Human,1988,12
Cameroni21,BBIBP-CorV,Human,1991,13
Expand Down

0 comments on commit 1d9a92b

Please sign in to comment.