diff --git a/tables/articles.csv b/tables/articles.csv index a34f7d5ac..7fafead08 100644 --- a/tables/articles.csv +++ b/tables/articles.csv @@ -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 \ No newline at end of file +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 diff --git a/tables/isolate_mutations.d/caccuri22-isomuts.csv b/tables/isolate_mutations.d/caccuri22-isomuts.csv new file mode 100644 index 000000000..e5d41048d --- /dev/null +++ b/tables/isolate_mutations.d/caccuri22-isomuts.csv @@ -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 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+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 diff --git a/tables/isolates.d/caccuri22-iso.csv b/tables/isolates.d/caccuri22-iso.csv new file mode 100644 index 000000000..5b4b2c742 --- /dev/null +++ b/tables/isolates.d/caccuri22-iso.csv @@ -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 diff --git a/tables/subject_infections/caccuri22-inf.csv b/tables/subject_infections/caccuri22-inf.csv new file mode 100644 index 000000000..b5f6feff2 --- /dev/null +++ b/tables/subject_infections/caccuri22-inf.csv @@ -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 diff --git a/tables/subject_isolates/caccuri22-sbjiso.csv b/tables/subject_isolates/caccuri22-sbjiso.csv new file mode 100644 index 000000000..005bde905 --- /dev/null +++ b/tables/subject_isolates/caccuri22-sbjiso.csv @@ -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 diff --git a/tables/subjects.csv b/tables/subjects.csv index 1ecc19627..331a3e27a 100644 --- a/tables/subjects.csv +++ b/tables/subjects.csv @@ -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