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KaimingTaohivdb-bot
KaimingTao
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hivdb-bot
authored
add Sutandhio23, resolve #924 (#1016)
* add Sutandhio23, resolve #924 * Fix Sutandhio23 * Fix Sutandhio23 * Fix Sutandhio23 * Fix Sutandhio23 * Autogenerated data updated by HIVDB Bot --------- Co-authored-by: HIVDB Bot <[email protected]>
1 parent dfcbf22 commit 3b83651

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‎tables/articles.csv‎

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@@ -807,3 +807,4 @@ Song23,10.1101/2023.04.26.538488,NULL,"Song, G",2023,2023-12-12,NULL
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Ito23,10.1038/s41467-023-38188-z,NULL,"Ito, J",2023,2023-12-13,NULL
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Faraone23b,10.1016/j.xcrm.2023.101049,NULL,"Faraone, JN",2023,2023-12-13,NULL
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Branche23b,10.1038/s41591-023-02503-4,NULL,"Branche, AR",2023,2023-12-14,NULL
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Sutandhio23,10.1016/j.jiph.2023.05.004,NULL,"Sutandhio, S",2023,2023-12-15,NULL

‎tables/isolate_mutations.d/sutandhio23-isomuts.csv‎

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iso_name,gene,position,amino_acid,count,total
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hCoV-19/Japan/TY41-795-P1/2022,nsp1,47,R,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,nsp1,135,R,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,PLpro,24,I,NULL,NULL
5+
hCoV-19/Japan/TY41-795-P1/2022,PLpro,489,S,NULL,NULL
6+
hCoV-19/Japan/TY41-795-P1/2022,nsp4,264,F,NULL,NULL
7+
hCoV-19/Japan/TY41-795-P1/2022,nsp4,327,I,NULL,NULL
8+
hCoV-19/Japan/TY41-795-P1/2022,nsp4,438,F,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,nsp4,492,I,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,_3CLpro,132,H,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,nsp6,106,del,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,nsp6,107,del,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,nsp6,108,del,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,nsp6,161,A,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,nsp6,161,V,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,RdRP,323,L,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,RdRP,668,I,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,RdRP,671,S,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,nsp13,36,P,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,nsp13,392,C,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,nsp14,42,V,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,nsp15,112,I,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,S,19,I,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,S,24,S,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,S,25,del,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,S,26,del,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,S,27,del,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,S,83,A,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,S,142,D,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,S,144,del,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,S,146,Q,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,S,183,E,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,S,213,E,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,S,252,V,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,S,339,H,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,S,346,T,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,S,368,I,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,S,371,F,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,S,373,P,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,S,375,F,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,S,376,A,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,S,405,N,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,S,408,S,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,S,417,N,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,S,440,K,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,S,445,P,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,S,446,S,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,S,460,K,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,S,477,N,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,S,478,K,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,S,484,A,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,S,486,S,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,S,490,S,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,S,498,R,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,S,501,Y,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,S,505,H,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,S,614,G,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,S,655,Y,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,S,679,K,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,S,681,H,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,S,764,K,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,S,796,Y,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,S,954,H,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,S,969,K,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,ORF3a,223,I,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,E,9,I,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,E,11,A,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,M,19,E,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,M,63,T,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,ORF6,61,L,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,N,13,L,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,N,31,del,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,N,32,del,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,N,33,del,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,N,203,K,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,N,204,R,NULL,NULL
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hCoV-19/Japan/TY41-795-P1/2022,N,413,R,NULL,NULL

‎tables/isolates.d/sutandhio23-iso.csv‎

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iso_name,var_name,site_directed,gisaid_id,genbank_accn,sra_accn,expandable
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hCoV-19/Japan/TY41-795-P1/2022,Omicron/XBB.1,FALSE,15669344,NULL,NULL,TRUE

‎tables/ref_isolate_pairs/sutandhio23-pair.csv‎

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ref_name,control_iso_name,iso_name
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Sutandhio23,B.1 full genome,hCoV-19/Japan/TY11-927-P1/2021
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Sutandhio23,B.1 full genome,hCoV-19/Japan/TY40-385-P1/2022
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Sutandhio23,B.1 full genome,hCoV-19/Japan/TY41-702-P1/2022
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Sutandhio23,B.1 full genome,hCoV-19/Japan/TY41-716-P1/2022
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Sutandhio23,B.1 full genome,hCoV-19/Japan/TY41-796-P1/2022
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Sutandhio23,B.1 full genome,hCoV-19/Japan/TY41-795-P1/2022

‎tables/rx_potency/sutandhio23-pot.csv‎

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ref_name,rx_name,iso_name,section,assay_name,potency_type,potency,cumulative_count,potency_upper_limit,potency_lower_limit,potency_unit,date_added
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Sutandhio23,VP_3dose_under_90,B.1 full genome,Figure 3B,Virus isolate,NT50,33.3,20,2048,2,NULL,2023-12-15
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Sutandhio23,VP_4dose_under_90,B.1 full genome,Figure 3B,Virus isolate,NT50,83.8,18,2048,2,NULL,2023-12-15
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Sutandhio23,VP_3dose_under_90,hCoV-19/Japan/TY11-927-P1/2021,Figure 3B,Virus isolate,NT50,21.8,20,2048,2,NULL,2023-12-15
5+
Sutandhio23,VP_4dose_under_90,hCoV-19/Japan/TY11-927-P1/2021,Figure 3B,Virus isolate,NT50,33.3,18,2048,2,NULL,2023-12-15
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Sutandhio23,VP_3dose_under_90,hCoV-19/Japan/TY40-385-P1/2022,Figure 3B,Virus isolate,NT50,9.3,20,2048,2,NULL,2023-12-15
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Sutandhio23,VP_4dose_under_90,hCoV-19/Japan/TY40-385-P1/2022,Figure 3B,Virus isolate,NT50,34.6,18,2048,2,NULL,2023-12-15
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Sutandhio23,VP_3dose_under_90,hCoV-19/Japan/TY41-702-P1/2022,Figure 3B,Virus isolate,NT50,3.3,20,2048,2,NULL,2023-12-15
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Sutandhio23,VP_4dose_under_90,hCoV-19/Japan/TY41-702-P1/2022,Figure 3B,Virus isolate,NT50,7.4,18,2048,2,NULL,2023-12-15
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Sutandhio23,VP_3dose_under_90,hCoV-19/Japan/TY41-716-P1/2022,Figure 3B,Virus isolate,NT50,4.0,20,2048,2,NULL,2023-12-15
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Sutandhio23,VP_4dose_under_90,hCoV-19/Japan/TY41-716-P1/2022,Figure 3B,Virus isolate,NT50,11.8,18,2048,2,NULL,2023-12-15
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Sutandhio23,VP_3dose_under_90,hCoV-19/Japan/TY41-796-P1/2022,Figure 3B,Virus isolate,NT50,1.2,20,2048,2,NULL,2023-12-15
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Sutandhio23,VP_4dose_under_90,hCoV-19/Japan/TY41-796-P1/2022,Figure 3B,Virus isolate,NT50,2.0,18,2048,2,NULL,2023-12-15
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Sutandhio23,VP_3dose_under_90,hCoV-19/Japan/TY41-795-P1/2022,Figure 3B,Virus isolate,NT50,1.3,20,2048,2,NULL,2023-12-15
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Sutandhio23,VP_4dose_under_90,hCoV-19/Japan/TY41-795-P1/2022,Figure 3B,Virus isolate,NT50,2.6,18,2048,2,NULL,2023-12-15
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Sutandhio23,VP_3dose_above_90,B.1 full genome,Figure 3D,Virus isolate,NT50,46.2,47,2048,2,NULL,2023-12-15
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Sutandhio23,VP_4dose_above_90,B.1 full genome,Figure 3D,Virus isolate,NT50,125.9,30,2048,2,NULL,2023-12-15
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Sutandhio23,VP_3dose_above_90,hCoV-19/Japan/TY11-927-P1/2021,Figure 3D,Virus isolate,NT50,24.2,47,2048,2,NULL,2023-12-15
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Sutandhio23,VP_4dose_above_90,hCoV-19/Japan/TY11-927-P1/2021,Figure 3D,Virus isolate,NT50,55.0,30,2048,2,NULL,2023-12-15
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Sutandhio23,VP_3dose_above_90,hCoV-19/Japan/TY40-385-P1/2022,Figure 3D,Virus isolate,NT50,11.0,47,2048,2,NULL,2023-12-15
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Sutandhio23,VP_4dose_above_90,hCoV-19/Japan/TY40-385-P1/2022,Figure 3D,Virus isolate,NT50,46.2,30,2048,2,NULL,2023-12-15
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Sutandhio23,VP_3dose_above_90,hCoV-19/Japan/TY41-702-P1/2022,Figure 3D,Virus isolate,NT50,3.2,47,2048,2,NULL,2023-12-15
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Sutandhio23,VP_4dose_above_90,hCoV-19/Japan/TY41-702-P1/2022,Figure 3D,Virus isolate,NT50,13.7,30,2048,2,NULL,2023-12-15
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Sutandhio23,VP_3dose_above_90,hCoV-19/Japan/TY41-716-P1/2022,Figure 3D,Virus isolate,NT50,4.6,47,2048,2,NULL,2023-12-15
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Sutandhio23,VP_4dose_above_90,hCoV-19/Japan/TY41-716-P1/2022,Figure 3D,Virus isolate,NT50,12.0,30,2048,2,NULL,2023-12-15
26+
Sutandhio23,VP_3dose_above_90,hCoV-19/Japan/TY41-796-P1/2022,Figure 3D,Virus isolate,NT50,1.0,47,2048,2,NULL,2023-12-15
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Sutandhio23,VP_4dose_above_90,hCoV-19/Japan/TY41-796-P1/2022,Figure 3D,Virus isolate,NT50,2.0,30,2048,2,NULL,2023-12-15
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Sutandhio23,VP_3dose_above_90,hCoV-19/Japan/TY41-795-P1/2022,Figure 3D,Virus isolate,NT50,1.4,47,2048,2,NULL,2023-12-15
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Sutandhio23,VP_4dose_above_90,hCoV-19/Japan/TY41-795-P1/2022,Figure 3D,Virus isolate,NT50,2.9,30,2048,2,NULL,2023-12-15
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Sutandhio23,Inf_3dose,B.1 full genome,Figure 5B,Virus isolate,NT50,270.5,5,2048,2,NULL,2023-12-15
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Sutandhio23,Inf_3dose,hCoV-19/Japan/TY11-927-P1/2021,Figure 5B,Virus isolate,NT50,139.6,5,2048,2,NULL,2023-12-15
32+
Sutandhio23,Inf_3dose,hCoV-19/Japan/TY40-385-P1/2022,Figure 5B,Virus isolate,NT50,39.2,5,2048,2,NULL,2023-12-15
33+
Sutandhio23,Inf_3dose,hCoV-19/Japan/TY41-702-P1/2022,Figure 5B,Virus isolate,NT50,8.4,5,2048,2,NULL,2023-12-15
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Sutandhio23,Inf_3dose,hCoV-19/Japan/TY41-716-P1/2022,Figure 5B,Virus isolate,NT50,25.4,5,2048,2,NULL,2023-12-15
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Sutandhio23,Inf_3dose,hCoV-19/Japan/TY41-796-P1/2022,Figure 5B,Virus isolate,NT50,2.0,5,2048,2,NULL,2023-12-15
36+
Sutandhio23,Inf_3dose,hCoV-19/Japan/TY41-795-P1/2022,Figure 5B,Virus isolate,NT50,6.8,5,2048,2,NULL,2023-12-15
37+
Sutandhio23,Inf_4dose,B.1 full genome,Figure 5D,Virus isolate,NT50,183.3,6,2048,2,NULL,2023-12-15
38+
Sutandhio23,Inf_4dose,hCoV-19/Japan/TY11-927-P1/2021,Figure 5D,Virus isolate,NT50,114.4,6,2048,2,NULL,2023-12-15
39+
Sutandhio23,Inf_4dose,hCoV-19/Japan/TY40-385-P1/2022,Figure 5D,Virus isolate,NT50,45.5,6,2048,2,NULL,2023-12-15
40+
Sutandhio23,Inf_4dose,hCoV-19/Japan/TY41-702-P1/2022,Figure 5D,Virus isolate,NT50,20.3,6,2048,2,NULL,2023-12-15
41+
Sutandhio23,Inf_4dose,hCoV-19/Japan/TY41-716-P1/2022,Figure 5D,Virus isolate,NT50,34.1,6,2048,2,NULL,2023-12-15
42+
Sutandhio23,Inf_4dose,hCoV-19/Japan/TY41-796-P1/2022,Figure 5D,Virus isolate,NT50,6.1,6,2048,2,NULL,2023-12-15
43+
Sutandhio23,Inf_4dose,hCoV-19/Japan/TY41-795-P1/2022,Figure 5D,Virus isolate,NT50,10.2,6,2048,2,NULL,2023-12-15

‎tables/subject_infections/sutandhio23-inf.csv‎

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ref_name,subject_name,infection_date_cmp,infection_date,infected_var_name,location,immune_status,severity,section
2+
Sutandhio23,Inf_3dose,<,2022-02-01,Unknown variant,Japan,NULL,NULL,NULL
3+
Sutandhio23,Inf_4dose,<,2022-02-01,Unknown variant,Japan,NULL,NULL,NULL

‎tables/subject_plasma/sutandhio23-plasma.csv‎

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ref_name,subject_name,rx_name,collection_date_cmp,collection_date,location,cumulative_group,section
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Sutandhio23,VP_3dose_under_90,VP_3dose_under_90,~,2022-05-20,Japan,VP_3dose_under_90,Text
3+
Sutandhio23,VP_4dose_under_90,VP_4dose_under_90,~,2022-10-06,Japan,VP_4dose_under_90,Text
4+
Sutandhio23,VP_3dose_above_90,VP_3dose_above_90,~,2022-05-20,Japan,VP_3dose_above_90,Text
5+
Sutandhio23,VP_4dose_above_90,VP_4dose_above_90,~,2022-10-06,Japan,VP_4dose_above_90,Text
6+
Sutandhio23,Inf_3dose,Inf_3dose,~,2022-05-20,Japan,Inf_3dose,Text
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Sutandhio23,Inf_4dose,Inf_4dose,~,2022-10-06,Japan,Inf_4dose,Text

‎tables/subject_vaccines/sutandhio23-vacc.csv‎

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ref_name,subject_name,vaccination_date_cmp,vaccination_date,vaccine_name,dosage,location,section
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Sutandhio23,VP_3dose_under_90,~,2022-02-06,BNT162b2,3,Japan,Text
3+
Sutandhio23,VP_4dose_under_90,~,2022-08-18,mRNA-1273,4,Japan,Text
4+
Sutandhio23,VP_3dose_above_90,~,2022-02-06,BNT162b2,3,Japan,Text
5+
Sutandhio23,VP_4dose_above_90,~,2022-08-18,mRNA-1273,4,Japan,Text
6+
Sutandhio23,Inf_3dose,~,2022-02-06,BNT162b2,3,Japan,Text
7+
Sutandhio23,Inf_4dose,~,2022-08-18,mRNA-1273,4,Japan,Text

‎tables/subjects.csv‎

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Suryawanshi22,VP_Boost,Human,1969,5
44134413
Suryawanshi22,VP_Delta,Human,1956,7
44144414
Suryawanshi22,VP_Omicron,Human,1976,8
4415+
Sutandhio23,Inf_3dose,Human,NULL,1
4416+
Sutandhio23,Inf_4dose,Human,NULL,1
4417+
Sutandhio23,VP_3dose_above_90,Human,NULL,1
4418+
Sutandhio23,VP_3dose_under_90,Human,NULL,1
4419+
Sutandhio23,VP_4dose_above_90,Human,NULL,1
4420+
Sutandhio23,VP_4dose_under_90,Human,NULL,1
44154421
Suthar21,BNT,Human,NULL,56
44164422
Syed21,Ad26.COV2.S,Human,NULL,9
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Syed21,BNT162b2,Human,NULL,11

‎tables/treatments.csv‎

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@@ -28638,6 +28638,12 @@ Suryawanshi22,CP_Delta
2863828638
Suryawanshi22,VP_Omicron
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Suryawanshi22,VP_Delta
2864028640
Suryawanshi22,VP_Boost
28641+
Sutandhio23,VP_3dose_under_90
28642+
Sutandhio23,VP_4dose_under_90
28643+
Sutandhio23,VP_3dose_above_90
28644+
Sutandhio23,VP_4dose_above_90
28645+
Sutandhio23,Inf_3dose
28646+
Sutandhio23,Inf_4dose
2864128647
Suthar21,BNT162b2_d42_0
2864228648
Suthar21,BNT162b2_d42_1
2864328649
Suthar21,BNT162b2_d42_10

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