From a4e6b91f54430ba867b5d23a9cef92afd219a7c8 Mon Sep 17 00:00:00 2001 From: Kaiming Tao Date: Thu, 15 Aug 2024 16:01:10 -0700 Subject: [PATCH] add Wang24 (#1051) * add Wang24 * update variant consensus * fix isolate mutations * fix Wang24 * Autogenerated data updated by HIVDB Bot --------- Co-authored-by: HIVDB Bot --- tables/articles.csv | 1 + tables/isolate_mutations.csv | 309 +++++++++++++++++ tables/isolates.csv | 5 + tables/ref_isolate_pairs/wang24-pair.csv | 7 + tables/rx_antibodies/wang24-mab.csv | 2 + tables/rx_potency/wang24-pot.csv | 8 + tables/treatments.csv | 1 + tables/variant_consensus.csv | 415 +++++++++++++++++++++++ tables/variants.csv | 6 +- 9 files changed, 753 insertions(+), 1 deletion(-) create mode 100644 tables/ref_isolate_pairs/wang24-pair.csv create mode 100644 tables/rx_antibodies/wang24-mab.csv create mode 100644 tables/rx_potency/wang24-pot.csv diff --git a/tables/articles.csv b/tables/articles.csv index 5700374a..4c98e401 100644 --- a/tables/articles.csv +++ b/tables/articles.csv @@ -814,3 +814,4 @@ Yang23c,10.1016/S1473-3099(23)00573-X,NULL,"Yang, S",2023,2024-01-26,NULL Jian23,10.1371/journal.ppat.1011868,NULL,"Yang, S",2023,2024-01-26,NULL Qu23b,10.1016/j.cell.2023.12.026,NULL,"Yang, S",2023,2024-01-26,NULL FDA24,,https://www.fda.gov/media/177067/download,FDA,2024,2024-03-01,NULL +Wang24,10.1101/2024.08.12.607496,NULL,"Wang, Q",2024,2024-08-15,NULL diff --git a/tables/isolate_mutations.csv b/tables/isolate_mutations.csv index ac9d0efb..01b8f8f2 100644 --- a/tables/isolate_mutations.csv +++ b/tables/isolate_mutations.csv @@ -26090,3 +26090,312 @@ JN.1.11.1 Spike,S,954,H,NULL,NULL JN.1.11.1 Spike,S,969,K,NULL,NULL JN.1.11.1 Spike,S,1104,L,NULL,NULL JN.1.11.1 Spike,S,1143,L,NULL,NULL +KP.2 Spike,S,19,I,NULL,NULL +KP.2 Spike,S,21,T,NULL,NULL +KP.2 Spike,S,50,L,NULL,NULL +KP.2 Spike,S,69,del,NULL,NULL +KP.2 Spike,S,70,del,NULL,NULL +KP.2 Spike,S,127,F,NULL,NULL +KP.2 Spike,S,142,D,NULL,NULL +KP.2 Spike,S,144,del,NULL,NULL +KP.2 Spike,S,157,S,NULL,NULL +KP.2 Spike,S,158,G,NULL,NULL +KP.2 Spike,S,211,I,NULL,NULL +KP.2 Spike,S,212,del,NULL,NULL +KP.2 Spike,S,213,G,NULL,NULL +KP.2 Spike,S,216,F,NULL,NULL +KP.2 Spike,S,245,N,NULL,NULL +KP.2 Spike,S,264,D,NULL,NULL +KP.2 Spike,S,332,V,NULL,NULL +KP.2 Spike,S,339,H,NULL,NULL +KP.2 Spike,S,346,T,NULL,NULL +KP.2 Spike,S,356,T,NULL,NULL +KP.2 Spike,S,371,F,NULL,NULL +KP.2 Spike,S,373,P,NULL,NULL +KP.2 Spike,S,375,F,NULL,NULL +KP.2 Spike,S,376,A,NULL,NULL +KP.2 Spike,S,403,K,NULL,NULL +KP.2 Spike,S,405,N,NULL,NULL +KP.2 Spike,S,408,S,NULL,NULL +KP.2 Spike,S,417,N,NULL,NULL +KP.2 Spike,S,440,K,NULL,NULL +KP.2 Spike,S,445,H,NULL,NULL +KP.2 Spike,S,446,S,NULL,NULL +KP.2 Spike,S,450,D,NULL,NULL +KP.2 Spike,S,452,W,NULL,NULL +KP.2 Spike,S,455,S,NULL,NULL +KP.2 Spike,S,456,L,NULL,NULL +KP.2 Spike,S,460,K,NULL,NULL +KP.2 Spike,S,477,N,NULL,NULL +KP.2 Spike,S,478,K,NULL,NULL +KP.2 Spike,S,481,K,NULL,NULL +KP.2 Spike,S,483,del,NULL,NULL +KP.2 Spike,S,484,K,NULL,NULL +KP.2 Spike,S,486,P,NULL,NULL +KP.2 Spike,S,498,R,NULL,NULL +KP.2 Spike,S,501,Y,NULL,NULL +KP.2 Spike,S,505,H,NULL,NULL +KP.2 Spike,S,554,K,NULL,NULL +KP.2 Spike,S,570,V,NULL,NULL +KP.2 Spike,S,614,G,NULL,NULL +KP.2 Spike,S,621,S,NULL,NULL +KP.2 Spike,S,655,Y,NULL,NULL +KP.2 Spike,S,679,K,NULL,NULL +KP.2 Spike,S,681,R,NULL,NULL +KP.2 Spike,S,764,K,NULL,NULL +KP.2 Spike,S,796,Y,NULL,NULL +KP.2 Spike,S,939,F,NULL,NULL +KP.2 Spike,S,954,H,NULL,NULL +KP.2 Spike,S,969,K,NULL,NULL +KP.2 Spike,S,1104,L,NULL,NULL +KP.2 Spike,S,1143,L,NULL,NULL +KP.3 Spike,S,19,I,NULL,NULL +KP.3 Spike,S,21,T,NULL,NULL +KP.3 Spike,S,24,S,NULL,NULL +KP.3 Spike,S,25,del,NULL,NULL +KP.3 Spike,S,26,del,NULL,NULL +KP.3 Spike,S,27,del,NULL,NULL +KP.3 Spike,S,50,L,NULL,NULL +KP.3 Spike,S,69,del,NULL,NULL +KP.3 Spike,S,70,del,NULL,NULL +KP.3 Spike,S,127,F,NULL,NULL +KP.3 Spike,S,142,D,NULL,NULL +KP.3 Spike,S,144,del,NULL,NULL +KP.3 Spike,S,157,S,NULL,NULL +KP.3 Spike,S,158,G,NULL,NULL +KP.3 Spike,S,211,I,NULL,NULL +KP.3 Spike,S,212,del,NULL,NULL +KP.3 Spike,S,213,G,NULL,NULL +KP.3 Spike,S,216,F,NULL,NULL +KP.3 Spike,S,245,N,NULL,NULL +KP.3 Spike,S,264,D,NULL,NULL +KP.3 Spike,S,332,V,NULL,NULL +KP.3 Spike,S,339,H,NULL,NULL +KP.3 Spike,S,356,T,NULL,NULL +KP.3 Spike,S,371,F,NULL,NULL +KP.3 Spike,S,373,P,NULL,NULL +KP.3 Spike,S,375,F,NULL,NULL +KP.3 Spike,S,376,A,NULL,NULL +KP.3 Spike,S,403,K,NULL,NULL +KP.3 Spike,S,405,N,NULL,NULL +KP.3 Spike,S,408,S,NULL,NULL +KP.3 Spike,S,417,N,NULL,NULL +KP.3 Spike,S,440,K,NULL,NULL +KP.3 Spike,S,445,H,NULL,NULL +KP.3 Spike,S,446,S,NULL,NULL +KP.3 Spike,S,450,D,NULL,NULL +KP.3 Spike,S,452,W,NULL,NULL +KP.3 Spike,S,455,S,NULL,NULL +KP.3 Spike,S,456,L,NULL,NULL +KP.3 Spike,S,460,K,NULL,NULL +KP.3 Spike,S,477,N,NULL,NULL +KP.3 Spike,S,478,K,NULL,NULL +KP.3 Spike,S,481,K,NULL,NULL +KP.3 Spike,S,483,del,NULL,NULL +KP.3 Spike,S,484,K,NULL,NULL +KP.3 Spike,S,486,P,NULL,NULL +KP.3 Spike,S,493,E,NULL,NULL +KP.3 Spike,S,498,R,NULL,NULL +KP.3 Spike,S,501,Y,NULL,NULL +KP.3 Spike,S,505,H,NULL,NULL +KP.3 Spike,S,554,K,NULL,NULL +KP.3 Spike,S,570,V,NULL,NULL +KP.3 Spike,S,614,G,NULL,NULL +KP.3 Spike,S,621,S,NULL,NULL +KP.3 Spike,S,655,Y,NULL,NULL +KP.3 Spike,S,679,K,NULL,NULL +KP.3 Spike,S,681,R,NULL,NULL +KP.3 Spike,S,764,K,NULL,NULL +KP.3 Spike,S,796,Y,NULL,NULL +KP.3 Spike,S,939,F,NULL,NULL +KP.3 Spike,S,954,H,NULL,NULL +KP.3 Spike,S,969,K,NULL,NULL +KP.3 Spike,S,1104,L,NULL,NULL +KP.3 Spike,S,1143,L,NULL,NULL +KP.2.3 Spike,S,19,I,NULL,NULL +KP.2.3 Spike,S,21,T,NULL,NULL +KP.2.3 Spike,S,31,del,NULL,NULL +KP.2.3 Spike,S,50,L,NULL,NULL +KP.2.3 Spike,S,69,del,NULL,NULL +KP.2.3 Spike,S,70,del,NULL,NULL +KP.2.3 Spike,S,127,F,NULL,NULL +KP.2.3 Spike,S,142,del,NULL,NULL +KP.2.3 Spike,S,144,del,NULL,NULL +KP.2.3 Spike,S,146,Q,NULL,NULL +KP.2.3 Spike,S,157,S,NULL,NULL +KP.2.3 Spike,S,158,G,NULL,NULL +KP.2.3 Spike,S,211,I,NULL,NULL +KP.2.3 Spike,S,212,del,NULL,NULL +KP.2.3 Spike,S,213,G,NULL,NULL +KP.2.3 Spike,S,216,F,NULL,NULL +KP.2.3 Spike,S,245,N,NULL,NULL +KP.2.3 Spike,S,264,del,NULL,NULL +KP.2.3 Spike,S,332,V,NULL,NULL +KP.2.3 Spike,S,339,H,NULL,NULL +KP.2.3 Spike,S,346,T,NULL,NULL +KP.2.3 Spike,S,356,T,NULL,NULL +KP.2.3 Spike,S,371,F,NULL,NULL +KP.2.3 Spike,S,373,P,NULL,NULL +KP.2.3 Spike,S,375,F,NULL,NULL +KP.2.3 Spike,S,376,A,NULL,NULL +KP.2.3 Spike,S,403,K,NULL,NULL +KP.2.3 Spike,S,405,N,NULL,NULL +KP.2.3 Spike,S,408,S,NULL,NULL +KP.2.3 Spike,S,417,N,NULL,NULL +KP.2.3 Spike,S,440,K,NULL,NULL +KP.2.3 Spike,S,445,H,NULL,NULL +KP.2.3 Spike,S,446,S,NULL,NULL +KP.2.3 Spike,S,450,del,NULL,NULL +KP.2.3 Spike,S,452,W,NULL,NULL +KP.2.3 Spike,S,455,S,NULL,NULL +KP.2.3 Spike,S,456,L,NULL,NULL +KP.2.3 Spike,S,460,K,NULL,NULL +KP.2.3 Spike,S,477,N,NULL,NULL +KP.2.3 Spike,S,478,K,NULL,NULL +KP.2.3 Spike,S,481,K,NULL,NULL +KP.2.3 Spike,S,486,P,NULL,NULL +KP.2.3 Spike,S,498,R,NULL,NULL +KP.2.3 Spike,S,501,Y,NULL,NULL +KP.2.3 Spike,S,505,H,NULL,NULL +KP.2.3 Spike,S,554,K,NULL,NULL +KP.2.3 Spike,S,570,V,NULL,NULL +KP.2.3 Spike,S,614,G,NULL,NULL +KP.2.3 Spike,S,621,S,NULL,NULL +KP.2.3 Spike,S,655,Y,NULL,NULL +KP.2.3 Spike,S,679,K,NULL,NULL +KP.2.3 Spike,S,681,R,NULL,NULL +KP.2.3 Spike,S,764,K,NULL,NULL +KP.2.3 Spike,S,796,Y,NULL,NULL +KP.2.3 Spike,S,939,F,NULL,NULL +KP.2.3 Spike,S,954,H,NULL,NULL +KP.2.3 Spike,S,969,K,NULL,NULL +KP.2.3 Spike,S,1104,L,NULL,NULL +KP.2.3 Spike,S,1143,L,NULL,NULL +KP.3.1.1 Spike,S,19,I,NULL,NULL +KP.3.1.1 Spike,S,21,T,NULL,NULL +KP.3.1.1 Spike,S,24,S,NULL,NULL +KP.3.1.1 Spike,S,25,del,NULL,NULL +KP.3.1.1 Spike,S,26,del,NULL,NULL +KP.3.1.1 Spike,S,27,del,NULL,NULL +KP.3.1.1 Spike,S,31,del,NULL,NULL +KP.3.1.1 Spike,S,50,L,NULL,NULL +KP.3.1.1 Spike,S,69,del,NULL,NULL +KP.3.1.1 Spike,S,70,del,NULL,NULL +KP.3.1.1 Spike,S,127,F,NULL,NULL +KP.3.1.1 Spike,S,142,del,NULL,NULL +KP.3.1.1 Spike,S,144,del,NULL,NULL +KP.3.1.1 Spike,S,157,S,NULL,NULL +KP.3.1.1 Spike,S,158,G,NULL,NULL +KP.3.1.1 Spike,S,211,I,NULL,NULL +KP.3.1.1 Spike,S,212,del,NULL,NULL +KP.3.1.1 Spike,S,213,G,NULL,NULL +KP.3.1.1 Spike,S,216,F,NULL,NULL +KP.3.1.1 Spike,S,245,N,NULL,NULL +KP.3.1.1 Spike,S,264,del,NULL,NULL +KP.3.1.1 Spike,S,332,V,NULL,NULL +KP.3.1.1 Spike,S,339,H,NULL,NULL +KP.3.1.1 Spike,S,356,T,NULL,NULL +KP.3.1.1 Spike,S,371,F,NULL,NULL +KP.3.1.1 Spike,S,373,P,NULL,NULL +KP.3.1.1 Spike,S,375,F,NULL,NULL +KP.3.1.1 Spike,S,376,A,NULL,NULL +KP.3.1.1 Spike,S,403,K,NULL,NULL +KP.3.1.1 Spike,S,405,N,NULL,NULL +KP.3.1.1 Spike,S,408,S,NULL,NULL +KP.3.1.1 Spike,S,417,N,NULL,NULL +KP.3.1.1 Spike,S,440,K,NULL,NULL +KP.3.1.1 Spike,S,445,H,NULL,NULL +KP.3.1.1 Spike,S,446,S,NULL,NULL +KP.3.1.1 Spike,S,450,del,NULL,NULL +KP.3.1.1 Spike,S,452,W,NULL,NULL +KP.3.1.1 Spike,S,455,S,NULL,NULL +KP.3.1.1 Spike,S,456,L,NULL,NULL +KP.3.1.1 Spike,S,460,K,NULL,NULL +KP.3.1.1 Spike,S,477,N,NULL,NULL +KP.3.1.1 Spike,S,478,K,NULL,NULL +KP.3.1.1 Spike,S,481,K,NULL,NULL +KP.3.1.1 Spike,S,483,del,NULL,NULL +KP.3.1.1 Spike,S,484,K,NULL,NULL +KP.3.1.1 Spike,S,486,P,NULL,NULL +KP.3.1.1 Spike,S,493,E,NULL,NULL +KP.3.1.1 Spike,S,498,R,NULL,NULL +KP.3.1.1 Spike,S,501,Y,NULL,NULL +KP.3.1.1 Spike,S,505,H,NULL,NULL +KP.3.1.1 Spike,S,554,K,NULL,NULL +KP.3.1.1 Spike,S,570,V,NULL,NULL +KP.3.1.1 Spike,S,614,G,NULL,NULL +KP.3.1.1 Spike,S,621,S,NULL,NULL +KP.3.1.1 Spike,S,655,Y,NULL,NULL +KP.3.1.1 Spike,S,679,K,NULL,NULL +KP.3.1.1 Spike,S,681,R,NULL,NULL +KP.3.1.1 Spike,S,764,K,NULL,NULL +KP.3.1.1 Spike,S,796,Y,NULL,NULL +KP.3.1.1 Spike,S,939,F,NULL,NULL +KP.3.1.1 Spike,S,954,H,NULL,NULL +KP.3.1.1 Spike,S,969,K,NULL,NULL +KP.3.1.1 Spike,S,1104,L,NULL,NULL +KP.3.1.1 Spike,S,1143,L,NULL,NULL +LB.1 Spike,S,19,I,NULL,NULL +LB.1 Spike,S,21,T,NULL,NULL +LB.1 Spike,S,24,S,NULL,NULL +LB.1 Spike,S,25,del,NULL,NULL +LB.1 Spike,S,26,del,NULL,NULL +LB.1 Spike,S,27,del,NULL,NULL +LB.1 Spike,S,31,del,NULL,NULL +LB.1 Spike,S,50,L,NULL,NULL +LB.1 Spike,S,69,del,NULL,NULL +LB.1 Spike,S,70,del,NULL,NULL +LB.1 Spike,S,127,F,NULL,NULL +LB.1 Spike,S,142,D,NULL,NULL +LB.1 Spike,S,144,del,NULL,NULL +LB.1 Spike,S,157,S,NULL,NULL +LB.1 Spike,S,158,G,NULL,NULL +LB.1 Spike,S,183,H,NULL,NULL +LB.1 Spike,S,211,I,NULL,NULL +LB.1 Spike,S,212,del,NULL,NULL +LB.1 Spike,S,213,G,NULL,NULL +LB.1 Spike,S,216,F,NULL,NULL +LB.1 Spike,S,245,N,NULL,NULL +LB.1 Spike,S,264,D,NULL,NULL +LB.1 Spike,S,332,V,NULL,NULL +LB.1 Spike,S,339,H,NULL,NULL +LB.1 Spike,S,346,T,NULL,NULL +LB.1 Spike,S,356,T,NULL,NULL +LB.1 Spike,S,371,F,NULL,NULL +LB.1 Spike,S,373,P,NULL,NULL +LB.1 Spike,S,375,F,NULL,NULL +LB.1 Spike,S,376,A,NULL,NULL +LB.1 Spike,S,403,K,NULL,NULL +LB.1 Spike,S,405,N,NULL,NULL +LB.1 Spike,S,408,S,NULL,NULL +LB.1 Spike,S,417,N,NULL,NULL +LB.1 Spike,S,440,K,NULL,NULL +LB.1 Spike,S,445,H,NULL,NULL +LB.1 Spike,S,446,S,NULL,NULL +LB.1 Spike,S,450,D,NULL,NULL +LB.1 Spike,S,452,W,NULL,NULL +LB.1 Spike,S,455,S,NULL,NULL +LB.1 Spike,S,456,L,NULL,NULL +LB.1 Spike,S,460,K,NULL,NULL +LB.1 Spike,S,477,N,NULL,NULL +LB.1 Spike,S,478,K,NULL,NULL +LB.1 Spike,S,481,K,NULL,NULL +LB.1 Spike,S,483,del,NULL,NULL +LB.1 Spike,S,484,K,NULL,NULL +LB.1 Spike,S,486,P,NULL,NULL +LB.1 Spike,S,498,R,NULL,NULL +LB.1 Spike,S,501,Y,NULL,NULL +LB.1 Spike,S,505,H,NULL,NULL +LB.1 Spike,S,554,K,NULL,NULL +LB.1 Spike,S,570,V,NULL,NULL +LB.1 Spike,S,614,G,NULL,NULL +LB.1 Spike,S,621,S,NULL,NULL +LB.1 Spike,S,655,Y,NULL,NULL +LB.1 Spike,S,679,K,NULL,NULL +LB.1 Spike,S,681,R,NULL,NULL +LB.1 Spike,S,764,K,NULL,NULL +LB.1 Spike,S,796,Y,NULL,NULL +LB.1 Spike,S,939,F,NULL,NULL +LB.1 Spike,S,954,H,NULL,NULL +LB.1 Spike,S,969,K,NULL,NULL +LB.1 Spike,S,1143,L,NULL,NULL diff --git a/tables/isolates.csv b/tables/isolates.csv index 996c1a9a..06f7da5f 100644 --- a/tables/isolates.csv +++ b/tables/isolates.csv @@ -1659,3 +1659,8 @@ EU.1.1 Spike,EU.1.1,FALSE,NULL,NULL,NULL,TRUE HK.3 Spike,HK.3,FALSE,NULL,NULL,NULL,TRUE JD.1.1 Spike,JD.1.1,FALSE,NULL,NULL,NULL,TRUE JN.1.11.1 Spike,JN.1.11.1,FALSE,NULL,NULL,NULL,TRUE +KP.2 Spike,KP.2,FALSE,NULL,NULL,NULL,TRUE +KP.3 Spike,KP.3,FALSE,NULL,NULL,NULL,TRUE +KP.2.3 Spike,KP.2.3,FALSE,NULL,NULL,NULL,TRUE +KP.3.1.1 Spike,KP.3.1.1,FALSE,NULL,NULL,NULL,TRUE +LB.1 Spike,LB.1,FALSE,NULL,NULL,NULL,TRUE diff --git a/tables/ref_isolate_pairs/wang24-pair.csv b/tables/ref_isolate_pairs/wang24-pair.csv new file mode 100644 index 00000000..98932db1 --- /dev/null +++ b/tables/ref_isolate_pairs/wang24-pair.csv @@ -0,0 +1,7 @@ +ref_name,control_iso_name,iso_name +Wang24,B.1 Spike,JN.1 Spike +Wang24,B.1 Spike,KP.2 Spike +Wang24,B.1 Spike,KP.3 Spike +Wang24,B.1 Spike,KP.2.3 Spike +Wang24,B.1 Spike,KP.3.1.1 Spike +Wang24,B.1 Spike,LB.1 Spike diff --git a/tables/rx_antibodies/wang24-mab.csv b/tables/rx_antibodies/wang24-mab.csv new file mode 100644 index 00000000..5308c280 --- /dev/null +++ b/tables/rx_antibodies/wang24-mab.csv @@ -0,0 +1,2 @@ +ref_name,rx_name,ab_name +Wang24,Pemivibart,Pemgarda diff --git a/tables/rx_potency/wang24-pot.csv b/tables/rx_potency/wang24-pot.csv new file mode 100644 index 00000000..ac8d092f --- /dev/null +++ b/tables/rx_potency/wang24-pot.csv @@ -0,0 +1,8 @@ +ref_name,rx_name,iso_name,section,assay_name,potency_type,potency,cumulative_count,potency_upper_limit,potency_lower_limit,potency_unit,date_added +Wang24,Pemivibart,B.1 Spike,Estimate,Pseudovirus,IC50,30,1,10000,1,ng/ml,2024-08-15 +Wang24,Pemivibart,JN.1 Spike,Figure 1B,Pseudovirus,IC50,185,1,10000,1,ng/ml,2024-08-15 +Wang24,Pemivibart,KP.2 Spike,Figure 1B,Pseudovirus,IC50,210,1,10000,1,ng/ml,2024-08-15 +Wang24,Pemivibart,KP.3 Spike,Figure 1B,Pseudovirus,IC50,709,1,10000,1,ng/ml,2024-08-15 +Wang24,Pemivibart,KP.2.3 Spike,Figure 1B,Pseudovirus,IC50,708,1,10000,1,ng/ml,2024-08-15 +Wang24,Pemivibart,KP.3.1.1 Spike,Figure 1B,Pseudovirus,IC50,6047,1,10000,1,ng/ml,2024-08-15 +Wang24,Pemivibart,LB.1 Spike,Figure 1B,Pseudovirus,IC50,501,1,10000,1,ng/ml,2024-08-15 diff --git a/tables/treatments.csv b/tables/treatments.csv index 1f9ea8f9..4b92cf05 100644 --- a/tables/treatments.csv +++ b/tables/treatments.csv @@ -7210,6 +7210,7 @@ Wang23c,COV2-2130 Wang23c,10-40 Wang23c,COV2-2196+COV2-2130 Wang23c,Brii-196+Brii-198 +Wang24,Pemivibart Weisblum20,C121 Weisblum20,C135 Weisblum20,C144 diff --git a/tables/variant_consensus.csv b/tables/variant_consensus.csv index 0be3fa7e..54711be0 100644 --- a/tables/variant_consensus.csv +++ b/tables/variant_consensus.csv @@ -16612,3 +16612,418 @@ KP.2,N,203,K KP.2,N,204,R KP.2,N,229,K KP.2,N,413,R +KP.3,nsp1,135,R +KP.3,nsp2,31,del +KP.3,PLpro,24,I +KP.3,PLpro,238,L +KP.3,PLpro,489,S +KP.3,PLpro,1155,R +KP.3,PLpro,1465,I +KP.3,PLpro,1708,S +KP.3,PLpro,1892,T +KP.3,nsp4,264,F +KP.3,nsp4,327,I +KP.3,nsp4,492,I +KP.3,_3CLpro,132,H +KP.3,nsp6,24,F +KP.3,nsp6,106,del +KP.3,nsp6,107,del +KP.3,nsp6,108,del +KP.3,nsp6,252,K +KP.3,nsp9,35,I +KP.3,RdRP,323,L +KP.3,nsp13,392,C +KP.3,nsp14,42,V +KP.3,nsp15,112,I +KP.3,S,19,I +KP.3,S,21,T +KP.3,S,24,S +KP.3,S,25,del +KP.3,S,26,del +KP.3,S,27,del +KP.3,S,50,L +KP.3,S,69,del +KP.3,S,70,del +KP.3,S,127,F +KP.3,S,142,del +KP.3,S,144,del +KP.3,S,157,S +KP.3,S,158,G +KP.3,S,211,I +KP.3,S,212,del +KP.3,S,213,G +KP.3,S,216,F +KP.3,S,245,N +KP.3,S,264,del +KP.3,S,332,V +KP.3,S,339,H +KP.3,S,356,T +KP.3,S,371,F +KP.3,S,373,P +KP.3,S,375,F +KP.3,S,376,A +KP.3,S,403,K +KP.3,S,405,N +KP.3,S,408,S +KP.3,S,417,N +KP.3,S,440,K +KP.3,S,445,H +KP.3,S,446,S +KP.3,S,450,del +KP.3,S,452,W +KP.3,S,455,S +KP.3,S,456,L +KP.3,S,460,K +KP.3,S,477,N +KP.3,S,478,K +KP.3,S,481,K +KP.3,S,483,del +KP.3,S,484,K +KP.3,S,486,P +KP.3,S,493,E +KP.3,S,498,R +KP.3,S,501,Y +KP.3,S,505,H +KP.3,S,554,K +KP.3,S,570,V +KP.3,S,614,G +KP.3,S,621,S +KP.3,S,655,Y +KP.3,S,679,K +KP.3,S,681,R +KP.3,S,764,K +KP.3,S,796,Y +KP.3,S,939,F +KP.3,S,954,H +KP.3,S,969,K +KP.3,S,1104,L +KP.3,S,1143,L +KP.3,ORF3a,223,I +KP.3,E,9,I +KP.3,M,3,H +KP.3,M,19,E +KP.3,M,30,A +KP.3,M,63,T +KP.3,M,104,V +KP.3,ORF6,61,L +KP.3,ORF7b,19,L +KP.3,ORF8,84,L +KP.3,N,13,L +KP.3,N,31,del +KP.3,N,32,del +KP.3,N,33,del +KP.3,N,203,K +KP.3,N,204,R +KP.3,N,229,K +KP.3,N,413,R +KP.2.3,nsp1,135,R +KP.2.3,nsp2,31,del +KP.2.3,PLpro,24,I +KP.2.3,PLpro,238,L +KP.2.3,PLpro,489,S +KP.2.3,PLpro,1155,R +KP.2.3,PLpro,1465,I +KP.2.3,PLpro,1708,S +KP.2.3,PLpro,1892,T +KP.2.3,nsp4,264,F +KP.2.3,nsp4,327,I +KP.2.3,nsp4,492,I +KP.2.3,_3CLpro,132,H +KP.2.3,nsp6,24,F +KP.2.3,nsp6,106,del +KP.2.3,nsp6,107,del +KP.2.3,nsp6,108,del +KP.2.3,nsp6,252,K +KP.2.3,nsp9,35,I +KP.2.3,RdRP,323,L +KP.2.3,nsp13,392,C +KP.2.3,nsp14,42,V +KP.2.3,nsp15,112,I +KP.2.3,S,19,I +KP.2.3,S,21,T +KP.2.3,S,31,del +KP.2.3,S,50,L +KP.2.3,S,69,del +KP.2.3,S,70,del +KP.2.3,S,127,F +KP.2.3,S,142,del +KP.2.3,S,144,del +KP.2.3,S,146,Q +KP.2.3,S,157,S +KP.2.3,S,158,G +KP.2.3,S,211,I +KP.2.3,S,212,del +KP.2.3,S,213,G +KP.2.3,S,216,F +KP.2.3,S,245,N +KP.2.3,S,264,del +KP.2.3,S,332,V +KP.2.3,S,339,H +KP.2.3,S,346,T +KP.2.3,S,356,T +KP.2.3,S,371,F +KP.2.3,S,373,P +KP.2.3,S,375,F +KP.2.3,S,376,A +KP.2.3,S,403,K +KP.2.3,S,405,N +KP.2.3,S,408,S +KP.2.3,S,417,N +KP.2.3,S,440,K +KP.2.3,S,445,H +KP.2.3,S,446,S +KP.2.3,S,450,del +KP.2.3,S,452,W +KP.2.3,S,455,S +KP.2.3,S,456,L +KP.2.3,S,460,K +KP.2.3,S,477,N +KP.2.3,S,478,K +KP.2.3,S,481,K +KP.2.3,S,486,P +KP.2.3,S,498,R +KP.2.3,S,501,Y +KP.2.3,S,505,H +KP.2.3,S,554,K +KP.2.3,S,570,V +KP.2.3,S,614,G +KP.2.3,S,621,S +KP.2.3,S,655,Y +KP.2.3,S,679,K +KP.2.3,S,681,R +KP.2.3,S,764,K +KP.2.3,S,796,Y +KP.2.3,S,939,F +KP.2.3,S,954,H +KP.2.3,S,969,K +KP.2.3,S,1104,L +KP.2.3,S,1143,L +KP.2.3,ORF3a,67,N +KP.2.3,ORF3a,223,I +KP.2.3,E,9,I +KP.2.3,M,3,H +KP.2.3,M,19,E +KP.2.3,M,30,A +KP.2.3,M,63,T +KP.2.3,M,104,V +KP.2.3,ORF6,61,L +KP.2.3,ORF7b,19,L +KP.2.3,ORF8,84,L +KP.2.3,N,13,L +KP.2.3,N,31,del +KP.2.3,N,32,del +KP.2.3,N,33,del +KP.2.3,N,203,K +KP.2.3,N,204,R +KP.2.3,N,229,K +KP.2.3,N,413,R +KP.3.1.1,nsp1,135,R +KP.3.1.1,nsp2,31,del +KP.3.1.1,PLpro,24,I +KP.3.1.1,PLpro,238,L +KP.3.1.1,PLpro,489,S +KP.3.1.1,PLpro,1155,R +KP.3.1.1,PLpro,1465,I +KP.3.1.1,PLpro,1708,S +KP.3.1.1,PLpro,1892,T +KP.3.1.1,nsp4,264,F +KP.3.1.1,nsp4,327,I +KP.3.1.1,nsp4,492,I +KP.3.1.1,_3CLpro,132,H +KP.3.1.1,nsp6,24,F +KP.3.1.1,nsp6,106,del +KP.3.1.1,nsp6,107,del +KP.3.1.1,nsp6,108,del +KP.3.1.1,nsp6,252,K +KP.3.1.1,nsp9,35,I +KP.3.1.1,nsp10,33,C +KP.3.1.1,RdRP,323,L +KP.3.1.1,nsp13,392,C +KP.3.1.1,nsp14,42,V +KP.3.1.1,nsp15,112,I +KP.3.1.1,S,19,I +KP.3.1.1,S,21,T +KP.3.1.1,S,24,S +KP.3.1.1,S,25,del +KP.3.1.1,S,26,del +KP.3.1.1,S,27,del +KP.3.1.1,S,31,del +KP.3.1.1,S,50,L +KP.3.1.1,S,69,del +KP.3.1.1,S,70,del +KP.3.1.1,S,127,F +KP.3.1.1,S,142,del +KP.3.1.1,S,144,del +KP.3.1.1,S,157,S +KP.3.1.1,S,158,G +KP.3.1.1,S,211,I +KP.3.1.1,S,212,del +KP.3.1.1,S,213,G +KP.3.1.1,S,216,F +KP.3.1.1,S,245,N +KP.3.1.1,S,264,del +KP.3.1.1,S,332,V +KP.3.1.1,S,339,H +KP.3.1.1,S,356,T +KP.3.1.1,S,371,F +KP.3.1.1,S,373,P +KP.3.1.1,S,375,F +KP.3.1.1,S,376,A +KP.3.1.1,S,403,K +KP.3.1.1,S,405,N +KP.3.1.1,S,408,S +KP.3.1.1,S,417,N +KP.3.1.1,S,440,K +KP.3.1.1,S,445,H +KP.3.1.1,S,446,S +KP.3.1.1,S,450,del +KP.3.1.1,S,452,W +KP.3.1.1,S,455,S +KP.3.1.1,S,456,L +KP.3.1.1,S,460,K +KP.3.1.1,S,477,N +KP.3.1.1,S,478,K +KP.3.1.1,S,481,K +KP.3.1.1,S,483,del +KP.3.1.1,S,484,K +KP.3.1.1,S,486,P +KP.3.1.1,S,493,E +KP.3.1.1,S,498,R +KP.3.1.1,S,501,Y +KP.3.1.1,S,505,H +KP.3.1.1,S,554,K +KP.3.1.1,S,570,V +KP.3.1.1,S,614,G +KP.3.1.1,S,621,S +KP.3.1.1,S,655,Y +KP.3.1.1,S,679,K +KP.3.1.1,S,681,R +KP.3.1.1,S,764,K +KP.3.1.1,S,796,Y +KP.3.1.1,S,939,F +KP.3.1.1,S,954,H +KP.3.1.1,S,969,K +KP.3.1.1,S,1104,L +KP.3.1.1,S,1143,L +KP.3.1.1,ORF3a,223,I +KP.3.1.1,E,9,I +KP.3.1.1,M,3,H +KP.3.1.1,M,19,E +KP.3.1.1,M,30,A +KP.3.1.1,M,63,T +KP.3.1.1,M,104,V +KP.3.1.1,ORF6,61,L +KP.3.1.1,ORF7b,19,L +KP.3.1.1,ORF8,84,L +KP.3.1.1,N,13,L +KP.3.1.1,N,31,del +KP.3.1.1,N,32,del +KP.3.1.1,N,33,del +KP.3.1.1,N,203,K +KP.3.1.1,N,204,R +KP.3.1.1,N,229,K +KP.3.1.1,N,413,R +LB.1,nsp1,135,R +LB.1,nsp2,31,D +LB.1,PLpro,24,I +LB.1,PLpro,238,L +LB.1,PLpro,489,S +LB.1,PLpro,1155,R +LB.1,PLpro,1708,S +LB.1,PLpro,1892,T +LB.1,nsp4,264,F +LB.1,nsp4,327,I +LB.1,nsp4,492,I +LB.1,_3CLpro,132,H +LB.1,nsp6,24,F +LB.1,nsp6,106,del +LB.1,nsp6,107,del +LB.1,nsp6,108,del +LB.1,nsp6,252,K +LB.1,nsp9,35,I +LB.1,RdRP,323,L +LB.1,nsp13,392,C +LB.1,nsp14,42,V +LB.1,nsp15,112,I +LB.1,S,19,I +LB.1,S,21,T +LB.1,S,24,S +LB.1,S,25,del +LB.1,S,26,del +LB.1,S,27,del +LB.1,S,31,del +LB.1,S,50,L +LB.1,S,69,del +LB.1,S,70,del +LB.1,S,127,F +LB.1,S,142,D +LB.1,S,144,del +LB.1,S,157,S +LB.1,S,158,G +LB.1,S,183,H +LB.1,S,211,I +LB.1,S,212,del +LB.1,S,213,G +LB.1,S,216,F +LB.1,S,245,N +LB.1,S,264,D +LB.1,S,332,V +LB.1,S,339,H +LB.1,S,346,T +LB.1,S,356,T +LB.1,S,371,F +LB.1,S,373,P +LB.1,S,375,F +LB.1,S,376,A +LB.1,S,403,K +LB.1,S,405,N +LB.1,S,408,S +LB.1,S,417,N +LB.1,S,440,K +LB.1,S,445,H +LB.1,S,446,S +LB.1,S,450,D +LB.1,S,452,W +LB.1,S,455,S +LB.1,S,456,L +LB.1,S,460,K +LB.1,S,477,N +LB.1,S,478,K +LB.1,S,481,K +LB.1,S,483,del +LB.1,S,484,K +LB.1,S,486,P +LB.1,S,498,R +LB.1,S,501,Y +LB.1,S,505,H +LB.1,S,554,K +LB.1,S,570,V +LB.1,S,614,G +LB.1,S,621,S +LB.1,S,655,Y +LB.1,S,679,K +LB.1,S,681,R +LB.1,S,764,K +LB.1,S,796,Y +LB.1,S,939,F +LB.1,S,954,H +LB.1,S,969,K +LB.1,S,1143,L +LB.1,ORF3a,223,I +LB.1,E,9,I +LB.1,M,3,H +LB.1,M,19,E +LB.1,M,30,A +LB.1,M,63,T +LB.1,M,104,V +LB.1,ORF6,61,L +LB.1,ORF7b,19,L +LB.1,ORF8,84,L +LB.1,N,13,L +LB.1,N,31,del +LB.1,N,32,del +LB.1,N,33,del +LB.1,N,203,K +LB.1,N,204,R +LB.1,N,229,K +LB.1,N,413,R diff --git a/tables/variants.csv b/tables/variants.csv index 84356821..efcd47bb 100644 --- a/tables/variants.csv +++ b/tables/variants.csv @@ -491,9 +491,13 @@ Omicron_XBB.1.5_or_XBB.1.9_or_XBB.1.16,FALSE,FALSE HV.1,FALSE,TRUE JN.1,FALSE,TRUE Omicron/BA.2.30,FALSE,TRUE -KP.2,FALSE,TRUE XBB.2.3,FALSE,FALSE EU.1.1,FALSE,FALSE HK.3,FALSE,FALSE JD.1.1,FALSE,FALSE JN.1.11.1,FALSE,FALSE +KP.2,FALSE,TRUE +KP.3,FALSE,TRUE +KP.2.3,FALSE,TRUE +KP.3.1.1,FALSE,TRUE +LB.1,FALSE,TRUE