Argentine Bioethics Association

Genetic variants of the human host influencing the coronavirus-associated phenotypes (SARS, MERS and COVID-19): rapid systematic review and field synopsis

• Elizabeth
• September 20, 2020September 20, 2020
• 0

The COVID 19th pandemic has strengthened interest in the biological mechanisms underlying the complex interactions between infectious agents and human hosts. The spectrum of phenotypes associated with SARS-CoV infection-2, from the absence of symptoms of severe systemic complications, raising questions about the extent to which the variable response to coronavirus (CoVs) is influenced by host genetic variability background.

To explore current knowledge about this question, we design a systematic review covers the scientific literature published from January 2003 to June 2020, to include the study of contemporary outbreaks caused by SARS-CoV-1, mer-CoV and SARS- CoV-2 (ie SARS, mer and COVID-19 disease). Studies were eligible if human genetic variants were tested as predictors of ad hoc phenotypes.An clinical protocol for a rapid review process is designed in accordance with the paradigm of PRISMA and registered in the database Prospero (ID: CRD42020180860).

Systematic workflow provided 32 articles eligible for data abstraction (28 on SARS, 1 in Mers, 3 in COVID-19) report data on 26 cohorts invention. Most studies considered a definite clinical diagnosis as the primary outcome, varies coupled with other results (severity is most often analyzed). Ten studies analyzed HLA haplotype (1 in patients with COVID-19) and did not provide a consistent signal relationship with phenotypes related diseases. Of the 22 articles that qualify investigating candidate genes (2 as associated with COVID-19), gen top ranking in a number of studies that ACE2, CLEC4M (L-SIGN), MBL, MxA (n = 3), ACE, CD209, FCER2 , OAS-1, TLR4, TNF-α (n = 2).

Only variants in the MBL and MxA found as a possible involvement in related CoV phenotype in at least two studies. The number of studies for each predictor is not enough to perform a meta-analyses.Studies collect large cohort from different ancestors needed to further clarify the role of genetic variants in determining the host response to infection CoVs. rigorous design and robust statistical method is guaranteed.

Classification discordant frequency variants in the Human Gene Mutation Database: Comparison of the American College of Medical Genetics and Genomics and ClinVar Guidelines

Purpose: variants of classification discordant between public databases is one of the well-documented limitations when interpreting the pathogenicity of variants. The purpose of this study was to determine the level of germline variants misannotation of Human Mutation Database Gen (HGMD) and concordance between database explanation.

Methods: We used a total of 188 106 classified variants (disease causing mutation [n = 179 454] and polymorphism [n = 8652]) in 6466 genes from HGMD. All variants were reanalyzed by the American College of Medical Genetics and Genomics (ACMG) guidelines and compared with the variant database ClinVar.

Recombinant Human Genome polyprotein, His-SUMO, E.coli-200ug
QP7370-ec-200ug	EnQuireBio	200ug	EUR 634

Recombinant Human Genome polyprotein, His-SUMO, E.coli-500ug
QP7370-ec-500ug	EnQuireBio	500ug	EUR 1060

Recombinant Human Genome polyprotein, His-SUMO, E.coli-50ug
QP7370-ec-50ug	EnQuireBio	50ug	EUR 263

Recombinant Hepatitis C Virus polyprotein, His, E.coli-100ug
QP8939-ec-100ug	EnQuireBio	100ug	EUR 707

Recombinant Human Genome polyprotein, His, Yeast-10ug
QP7370-ye-10ug	EnQuireBio	10ug	EUR 236

Recombinant Human Genome polyprotein, His, Yeast-1mg
QP7370-ye-1mg	EnQuireBio	1mg	EUR 1885

Recombinant Human Genome polyprotein, His, Yeast-200ug
QP7370-ye-200ug	EnQuireBio	200ug	EUR 744

Recombinant Human Genome polyprotein, His, Yeast-500ug
QP7370-ye-500ug	EnQuireBio	500ug	EUR 1206

Recombinant Human Genome polyprotein, His, Yeast-50ug
QP7370-ye-50ug	EnQuireBio	50ug	EUR 299

Genome polyprotein Antibody
1-CSB-PA333180LA01HFD	Cusabio	EUR 317.00 EUR 335.00	100ug 50ug
Description: A polyclonal antibody against Genome polyprotein. Recognizes Genome polyprotein from Hepatitis C virus genotype 1a. This antibody is Unconjugated. Tested in the following application: ELISA

Genome polyprotein Antibody
1-CSB-PA714772LA01HYH	Cusabio	EUR 317.00 EUR 335.00	100ug 50ug
Description: A polyclonal antibody against Genome polyprotein. Recognizes Genome polyprotein from Human enterovirus 71. This antibody is Unconjugated. Tested in the following application: ELISA

Genome polyprotein Antibody
1-CSB-PA18549A0Rb	Cusabio	EUR 317.00 EUR 335.00	100ug 50ug
Description: A polyclonal antibody against Genome polyprotein. Recognizes Genome polyprotein from Dengue virus. This antibody is Unconjugated. Tested in the following application: ELISA

Genome polyprotein Antibody
1-CSB-PA362073LA01HQD	Cusabio	EUR 317.00 EUR 335.00	100ug 50ug
Description: A polyclonal antibody against Genome polyprotein. Recognizes Genome polyprotein from Human rhinovirus A serotype 89. This antibody is Unconjugated. Tested in the following application: ELISA

Genome Polyprotein Antibody
20-abx109417	Abbexa	EUR 411.00 EUR 1845.00 EUR 599.00 EUR 182.00 EUR 300.00	100 ug 1 mg 200 ug 20 ug 50 ug

Genome polyprotein Antibody
20-abx300967	Abbexa	EUR 411.00 EUR 1845.00 EUR 599.00 EUR 182.00 EUR 300.00	100 ug 1 mg 200 ug 20 ug 50 ug

Recombinant Human TNNI2 Protein, His, E.coli-100ug
QP13776-HIS-100ug	EnQuireBio	100ug	EUR 1261

Recombinant Human TNNI3 Protein, His, E.coli-100ug
QP13777-HIS-100ug	EnQuireBio	100ug	EUR 218

Recombinant Human YWHAE Protein, His, E.coli-100ug
QP13985-HIS-100ug	EnQuireBio	100ug	EUR 1261

Recombinant Human ACPP Protein, His, E.coli-100ug
QP10946-HIS-100ug	EnQuireBio	100ug	EUR 1261

Recombinant Human ANGPTL3 Protein, His, E.coli-100ug
QP11018-HIS-100ug	EnQuireBio	100ug	EUR 1261

Recombinant Human En Protein, His, E.coli-100ug
QP11784-HIS-100ug	EnQuireBio	100ug	EUR 1261

Recombinant Human IGFBP7 Protein, His, E.coli-100ug
QP12384-HIS-100ug	EnQuireBio	100ug	EUR 1261

Recombinant Human KLK5 Protein, His, E.coli-100ug
QP12507-HIS-100ug	EnQuireBio	100ug	EUR 1261

Recombinant Human NARS Protein, His, E.coli-100ug
QP12794-HIS-100ug	EnQuireBio	100ug	EUR 1261

Recombinant Human SLAMF1 Protein, His, E.coli-100ug
QP13518-HIS-100ug	EnQuireBio	100ug	EUR 1261

Recombinant Human ALDH5A1, His-SUMO, E.coli-100ug
QP5645-ec-100ug	EnQuireBio	100ug	EUR 408

Recombinant Human COX4I1, His-SUMO, E.coli-100ug
QP5854-ec-100ug	EnQuireBio	100ug	EUR 408

Recombinant Human d2hgdh, His-SUMO, E.coli-100ug
QP7919-ec-100ug	EnQuireBio	100ug	EUR 408

Recombinant Human L2HGDH, His-SUMO, E.coli-100ug
QP8068-ec-100ug	EnQuireBio	100ug	EUR 408

Recombinant Human POLG2, His-SUMO, E.coli-100ug
QP8185-ec-100ug	EnQuireBio	100ug	EUR 408

Recombinant Human FDXR, His-SUMO, E.coli-100ug
QP6033-ec-100ug	EnQuireBio	100ug	EUR 408

Recombinant Human IDH3G, His-SUMO, E.coli-100ug
QP6194-ec-100ug	EnQuireBio	100ug	EUR 408

Recombinant E.coli ssbF Protein, His-SUMO, E.coli-100ug
QP7083-100ug	EnQuireBio	100ug	EUR 771

Recombinant hepatitis Non-structural polyprotein pORF1 Protein, His, E.coli-100ug
QP7125-100ug	EnQuireBio	100ug	EUR 771

Recombinant E.coli Agmatinase Protein, His-SUMO, E.coli-100ug
QP5622-ec-100ug	EnQuireBio	100ug	EUR 707

Recombinant E.coli nrdB Protein, His-SUMO, E.coli-100ug
QP6953-ec-100ug	EnQuireBio	100ug	EUR 707

Recombinant E.coli plsC Protein, His-SUMO, E.coli-100ug
QP7206-ec-100ug	EnQuireBio	100ug	EUR 707

Recombinant E.coli fkpA Protein, His-SUMO, E.coli-100ug
QP7261-ec-100ug	EnQuireBio	100ug	EUR 707

Recombinant E.coli nrdA Protein, His-SUMO, E.coli-100ug
QP7262-ec-100ug	EnQuireBio	100ug	EUR 707

Recombinant E.coli ruvA Protein, His-SUMO, E.coli-100ug
QP7321-ec-100ug	EnQuireBio	100ug	EUR 707

Recombinant E.coli fabF Protein, His-SUMO, E.coli-100ug
QP7326-ec-100ug	EnQuireBio	100ug	EUR 707

Recombinant E.coli LptA Protein, His-SUMO, E.coli-100ug
QP7331-ec-100ug	EnQuireBio	100ug	EUR 707

Recombinant E.coli Exopolyphosphatase Protein, His-SUMO, E.coli-100ug
QP7336-ec-100ug	EnQuireBio	100ug	EUR 707

Recombinant E.coli ruvB Protein, His-SUMO, E.coli-100ug
QP7392-ec-100ug	EnQuireBio	100ug	EUR 707

Recombinant E.coli ruvC Protein, His-SUMO, E.coli-100ug
QP7393-ec-100ug	EnQuireBio	100ug	EUR 707

Recombinant E.coli tetR Protein, His-SUMO, E.coli-100ug
QP7416-ec-100ug	EnQuireBio	100ug	EUR 707

Hepatitis C Genome polyprotein
1-CSB-RP184674Ba	Cusabio	EUR 611.00 EUR 309.00 EUR 1827.00 EUR 939.00 EUR 1218.00 EUR 397.00	100ug 10ug 1MG 200ug 500ug 50ug
Description: Recombinant Hepatitis C Genome polyprotein expressed in E.coli

Genome Polyprotein Antibody (Biotin)
20-abx105887	Abbexa	EUR 411.00 EUR 1845.00 EUR 599.00 EUR 182.00 EUR 300.00	100 ug 1 mg 200 ug 20 ug 50 ug

Genome polyprotein Antibody (Biotin)
20-abx106264	Abbexa	EUR 411.00 EUR 1845.00 EUR 599.00 EUR 182.00 EUR 300.00	100 ug 1 mg 200 ug 20 ug 50 ug

Genome polyprotein Antibody (FITC)
20-abx107678	Abbexa	EUR 411.00 EUR 1845.00 EUR 599.00 EUR 182.00 EUR 300.00	100 ug 1 mg 200 ug 20 ug 50 ug

Genome polyprotein Antibody (HRP)
20-abx109095	Abbexa	EUR 411.00 EUR 1845.00 EUR 599.00 EUR 182.00 EUR 300.00	100 ug 1 mg 200 ug 20 ug 50 ug

Genome Polyprotein Polyclonal Antibody
A56130	EpiGentek	100 µg	EUR 570.55
Description: Ask the seller for details

Genome Polyprotein Polyclonal Antibody
A56743	EpiGentek	100 µg	EUR 570.55
Description: Ask the seller for details

Genome Polyprotein Polyclonal Antibody
A68253	EpiGentek	100 µg	EUR 570.55
Description: Ask the seller for details

Genome Polyprotein Polyclonal Antibody
A68254	EpiGentek	100 µg	EUR 570.55
Description: reagents widely cited

Genome polyprotein Antibody (HRP)
20-abx300968	Abbexa	EUR 411.00 EUR 1845.00 EUR 599.00 EUR 182.00 EUR 300.00	100 ug 1 mg 200 ug 20 ug 50 ug

Genome polyprotein Antibody (FITC)
20-abx300969	Abbexa	EUR 411.00 EUR 1845.00 EUR 599.00 EUR 182.00 EUR 300.00	100 ug 1 mg 200 ug 20 ug 50 ug

Genome polyprotein Antibody (Biotin)
20-abx300970	Abbexa	EUR 411.00 EUR 1845.00 EUR 599.00 EUR 182.00 EUR 300.00	100 ug 1 mg 200 ug 20 ug 50 ug

Human rhinovirus 1A Genome polyprotein
1-CSB-YP326367HQA	Cusabio	EUR 430.00 EUR 234.00 EUR 1508.00 EUR 642.00 EUR 1009.00 EUR 291.00	100ug 10ug 1MG 200ug 500ug 50ug
Description: Recombinant Human rhinovirus 1A Genome polyprotein,partial expressed in Yeast

Recombinant Zika Envelope Protein, His, E.coli-100ug
QP13997-HIS-100ug	EnQuireBio	100ug	EUR 218

Recombinant Zika NS1 Protein, His, E.coli-100ug
QP14001-HIS-100ug	EnQuireBio	100ug	EUR 218

Recombinant Mouse GSTP2 Protein, His, E.coli-100ug
QP12063-HIS-100ug	EnQuireBio	100ug	EUR 1261

Recombinant Human CD274 Protein, His, E.coli-100ug
QP11319-HIS-EC-100ug	EnQuireBio	100ug	EUR 1261

Recombinant Human AGRP Protein, His-SUMO, E.coli-100ug
QP5623-ec-100ug	EnQuireBio	100ug	EUR 408

Recombinant Human Adenosylhomocysteinase Protein, His-SUMO, E.coli-100ug
QP5629-ec-100ug	EnQuireBio	100ug	EUR 408

Recombinant Human AKR1C2 Protein, His-SUMO, E.coli-100ug
QP5637-ec-100ug	EnQuireBio	100ug	EUR 408

Recombinant Human AKT2 / Protein, His-SUMO, E.coli-100ug
QP5641-ec-100ug	EnQuireBio	100ug	EUR 408

Recombinant Human Asporin Protein, His-SUMO, E.coli-100ug
QP5687-ec-100ug	EnQuireBio	100ug	EUR 571

Recombinant Human ATF2 Protein, His-SUMO, E.coli-100ug
QP5688-ec-100ug	EnQuireBio	100ug	EUR 408

Recombinant Human ATP5D Protein, His-SUMO, E.coli-100ug
QP5695-ec-100ug	EnQuireBio	100ug	EUR 408

Recombinant Human BCAT2 Protein, His-SUMO, E.coli-100ug
QP5707-ec-100ug	EnQuireBio	100ug	EUR 408

Recombinant Human BCL10 Protein, His-SUMO, E.coli-100ug
QP5709-ec-100ug	EnQuireBio	100ug	EUR 408

Recombinant Human BTN3A2 Protein, His-SUMO, E.coli-100ug
QP5730-ec-100ug	EnQuireBio	100ug	EUR 408

Recombinant Human BTN3A3 Protein, His-SUMO, E.coli-100ug
QP5731-ec-100ug	EnQuireBio	100ug	EUR 408

Recombinant Human CACNA2D1 Protein, His-SUMO, E.coli-100ug
QP5745-ec-100ug	EnQuireBio	100ug	EUR 418

Recombinant Human CD7 Protein, His-SUMO, E.coli-100ug
QP5794-ec-100ug	EnQuireBio	100ug	EUR 408

Recombinant Human CDK5 Protein, His-SUMO, E.coli-100ug
QP5806-ec-100ug	EnQuireBio	100ug	EUR 408

Recombinant Human CEACAM6 Protein, His-SUMO, E.coli-100ug
QP5813-ec-100ug	EnQuireBio	100ug	EUR 408

Recombinant Human CEACAM7 Protein, His-SUMO, E.coli-100ug
QP5814-ec-100ug	EnQuireBio	100ug	EUR 408

Recombinant Human CIAO1 Protein, His-SUMO, E.coli-100ug
QP5836-ec-100ug	EnQuireBio	100ug	EUR 408

Recombinant Human CRIP2 Protein, His-SUMO, E.coli-100ug
QP5869-ec-100ug	EnQuireBio	100ug	EUR 408

Recombinant Human CYP11A1 Protein, His-SUMO, E.coli-100ug
QP5902-ec-100ug	EnQuireBio	100ug	EUR 408

Recombinant Human DCX Protein, His-SUMO, E.coli-100ug
QP5920-ec-100ug	EnQuireBio	100ug	EUR 571

Recombinant Human Desmoplakin Protein, His-SUMO, E.coli-100ug
QP5952-ec-100ug	EnQuireBio	100ug	EUR 408

Recombinant Human EIF2AK2 Protein, His-SUMO, E.coli-100ug
QP5969-ec-100ug	EnQuireBio	100ug	EUR 408

Recombinant Human EIF3G Protein, His-SUMO, E.coli-100ug
QP5972-ec-100ug	EnQuireBio	100ug	EUR 408

Recombinant Human EIF4EBP3 Protein, His-SUMO, E.coli-100ug
QP5974-ec-100ug	EnQuireBio	100ug	EUR 408

Recombinant Human EML2 Protein, His-SUMO, E.coli-100ug
QP5982-ec-100ug	EnQuireBio	100ug	EUR 408

Recombinant Human BPHL Protein, His-SUMO, E.coli-100ug
QP7794-ec-100ug	EnQuireBio	100ug	EUR 408

Recombinant Human Vasculin Protein, His-SUMO, E.coli-100ug
QP7795-ec-100ug	EnQuireBio	100ug	EUR 408

Recombinant Human CHD1L Protein, His-SUMO, E.coli-100ug
QP7802-ec-100ug	EnQuireBio	100ug	EUR 571

Recombinant Human VWA5B2 Protein, His-SUMO, E.coli-100ug
QP7823-ec-100ug	EnQuireBio	100ug	EUR 408

Recombinant Human ACBD4 Protein, His-SUMO, E.coli-100ug
QP7825-ec-100ug	EnQuireBio	100ug	EUR 408

Recombinant Human FANK1 Protein, His-SUMO, E.coli-100ug
QP7827-ec-100ug	EnQuireBio	100ug	EUR 408

Recombinant Human ABHD5 Protein, His-SUMO, E.coli-100ug
QP7831-ec-100ug	EnQuireBio	100ug	EUR 571

Recombinant Human PTPMT1 Protein, His-SUMO, E.coli-100ug
QP7832-ec-100ug	EnQuireBio	100ug	EUR 408

Results: When variants are classified by ACMG guidelines, misclassification was observed at 3.47% (2289 / 65,896) of variants. Overall suitability between HGMD and ClinVar is 97.62% (52,499 / 53,780) of the variants studied.
Conclusion: A variant in the database should be used with caution when variant pathogenicity interpreted. This study reveals misannotation frequency of variants and explanations HGMD compatibility between databases in depth.