PMID- 35702824
OWN - NLM
STAT- MEDLINE
DCOM- 20220908
LR  - 20230606
IS  - 1098-2272 (Electronic)
IS  - 0741-0395 (Print)
IS  - 0741-0395 (Linking)
VI  - 46
IP  - 7
DP  - 2022 Oct
TI  - Novel HLA associations with outcomes of Mycobacterium tuberculosis exposure and 
      sarcoidosis in individuals of African ancestry using nearest-neighbor feature 
      selection.
PG  - 463-474
LID - 10.1002/gepi.22490 [doi]
AB  - Tuberculosis and sarcoidosis are inflammatory diseases characterized by 
      granulomas that may occur in any organ but are often found in the lung. The 
      panoply of classical human leukocyte antigen (HLA) alleles associated with 
      occurrence and/or severity of both diseases varies considerably across studies. 
      This heterogeneity of results, due to variation in factors like ancestry and 
      disease subphenotype, as well as the use of simple modeling strategies to 
      elucidate likely complex relationships, has made conclusions about underlying 
      commonalities difficult. Here we perform HLA association analyses in individuals 
      of African ancestry, using a greater resolution to include subphenotypes of 
      disease and employing more comprehensive analytical techniques. Using a novel 
      application of nearest-neighbor feature selection to score allelic importance, we 
      investigated HLA allele association with Mycobacterium tuberculosis exposure 
      outcomes in the first analysis of both latent Mycobacterium tuberculosis 
      infection and active disease compared with those who, despite long-term exposure 
      to active index cases, have neither positive diagnostic tests nor display 
      clinical symptoms. We also compared persistent to resolved sarcoidosis. This led 
      to the identification of novel HLA associations and evidence of main effects and 
      interaction effects. We found strikingly similar main effects and interaction 
      effects at HLA-DRB1, -DQB1, and -DPB1 in those resistant to tuberculosis (either 
      latent or active) and persistent sarcoidosis.
CI  - (c) 2022 Wiley Periodicals LLC.
FAU - Dawkins, Bryan A
AU  - Dawkins BA
AUID- ORCID: 0000-0003-0087-312X
AD  - Department of Genes and Human Disease, Oklahoma Medical Research Foundation, 
      Oklahoma City, Oklahoma, USA.
FAU - Garman, Lori
AU  - Garman L
AD  - Department of Microbiology and Immunology, University of Oklahoma Health Sciences 
      Center, Oklahoma City, Oklahoma, USA.
FAU - Cejda, Nicholas
AU  - Cejda N
AD  - Department of Genes and Human Disease, Oklahoma Medical Research Foundation, 
      Oklahoma City, Oklahoma, USA.
FAU - Pezant, Nathan
AU  - Pezant N
AD  - Department of Genes and Human Disease, Oklahoma Medical Research Foundation, 
      Oklahoma City, Oklahoma, USA.
FAU - Rasmussen, Astrid
AU  - Rasmussen A
AUID- ORCID: 0000-0001-7744-2948
AD  - Department of Genes and Human Disease, Oklahoma Medical Research Foundation, 
      Oklahoma City, Oklahoma, USA.
FAU - Rybicki, Benjamin A
AU  - Rybicki BA
AUID- ORCID: 0000-0003-3190-3467
AD  - Department of Public Health Sciences, Henry Ford Health System, Detroit, 
      Michigan, USA.
FAU - Levin, Albert M
AU  - Levin AM
AD  - Department of Public Health Sciences, Henry Ford Health System, Detroit, 
      Michigan, USA.
AD  - Center for Bioinformatics, Henry Ford Health System, Detroit, Michigan, USA.
FAU - Benchek, Penelope
AU  - Benchek P
AD  - Department of Population and Quantitative Health Sciences, Case Western Reserve 
      University, Cleveland, Ohio, USA.
FAU - Seshadri, Chetan
AU  - Seshadri C
AD  - Department of Medicine, University of Washington, Seattle, Washington, USA.
FAU - Mayanja-Kizza, Harriet
AU  - Mayanja-Kizza H
AD  - Department of Medicine, Makerere University and Mulago Hospital, Kampala, Uganda.
FAU - Iannuzzi, Michael C
AU  - Iannuzzi MC
AD  - Department of Public Health Sciences, Henry Ford Health System, Detroit, 
      Michigan, USA.
FAU - Stein, Catherine M
AU  - Stein CM
AD  - Department of Population and Quantitative Health Sciences, Case Western Reserve 
      University, Cleveland, Ohio, USA.
AD  - Division of Infectious Diseases and HIV Medicine, Department of Medicine, Case 
      Western Reserve University, Cleveland, Ohio, USA.
FAU - Montgomery, Courtney G
AU  - Montgomery CG
AD  - Department of Genes and Human Disease, Oklahoma Medical Research Foundation, 
      Oklahoma City, Oklahoma, USA.
LA  - eng
GR  - U54 GM104938/GM/NIGMS NIH HHS/United States
GR  - P30 GM110766/GM/NIGMS NIH HHS/United States
GR  - R01 HL113326/HL/NHLBI NIH HHS/United States
GR  - R33 AI138272/AI/NIAID NIH HHS/United States
GR  - T32 AI007633/AI/NIAID NIH HHS/United States
PT  - Journal Article
PT  - Research Support, N.I.H., Extramural
PT  - Research Support, Non-U.S. Gov't
DEP - 20220614
PL  - United States
TA  - Genet Epidemiol
JT  - Genetic epidemiology
JID - 8411723
RN  - 0 (HLA-DRB1 Chains)
SB  - IM
MH  - Alleles
MH  - Gene Frequency
MH  - Genetic Predisposition to Disease
MH  - HLA-DRB1 Chains/genetics
MH  - Humans
MH  - *Mycobacterium tuberculosis/genetics
MH  - *Sarcoidosis/genetics
MH  - *Tuberculosis/genetics
PMC - PMC10237150
MID - NIHMS1903979
OTO - NOTNLM
OT  - HLA
OT  - Mycobacterium tuberculosis
OT  - epistasis
OT  - nearest-neighbor feature selection
OT  - resistance to infection
OT  - sarcoidosis
COIS- Disclosures: The research was conducted in the absence of any commercial or 
      financial relationships that could be construed as a potential conflict of 
      interest. The authors alone are responsible for the content and writing of the 
      paper.
EDAT- 2022/06/16 06:00
MHDA- 2022/09/09 06:00
PMCR- 2023/06/02
CRDT- 2022/06/15 02:53
PHST- 2022/05/20 00:00 [revised]
PHST- 2022/01/31 00:00 [received]
PHST- 2022/05/25 00:00 [accepted]
PHST- 2022/06/16 06:00 [pubmed]
PHST- 2022/09/09 06:00 [medline]
PHST- 2022/06/15 02:53 [entrez]
PHST- 2023/06/02 00:00 [pmc-release]
AID - 10.1002/gepi.22490 [doi]
PST - ppublish
SO  - Genet Epidemiol. 2022 Oct;46(7):463-474. doi: 10.1002/gepi.22490. Epub 2022 Jun 
      14.