KLK3 SNP–SNP interactions for prediction of prostate cancer aggressiveness

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KLK3 SNP–SNP interactions for prediction of prostate cancer aggressiveness. / Lin, Hui Yi; Huang, Po Yu; Cheng, Chia Ho; Tung, Heng Yuan; Fang, Zhide; Berglund, Anders E.; Chen, Ann; French-Kwawu, Jennifer; Harris, Darian; Pow-Sang, Julio; Yamoah, Kosj; Cleveland, John L.; Awasthi, Shivanshu; Rounbehler, Robert J.; Gerke, Travis; Dhillon, Jasreman; Eeles, Rosalind; Kote-Jarai, Zsofia; Muir, Kenneth; Eeles, Rosalind; Kote-Jarai, Zsofia; Muir, Kenneth; Schleutker, Johanna; Pashayan, Nora; Clements, Judith; Batra, Jyotsna; Neal, David E.; Nielsen, Sune F.; Nordestgaard, Børge G.; Gronberg, Henrik; Wiklund, Fredrik; Giles, Graham G.; Haiman, Christopher A.; Travis, Ruth C.; Stanford, Janet L.; Kibel, Adam S.; Cybulski, Cezary; Khaw, Kay Tee; Maier, Christiane; Thibodeau, Stephen N.; Teixeira, Manuel R.; Cannon-Albright, Lisa; Brenner, Hermann; Kaneva, Radka; Pandha, Hardev; UKGPCS Collaborators; APCB (Australian Prostate Cancer BioResource); The Practical Consortium.

I: Scientific Reports, Bind 11, Nr. 1, 9264, 2021.

Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › fagfællebedømt

Harvard

Lin, HY, Huang, PY, Cheng, CH, Tung, HY, Fang, Z, Berglund, AE, Chen, A, French-Kwawu, J, Harris, D, Pow-Sang, J, Yamoah, K, Cleveland, JL, Awasthi, S, Rounbehler, RJ, Gerke, T, Dhillon, J, Eeles, R, Kote-Jarai, Z, Muir, K, Eeles, R, Kote-Jarai, Z, Muir, K, Schleutker, J, Pashayan, N, Clements, J, Batra, J, Neal, DE, Nielsen, SF, Nordestgaard, BG, Gronberg, H, Wiklund, F, Giles, GG, Haiman, CA, Travis, RC, Stanford, JL, Kibel, AS, Cybulski, C, Khaw, KT, Maier, C, Thibodeau, SN, Teixeira, MR, Cannon-Albright, L, Brenner, H, Kaneva, R, Pandha, H, UKGPCS Collaborators, APCB (Australian Prostate Cancer BioResource) & The Practical Consortium 2021, 'KLK3 SNP–SNP interactions for prediction of prostate cancer aggressiveness', Scientific Reports, bind 11, nr. 1, 9264. https://doi.org/10.1038/s41598-021-85169-7

APA

Lin, H. Y., Huang, P. Y., Cheng, C. H., Tung, H. Y., Fang, Z., Berglund, A. E., Chen, A., French-Kwawu, J., Harris, D., Pow-Sang, J., Yamoah, K., Cleveland, J. L., Awasthi, S., Rounbehler, R. J., Gerke, T., Dhillon, J., Eeles, R., Kote-Jarai, Z., Muir, K., ... The Practical Consortium (2021). KLK3 SNP–SNP interactions for prediction of prostate cancer aggressiveness. Scientific Reports, 11(1), [9264]. https://doi.org/10.1038/s41598-021-85169-7

Vancouver

Lin HY, Huang PY, Cheng CH, Tung HY, Fang Z, Berglund AE o.a. KLK3 SNP–SNP interactions for prediction of prostate cancer aggressiveness. Scientific Reports. 2021;11(1). 9264. https://doi.org/10.1038/s41598-021-85169-7

Author

Lin, Hui Yi ; Huang, Po Yu ; Cheng, Chia Ho ; Tung, Heng Yuan ; Fang, Zhide ; Berglund, Anders E. ; Chen, Ann ; French-Kwawu, Jennifer ; Harris, Darian ; Pow-Sang, Julio ; Yamoah, Kosj ; Cleveland, John L. ; Awasthi, Shivanshu ; Rounbehler, Robert J. ; Gerke, Travis ; Dhillon, Jasreman ; Eeles, Rosalind ; Kote-Jarai, Zsofia ; Muir, Kenneth ; Eeles, Rosalind ; Kote-Jarai, Zsofia ; Muir, Kenneth ; Schleutker, Johanna ; Pashayan, Nora ; Clements, Judith ; Batra, Jyotsna ; Neal, David E. ; Nielsen, Sune F. ; Nordestgaard, Børge G. ; Gronberg, Henrik ; Wiklund, Fredrik ; Giles, Graham G. ; Haiman, Christopher A. ; Travis, Ruth C. ; Stanford, Janet L. ; Kibel, Adam S. ; Cybulski, Cezary ; Khaw, Kay Tee ; Maier, Christiane ; Thibodeau, Stephen N. ; Teixeira, Manuel R. ; Cannon-Albright, Lisa ; Brenner, Hermann ; Kaneva, Radka ; Pandha, Hardev ; UKGPCS Collaborators ; APCB (Australian Prostate Cancer BioResource) ; The Practical Consortium. / KLK3 SNP–SNP interactions for prediction of prostate cancer aggressiveness. I: Scientific Reports. 2021 ; Bind 11, Nr. 1.

Bibtex

@article{78ced92f7fd84fee9121457d0881f116,
title = "KLK3 SNP–SNP interactions for prediction of prostate cancer aggressiveness",
abstract = "Risk classification for prostate cancer (PCa) aggressiveness and underlying mechanisms remain inadequate. Interactions between single nucleotide polymorphisms (SNPs) may provide a solution to fill these gaps. To identify SNP–SNP interactions in the four pathways (the angiogenesis-, mitochondria-, miRNA-, and androgen metabolism-related pathways) associated with PCa aggressiveness, we tested 8587 SNPs for 20,729 cases from the PCa consortium. We identified 3 KLK3 SNPs, and 1083 (P < 3.5 × 10–9) and 3145 (P < 1 × 10–5) SNP–SNP interaction pairs significantly associated with PCa aggressiveness. These SNP pairs associated with PCa aggressiveness were more significant than each of their constituent SNP individual effects. The majority (98.6%) of the 3145 pairs involved KLK3. The 3 most common gene–gene interactions were KLK3-COL4A1:COL4A2, KLK3-CDH13, and KLK3-TGFBR3. Predictions from the SNP interaction-based polygenic risk score based on 24 SNP pairs are promising. The prevalence of PCa aggressiveness was 49.8%, 21.9%, and 7.0% for the PCa cases from our cohort with the top 1%, middle 50%, and bottom 1% risk profiles. Potential biological functions of the identified KLK3 SNP–SNP interactions were supported by gene expression and protein–protein interaction results. Our findings suggest KLK3 SNP interactions may play an important role in PCa aggressiveness.",
author = "Lin, {Hui Yi} and Huang, {Po Yu} and Cheng, {Chia Ho} and Tung, {Heng Yuan} and Zhide Fang and Berglund, {Anders E.} and Ann Chen and Jennifer French-Kwawu and Darian Harris and Julio Pow-Sang and Kosj Yamoah and Cleveland, {John L.} and Shivanshu Awasthi and Rounbehler, {Robert J.} and Travis Gerke and Jasreman Dhillon and Rosalind Eeles and Zsofia Kote-Jarai and Kenneth Muir and Rosalind Eeles and Zsofia Kote-Jarai and Kenneth Muir and Johanna Schleutker and Nora Pashayan and Judith Clements and Jyotsna Batra and Neal, {David E.} and Nielsen, {Sune F.} and Nordestgaard, {B{\o}rge G.} and Henrik Gronberg and Fredrik Wiklund and Giles, {Graham G.} and Haiman, {Christopher A.} and Travis, {Ruth C.} and Stanford, {Janet L.} and Kibel, {Adam S.} and Cezary Cybulski and Khaw, {Kay Tee} and Christiane Maier and Thibodeau, {Stephen N.} and Teixeira, {Manuel R.} and Lisa Cannon-Albright and Hermann Brenner and Radka Kaneva and Hardev Pandha and {UKGPCS Collaborators} and {APCB (Australian Prostate Cancer BioResource)} and {The Practical Consortium}",
note = "Publisher Copyright: {\textcopyright} 2021, The Author(s).",
year = "2021",
doi = "10.1038/s41598-021-85169-7",
language = "English",
volume = "11",
journal = "Scientific Reports",
issn = "2045-2322",
publisher = "nature publishing group",
number = "1",

}

RIS

TY - JOUR

T1 - KLK3 SNP–SNP interactions for prediction of prostate cancer aggressiveness

AU - Lin, Hui Yi

AU - Huang, Po Yu

AU - Cheng, Chia Ho

AU - Tung, Heng Yuan

AU - Fang, Zhide

AU - Berglund, Anders E.

AU - Chen, Ann

AU - French-Kwawu, Jennifer

AU - Harris, Darian

AU - Pow-Sang, Julio

AU - Yamoah, Kosj

AU - Cleveland, John L.

AU - Awasthi, Shivanshu

AU - Rounbehler, Robert J.

AU - Gerke, Travis

AU - Dhillon, Jasreman

AU - Eeles, Rosalind

AU - Kote-Jarai, Zsofia

AU - Muir, Kenneth

AU - Eeles, Rosalind

AU - Kote-Jarai, Zsofia

AU - Muir, Kenneth

AU - Schleutker, Johanna

AU - Pashayan, Nora

AU - Clements, Judith

AU - Batra, Jyotsna

AU - Neal, David E.

AU - Nielsen, Sune F.

AU - Nordestgaard, Børge G.

AU - Gronberg, Henrik

AU - Wiklund, Fredrik

AU - Giles, Graham G.

AU - Haiman, Christopher A.

AU - Travis, Ruth C.

AU - Stanford, Janet L.

AU - Kibel, Adam S.

AU - Cybulski, Cezary

AU - Khaw, Kay Tee

AU - Maier, Christiane

AU - Thibodeau, Stephen N.

AU - Teixeira, Manuel R.

AU - Cannon-Albright, Lisa

AU - Brenner, Hermann

AU - Kaneva, Radka

AU - Pandha, Hardev

AU - UKGPCS Collaborators

AU - APCB (Australian Prostate Cancer BioResource)

AU - The Practical Consortium

N1 - Publisher Copyright: © 2021, The Author(s).

PY - 2021

Y1 - 2021

N2 - Risk classification for prostate cancer (PCa) aggressiveness and underlying mechanisms remain inadequate. Interactions between single nucleotide polymorphisms (SNPs) may provide a solution to fill these gaps. To identify SNP–SNP interactions in the four pathways (the angiogenesis-, mitochondria-, miRNA-, and androgen metabolism-related pathways) associated with PCa aggressiveness, we tested 8587 SNPs for 20,729 cases from the PCa consortium. We identified 3 KLK3 SNPs, and 1083 (P < 3.5 × 10–9) and 3145 (P < 1 × 10–5) SNP–SNP interaction pairs significantly associated with PCa aggressiveness. These SNP pairs associated with PCa aggressiveness were more significant than each of their constituent SNP individual effects. The majority (98.6%) of the 3145 pairs involved KLK3. The 3 most common gene–gene interactions were KLK3-COL4A1:COL4A2, KLK3-CDH13, and KLK3-TGFBR3. Predictions from the SNP interaction-based polygenic risk score based on 24 SNP pairs are promising. The prevalence of PCa aggressiveness was 49.8%, 21.9%, and 7.0% for the PCa cases from our cohort with the top 1%, middle 50%, and bottom 1% risk profiles. Potential biological functions of the identified KLK3 SNP–SNP interactions were supported by gene expression and protein–protein interaction results. Our findings suggest KLK3 SNP interactions may play an important role in PCa aggressiveness.

AB - Risk classification for prostate cancer (PCa) aggressiveness and underlying mechanisms remain inadequate. Interactions between single nucleotide polymorphisms (SNPs) may provide a solution to fill these gaps. To identify SNP–SNP interactions in the four pathways (the angiogenesis-, mitochondria-, miRNA-, and androgen metabolism-related pathways) associated with PCa aggressiveness, we tested 8587 SNPs for 20,729 cases from the PCa consortium. We identified 3 KLK3 SNPs, and 1083 (P < 3.5 × 10–9) and 3145 (P < 1 × 10–5) SNP–SNP interaction pairs significantly associated with PCa aggressiveness. These SNP pairs associated with PCa aggressiveness were more significant than each of their constituent SNP individual effects. The majority (98.6%) of the 3145 pairs involved KLK3. The 3 most common gene–gene interactions were KLK3-COL4A1:COL4A2, KLK3-CDH13, and KLK3-TGFBR3. Predictions from the SNP interaction-based polygenic risk score based on 24 SNP pairs are promising. The prevalence of PCa aggressiveness was 49.8%, 21.9%, and 7.0% for the PCa cases from our cohort with the top 1%, middle 50%, and bottom 1% risk profiles. Potential biological functions of the identified KLK3 SNP–SNP interactions were supported by gene expression and protein–protein interaction results. Our findings suggest KLK3 SNP interactions may play an important role in PCa aggressiveness.

U2 - 10.1038/s41598-021-85169-7

DO - 10.1038/s41598-021-85169-7

M3 - Journal article

C2 - 33927218

AN - SCOPUS:85105127432

VL - 11

JO - Scientific Reports

JF - Scientific Reports

SN - 2045-2322

IS - 1

M1 - 9264

ER -

ID: 286487425