SNP-SNP interaction analysis of NF-κB signaling pathway on breast cancer survival

Research output: Contribution to journalJournal articlepeer-review

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SNP-SNP interaction analysis of NF-κB signaling pathway on breast cancer survival. / Jamshidi, Maral; Fagerholm, Rainer; Khan, Sofia; Aittomäki, Kristiina; Czene, Kamila; Darabi, Hatef; Li, Jingmei; Andrulis, Irene L; Chang-Claude, Jenny; Devilee, Peter; Fasching, Peter A; Michailidou, Kyriaki; Bolla, Manjeet K; Dennis, Joe; Wang, Qin; Guo, Qi; Rhenius, Valerie; Cornelissen, Sten; Rudolph, Anja; Knight, Julia A; Loehberg, Christian R; Burwinkel, Barbara; Marme, Frederik; Hopper, John L; Southey, Melissa C; Bojesen, Stig E; Flyger, Henrik; Brenner, Hermann; Holleczek, Bernd; Margolin, Sara; Mannermaa, Arto; Kosma, Veli-Matti; Van Dyck, Laurien; Nevelsteen, Ines; Couch, Fergus J; Olson, Janet E; Giles, Graham G; McLean, Catriona; Haiman, Christopher A; Henderson, Brian E; Winqvist, Robert; Pylkäs, Katri; Tollenaar, Rob A E M; García-Closas, Montserrat; Figueroa, Jonine; Hooning, Maartje J; Martens, John W M; Cox, Angela; Cross, Simon S; Simard, Jacques; kConFab Investigators.

In: OncoTarget, Vol. 6, No. 35, 10.11.2015, p. 37979-94.

Research output: Contribution to journalJournal articlepeer-review

Harvard

Jamshidi, M, Fagerholm, R, Khan, S, Aittomäki, K, Czene, K, Darabi, H, Li, J, Andrulis, IL, Chang-Claude, J, Devilee, P, Fasching, PA, Michailidou, K, Bolla, MK, Dennis, J, Wang, Q, Guo, Q, Rhenius, V, Cornelissen, S, Rudolph, A, Knight, JA, Loehberg, CR, Burwinkel, B, Marme, F, Hopper, JL, Southey, MC, Bojesen, SE, Flyger, H, Brenner, H, Holleczek, B, Margolin, S, Mannermaa, A, Kosma, V-M, Van Dyck, L, Nevelsteen, I, Couch, FJ, Olson, JE, Giles, GG, McLean, C, Haiman, CA, Henderson, BE, Winqvist, R, Pylkäs, K, Tollenaar, RAEM, García-Closas, M, Figueroa, J, Hooning, MJ, Martens, JWM, Cox, A, Cross, SS, Simard, J & kConFab Investigators 2015, 'SNP-SNP interaction analysis of NF-κB signaling pathway on breast cancer survival', OncoTarget, vol. 6, no. 35, pp. 37979-94. https://doi.org/10.18632/oncotarget.4991

APA

Jamshidi, M., Fagerholm, R., Khan, S., Aittomäki, K., Czene, K., Darabi, H., Li, J., Andrulis, I. L., Chang-Claude, J., Devilee, P., Fasching, P. A., Michailidou, K., Bolla, M. K., Dennis, J., Wang, Q., Guo, Q., Rhenius, V., Cornelissen, S., Rudolph, A., ... kConFab Investigators (2015). SNP-SNP interaction analysis of NF-κB signaling pathway on breast cancer survival. OncoTarget, 6(35), 37979-94. https://doi.org/10.18632/oncotarget.4991

Vancouver

Jamshidi M, Fagerholm R, Khan S, Aittomäki K, Czene K, Darabi H et al. SNP-SNP interaction analysis of NF-κB signaling pathway on breast cancer survival. OncoTarget. 2015 Nov 10;6(35):37979-94. https://doi.org/10.18632/oncotarget.4991

Author

Jamshidi, Maral ; Fagerholm, Rainer ; Khan, Sofia ; Aittomäki, Kristiina ; Czene, Kamila ; Darabi, Hatef ; Li, Jingmei ; Andrulis, Irene L ; Chang-Claude, Jenny ; Devilee, Peter ; Fasching, Peter A ; Michailidou, Kyriaki ; Bolla, Manjeet K ; Dennis, Joe ; Wang, Qin ; Guo, Qi ; Rhenius, Valerie ; Cornelissen, Sten ; Rudolph, Anja ; Knight, Julia A ; Loehberg, Christian R ; Burwinkel, Barbara ; Marme, Frederik ; Hopper, John L ; Southey, Melissa C ; Bojesen, Stig E ; Flyger, Henrik ; Brenner, Hermann ; Holleczek, Bernd ; Margolin, Sara ; Mannermaa, Arto ; Kosma, Veli-Matti ; Van Dyck, Laurien ; Nevelsteen, Ines ; Couch, Fergus J ; Olson, Janet E ; Giles, Graham G ; McLean, Catriona ; Haiman, Christopher A ; Henderson, Brian E ; Winqvist, Robert ; Pylkäs, Katri ; Tollenaar, Rob A E M ; García-Closas, Montserrat ; Figueroa, Jonine ; Hooning, Maartje J ; Martens, John W M ; Cox, Angela ; Cross, Simon S ; Simard, Jacques ; kConFab Investigators. / SNP-SNP interaction analysis of NF-κB signaling pathway on breast cancer survival. In: OncoTarget. 2015 ; Vol. 6, No. 35. pp. 37979-94.

Bibtex

@article{492853642d0b44e5a2b29716b90659ae,
title = "SNP-SNP interaction analysis of NF-κB signaling pathway on breast cancer survival",
abstract = "In breast cancer, constitutive activation of NF-κB has been reported, however, the impact of genetic variation of the pathway on patient prognosis has been little studied. Furthermore, a combination of genetic variants, rather than single polymorphisms, may affect disease prognosis. Here, in an extensive dataset (n = 30,431) from the Breast Cancer Association Consortium, we investigated the association of 917 SNPs in 75 genes in the NF-κB pathway with breast cancer prognosis. We explored SNP-SNP interactions on survival using the likelihood-ratio test comparing multivariate Cox' regression models of SNP pairs without and with an interaction term. We found two interacting pairs associating with prognosis: patients simultaneously homozygous for the rare alleles of rs5996080 and rs7973914 had worse survival (HRinteraction 6.98, 95% CI=3.3-14.4, P=1.42E-07), and patients carrying at least one rare allele for rs17243893 and rs57890595 had better survival (HRinteraction 0.51, 95% CI=0.3-0.6, P = 2.19E-05). Based on in silico functional analyses and literature, we speculate that the rs5996080 and rs7973914 loci may affect the BAFFR and TNFR1/TNFR3 receptors and breast cancer survival, possibly by disturbing both the canonical and non-canonical NF-κB pathways or their dynamics, whereas, rs17243893-rs57890595 interaction on survival may be mediated through TRAF2-TRAIL-R4 interplay. These results warrant further validation and functional analyses.",
author = "Maral Jamshidi and Rainer Fagerholm and Sofia Khan and Kristiina Aittom{\"a}ki and Kamila Czene and Hatef Darabi and Jingmei Li and Andrulis, {Irene L} and Jenny Chang-Claude and Peter Devilee and Fasching, {Peter A} and Kyriaki Michailidou and Bolla, {Manjeet K} and Joe Dennis and Qin Wang and Qi Guo and Valerie Rhenius and Sten Cornelissen and Anja Rudolph and Knight, {Julia A} and Loehberg, {Christian R} and Barbara Burwinkel and Frederik Marme and Hopper, {John L} and Southey, {Melissa C} and Bojesen, {Stig E} and Henrik Flyger and Hermann Brenner and Bernd Holleczek and Sara Margolin and Arto Mannermaa and Veli-Matti Kosma and {Van Dyck}, Laurien and Ines Nevelsteen and Couch, {Fergus J} and Olson, {Janet E} and Giles, {Graham G} and Catriona McLean and Haiman, {Christopher A} and Henderson, {Brian E} and Robert Winqvist and Katri Pylk{\"a}s and Tollenaar, {Rob A E M} and Montserrat Garc{\'i}a-Closas and Jonine Figueroa and Hooning, {Maartje J} and Martens, {John W M} and Angela Cox and Cross, {Simon S} and Jacques Simard and {kConFab Investigators}",
year = "2015",
month = nov,
day = "10",
doi = "10.18632/oncotarget.4991",
language = "English",
volume = "6",
pages = "37979--94",
journal = "Oncotarget",
issn = "1949-2553",
publisher = "Impact Journals LLC",
number = "35",

}

RIS

TY - JOUR

T1 - SNP-SNP interaction analysis of NF-κB signaling pathway on breast cancer survival

AU - Jamshidi, Maral

AU - Fagerholm, Rainer

AU - Khan, Sofia

AU - Aittomäki, Kristiina

AU - Czene, Kamila

AU - Darabi, Hatef

AU - Li, Jingmei

AU - Andrulis, Irene L

AU - Chang-Claude, Jenny

AU - Devilee, Peter

AU - Fasching, Peter A

AU - Michailidou, Kyriaki

AU - Bolla, Manjeet K

AU - Dennis, Joe

AU - Wang, Qin

AU - Guo, Qi

AU - Rhenius, Valerie

AU - Cornelissen, Sten

AU - Rudolph, Anja

AU - Knight, Julia A

AU - Loehberg, Christian R

AU - Burwinkel, Barbara

AU - Marme, Frederik

AU - Hopper, John L

AU - Southey, Melissa C

AU - Bojesen, Stig E

AU - Flyger, Henrik

AU - Brenner, Hermann

AU - Holleczek, Bernd

AU - Margolin, Sara

AU - Mannermaa, Arto

AU - Kosma, Veli-Matti

AU - Van Dyck, Laurien

AU - Nevelsteen, Ines

AU - Couch, Fergus J

AU - Olson, Janet E

AU - Giles, Graham G

AU - McLean, Catriona

AU - Haiman, Christopher A

AU - Henderson, Brian E

AU - Winqvist, Robert

AU - Pylkäs, Katri

AU - Tollenaar, Rob A E M

AU - García-Closas, Montserrat

AU - Figueroa, Jonine

AU - Hooning, Maartje J

AU - Martens, John W M

AU - Cox, Angela

AU - Cross, Simon S

AU - Simard, Jacques

AU - kConFab Investigators

PY - 2015/11/10

Y1 - 2015/11/10

N2 - In breast cancer, constitutive activation of NF-κB has been reported, however, the impact of genetic variation of the pathway on patient prognosis has been little studied. Furthermore, a combination of genetic variants, rather than single polymorphisms, may affect disease prognosis. Here, in an extensive dataset (n = 30,431) from the Breast Cancer Association Consortium, we investigated the association of 917 SNPs in 75 genes in the NF-κB pathway with breast cancer prognosis. We explored SNP-SNP interactions on survival using the likelihood-ratio test comparing multivariate Cox' regression models of SNP pairs without and with an interaction term. We found two interacting pairs associating with prognosis: patients simultaneously homozygous for the rare alleles of rs5996080 and rs7973914 had worse survival (HRinteraction 6.98, 95% CI=3.3-14.4, P=1.42E-07), and patients carrying at least one rare allele for rs17243893 and rs57890595 had better survival (HRinteraction 0.51, 95% CI=0.3-0.6, P = 2.19E-05). Based on in silico functional analyses and literature, we speculate that the rs5996080 and rs7973914 loci may affect the BAFFR and TNFR1/TNFR3 receptors and breast cancer survival, possibly by disturbing both the canonical and non-canonical NF-κB pathways or their dynamics, whereas, rs17243893-rs57890595 interaction on survival may be mediated through TRAF2-TRAIL-R4 interplay. These results warrant further validation and functional analyses.

AB - In breast cancer, constitutive activation of NF-κB has been reported, however, the impact of genetic variation of the pathway on patient prognosis has been little studied. Furthermore, a combination of genetic variants, rather than single polymorphisms, may affect disease prognosis. Here, in an extensive dataset (n = 30,431) from the Breast Cancer Association Consortium, we investigated the association of 917 SNPs in 75 genes in the NF-κB pathway with breast cancer prognosis. We explored SNP-SNP interactions on survival using the likelihood-ratio test comparing multivariate Cox' regression models of SNP pairs without and with an interaction term. We found two interacting pairs associating with prognosis: patients simultaneously homozygous for the rare alleles of rs5996080 and rs7973914 had worse survival (HRinteraction 6.98, 95% CI=3.3-14.4, P=1.42E-07), and patients carrying at least one rare allele for rs17243893 and rs57890595 had better survival (HRinteraction 0.51, 95% CI=0.3-0.6, P = 2.19E-05). Based on in silico functional analyses and literature, we speculate that the rs5996080 and rs7973914 loci may affect the BAFFR and TNFR1/TNFR3 receptors and breast cancer survival, possibly by disturbing both the canonical and non-canonical NF-κB pathways or their dynamics, whereas, rs17243893-rs57890595 interaction on survival may be mediated through TRAF2-TRAIL-R4 interplay. These results warrant further validation and functional analyses.

U2 - 10.18632/oncotarget.4991

DO - 10.18632/oncotarget.4991

M3 - Journal article

C2 - 26317411

VL - 6

SP - 37979

EP - 37994

JO - Oncotarget

JF - Oncotarget

SN - 1949-2553

IS - 35

ER -

ID: 160866687