January 2021 EGRP Cancer Epidemiology News

EGRP Cancer Epidemiology News


Announcing EGRP’s 2020 Research Highlights!

Each year, the Epidemiology and Genomics Research Program (EGRP) Research Highlights showcases a selection of research publications supported by grants in the EGRP grant portfolio. EGRP asked NCI grantees with projects supported by current or recently-closed grants (i.e., grants that ended in 2019 or 2020) administered by EGRP to select and submit a research publication resulting from the grant. Submitted articles had to include an acknowledgement of the grant funding and comply with all NIH data sharing policies.

Below are the final selections for EGRP's 2020 Research Highlights, listed in alphabetical order by first author. The star icon * is for publications that deposited data in a controlled-access or publicly accessible data repository (e.g., dbGaP).

* Protein-altering germline mutations implicate novel genes related to lung cancer development

Ji X, Mukherjee S, Landi MT, et al. Protein-altering germline mutations implicate novel genes related to lung cancer development. Nat Commun. 2020 May 11;11(1):2220.

* Epigenome-wide association study using prediagnostic bloods identifies new genomic regions associated with pancreatic cancer risk

Michaud DS, Ruan M, Koestler DC, et al. Epigenome-wide association study using prediagnostic bloods identifies new genomic regions associated with pancreatic cancer risk. JNCI Cancer Spectr. 2020 May 19;4(5):pkaa041.

* Landscape of somatic single nucleotide variants and indels in colorectal cancer and impact on survival

Zaidi SH, Harrison TA, Phipps AI, et al. Landscape of somatic single nucleotide variants and indels in colorectal cancer and impact on survival. Nat Commun. 2020 Jul 20;11(1):3644.

Computationally derived image signature of stromal morphology is prognostic of prostate cancer recurrence following prostatectomy in African American patients

Association of body mass index with colorectal cancer risk by genome-wide variants

Campbell PT, Lin Y, Bien SA, et al. Association of body mass index with colorectal cancer risk by genome-wide variants. J Natl Cancer Inst. 2021;113(1):38-47.

Significance of BRCA2 and RB1 co-loss in aggressive prostate cancer progression

Chakraborty G, Armenia J, Mazzu YZ, et al. Significance of BRCA2 and RB1 co-loss in aggressive prostate cancer progression. Clin Cancer Res. 2020;26(8):2047-2064. doi:10.1158/1078-0432.CCR-19-1570

Germline 16p11.2 microdeletion predisposes to neuroblastoma

Egolf LE, Vaksman Z, Lopez G, et al. Germline 16p11.2 microdeletion predisposes to neuroblastoma. Am J Hum Genet. 2019 Sep 5;105(3):658-668.

Inferior cancer survival for men with localized high-grade prostate cancer but low prostate-specific antigen

Fankhauser CD, Penney KL, Gonzalez-Feliciano AG, et al. Inferior cancer survival for men with localized high-grade prostate cancer but low prostate-specific antigen. Eur Urol. 2020;78(4):637-639.

Postdiagnostic fruit and vegetable consumption and breast cancer survival: prospective analyses in the Nurses' Health Studies

Post-diagnostic dietary glycemic index, glycemic load, dietary insulin index, and insulin load and breast cancer survival

Farvid MS, Tamimi RM, Poole EM, et al. Post-diagnostic dietary glycemic index, glycemic load, dietary insulin index, and insulin load and breast cancer survival [published online ahead of print, 2020 Nov 20]. Cancer Epidemiol Biomarkers Prev. 2020;cebp.0764.2020.

Associations of plasma trimethylamine N-oxide, choline, carnitine, and betaine with inflammatory and cardiometabolic risk biomarkers and the fecal microbiome in the Multiethnic Cohort Adiposity Phenotype Study

Tumour budding, poorly differentiated clusters, and T-cell response in colorectal cancer

Fujiyoshi K, Väyrynen JP, Borowsky J, et al. Tumour budding, poorly differentiated clusters, and T-cell response in colorectal cancer. EBioMedicine. 2020;57:102860.

Use of spiked normalizers to more precisely quantify tumor markers and viral genomes by massive parallel sequencing of plasma DNA

A custom genotyping array reveals population-level heterogeneity for the genetic risks of prostate cancer and other cancers in Africa

Ovarian cancer risk variants are enriched in histotype-specific enhancers and disrupt transcription factor binding sites

Tumor mutational load predicts time to first treatment in chronic lymphocytic leukemia (CLL) and monoclonal B-cell lymphocytosis beyond the CLL international prognostic index

Association of germline genetic testing results with locoregional and systemic therapy in patients with breast cancer

Circulating biomarker score for visceral fat and risks of incident colorectal and postmenopausal breast cancer: the Multiethnic Cohort Adiposity Phenotype Study

Le Marchand L, Wilkens LR, Castelfranco AM, et al. Circulating biomarker score for visceral fat and risks of incident colorectal and postmenopausal breast cancer: the Multiethnic Cohort Adiposity Phenotype Study. Cancer Epidemiol Biomarkers Prev. 2020;29(5):966-973.

The effect of tobacco smoking differs across indices of DNA methylation-based aging in an African American sample: DNA methylation-based indices of smoking capture these effects

Automatic classification and segmentation of single-molecule fluorescence time traces with deep learning

Li J, Zhang L, Johnson-Buck A, Walter NG. Automatic classification and segmentation of single-molecule fluorescence time traces with deep learning. Nat Commun. 2020 Nov 17;11(1):5833.

Healthy lifestyle and life expectancy free of cancer, cardiovascular disease, and type 2 diabetes: prospective cohort study

Somatic structural variation targets neurodevelopmental genes and identifies SHANK2 as a tumor suppressor in neuroblastoma

Total body irradiation and risk of breast cancer after blood or marrow transplantation: a Blood or Marrow Transplantation Survivor Study report

Contribution of germline predisposition gene mutations to breast cancer risk in African American women

Palmer JR, Polley EC, Hu C, et al. Contribution of germline predisposition gene mutations to breast cancer risk in African American women. J Natl Cancer Inst. 2020;112(12):1213-1221.

Racial differences in population attributable risk for epithelial ovarian cancer in the OCWAA Consortium

Peres LC, Bethea TN, Camacho TF, et al. Racial differences in population attributable risk for epithelial ovarian cancer in the OCWAA Consortium. J Natl Cancer Inst. 2020 Nov 30:djaa188.

Can dietary self-reports usefully complement blood concentrations for estimation of micronutrient intake and chronic disease associations?

Prentice RL, Pettinger M, Neuhouser ML, et al. Can dietary self-reports usefully complement blood concentrations for estimation of micronutrient intake and chronic disease associations? Am J Clin Nutr. 2020 Jul 1;112(1):168-179.

Patterns of cancer family history and genetic counseling eligibility among African Americans with breast, prostate, lung, and colorectal cancers: A Detroit Research on Cancer Survivors cohort study

Identification of 31 loci for mammographic density phenotypes and their associations with breast cancer risk

Sieh W, Rothstein JH, Klein RJ, et al. Identification of 31 loci for mammographic density phenotypes and their associations with breast cancer risk. Nat Commun. 2020 Oct 9;11(1):5116.

Primary HPV and molecular cervical cancer screening in US women living with HIV

Strickler HD, Keller MJ, Hessol NA, et al. Primary HPV and molecular cervical cancer screening in US women living with HIV [published online ahead of print, 2020 Sep 3]. Clin Infect Dis. 2020;ciaa1317.

DeepMILO: a deep learning approach to predict the impact of non-coding sequence variants on 3D chromatin structure

Trieu T, Martinez-Fundichely A, Khurana E. DeepMILO: a deep learning approach to predict the impact of non-coding sequence variants on 3D chromatin structure. Genome Biol. 2020;21(1):79. Published 2020 Mar 26.

Cervicovaginal microbiome and natural history of HPV in a longitudinal study

Usyk M, Zolnik CP, Castle PE, et al. Cervicovaginal microbiome and natural history of HPV in a longitudinal study. PLoS Pathog. 2020 Mar;16(3): e1008376

The prognostic role of macrophage polarization in the colorectal cancer microenvironment

Väyrynen JP, Haruki K, Lau MC, et al. The prognostic role of macrophage polarization in the colorectal cancer microenvironment. Cancer Immunol Res. 2021;9(1):8-19.

Dysfunctional epigenetic aging of the normal colon and colorectal cancer risk

Wang T, Madden SK, Luebeck GE, et al. Dysfunctional epigenetic aging of the normal colon and colorectal cancer risk. Clin Epigenetics. 2020 Jan 3;12(1):5.

Association of known melanoma risk factors with primary melanoma of the scalp and neck

Wood RP, Heyworth JS, McCarthy NS, et al. Association of known melanoma risk factors with primary melanoma of the scalp and neck. Cancer Epidemiol Biomarkers Prev. 2020;29(11):2203-2210.

Identification of gene-environment interactions with marginal penalization

Zhang S, Xue Y, Zhang Q, Ma C, Wu M, Ma S. Identification of gene-environment interactions with marginal penalization. Genet Epidemiol. 2020;44(2):159-196.

Comprehensive assessment of diet quality and risk of precursors of early-onset colorectal cancer

Zheng X, Hur J, Nguyen LH, et al. Comprehensive assessment of diet quality and risk of precursors of early-onset colorectal cancer. J Natl Cancer Inst. 2020 Nov 2: djaa164.

Funding Opportunities

  • Nutrition for Precision Health, powered by the All of Us Research Program
    • Artificial Intelligence for Multimodal Data Modeling and Bioinformatics Center (U54, Clinical Trial Not Allowed)
    • Metabolomics and Clinical Assays Center (U24, Clinical Trial Not Allowed)
    • Microbiome and Metagenomics Center (U24, Clinical Trial Not Allowed)
    • Dietary Assessment Center (U24, Clinical Trial Optional)
    • Clinical Centers (UG1, Clinical Trial Required)
    • Research Coordinating Center (U24, Clinical Trial Not Allowed)
  • Addressing the Etiology of Health Disparities and Health Advantages Among Immigrant Populations (R01, Clinical Trial Not Allowed)
  • Notice of Special Interest: Tailoring Follow-Up Care for Survivors Using Risk-Stratified Pathways (NOT-CA-21-019)
  • Notice of Special Interest: Leveraging Population-based Cancer Registry Data to Study Health Disparities (NOT-CA-21-020)
  • Notice of Special Interest: Innovative Molecular Analysis Technologies for Low-Resource Settings Globally (NOT-CA-21-025)
  • Notice of Intent to Publish a Funding Opportunity Announcement for Maximizing the Scientific Value of Existing Biospecimen Collections (NOT-OD-21-044)

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