Numbers and percentages of cases and controls with a personal history of mood disorders by demographic and behavioral characteristics in the EAGLE Study, Italy, 2002–2005.

<p><b>Abbreviation:</b> EAGLE, Environment And Genetics in Lung cancer Etiology.</p>a<p>Median (inter-quartile range).</p>b<p>“Non-educated” subjects are those who did not complete the elementary school.</p><p><b>Note:</b> Numbers of participants may not sum to total due to missing data.</p

Relative risks and 95% confidence intervals for lung cancer overall and by other medical conditions in the United States Veterans Affairs Inpatient Cohort: White males (n = 3,669,224) with at least one hospital admission between July 1, 1969 and September 30, 1996.

<p><b>Abbreviations:</b> RR, relative risk; CI, confidence interval; COPD, Chronic Obstructive Pulmonary Disease; ICD, International Classification of Disease.</p>a<p>ICD-8 & ICD-9, code 296 which includes depression and bipolar I disease.</p>b<p>Adjusted for number of visits, age, latency, calendar time, and by the stratifying variables (COPD, alcohol and substance dependence and abuse, and schizophrenia) when appropriate.</p>c<p>Percentage of participants with mood disorders within each medical condition.</p>d<p>ICD-8 & ICD-9, codes 490–492.</p>e<p>ICD-8 & ICD-9, codes 291, 303, 305.0, 535.3, 571.0–571.3, 980.0.</p>f<p>ICD-8 & ICD-9, codes 304–305.</p>g<p>ICD-8 & ICD-9, code 295.</p><p><b>Note:</b> Numbers of participants may not sum to total due to missing data.</p

Numbers and percentages of cases and controls with a first-degree relative (mother, father, siblings, or children) with history of mood disorders by demographic and behavioral characteristics in the EAGLE Study, Italy, 2002–2005.

<p><b>Abbreviation:</b> EAGLE, Environment And Genetics in Lung cancer Etiology.</p>a<p>Median (inter-quartile range).</p>b<p>“Non-educated” subjects are those who did not complete the elementary school.</p><p><b>Note:</b> Numbers of participants may not sum to total due to missing data.</p

Odds ratios (95% confidence intervals) of personal or family history of mood disorders among controls (n = 2,046) by mood symptoms and measures of nicotine dependence, EAGLE Study, Italy, 2002–2005.

<p><b>Abbreviations:</b> OR, odds ratio; CI, confidence interval; NA, not applicable; EAGLE, Environment And Genetics in Lung cancer Etiology.</p>a<p>Adjusted ORs for sex, age, residence, education level, marital status, time-weighted mean alcohol consumption (grams/day), smoking status, years smoking regularly, mean cigarettes per day, years since quitting cigarettes, and the interaction between MD and smoking status.</p>b<p>Center for Epidemiologic Studies – Depression.</p>c<p>Hospital Anxiety & Depression Scale.</p>d<p>Fagerström Test for Nicotine Dependence.</p><p><b>Note:</b> Numbers of participants may not sum to total due to missing data.</p

Numbers and percentages of cases and controls, and risk estimates for lung cancer by categories of personal or family history in the EAGLE Study, Italy, 2002–2005.

<p><b>Abbreviations:</b> OR, odds ratio; CI, confidence interval; EAGLE, Environment And Genetics in Lung cancer Etiology.</p>a<p>Adjusted for sex, age and residence.</p>b<p>Adjusted for sex, age, residence, smoking status, years smoking regularly, mean cigarettes per day, years since quitting cigarettes, time weighted mean alcohol consumption (grams/day), education level and marital status.</p><p><b>Note:</b> Numbers of participants may not sum to total due to missing data.</p

Relative risks and 95% confidence intervals for lung cancer overall and by period of discharge from the United States Veterans Affairs Inpatient Cohort: White males with at least one hospital admission between July 1, 1969, and September 30, 1996.

<p><b>Abbreviations:</b> RR, relative risk; CI, confidence interval; COPD, Chronic Obstructive Pulmonary Disease; ICD, International Classification of Disease.</p>a<p>ICD-8 & ICD-9, code 296; which includes depression and bipolar disease.</p>b<p>ICD-8 & ICD-9, codes 291, 303, 305.0, 535.3, 571.0–571.3, 980.0.</p>c<p>ICD-8 & ICD-9, codes 304–305.</p>d<p>ICD-8 & ICD-9, codes 490–492.</p>e<p>ICD-8 & ICD-9, code 295.</p><p><b>Note:</b> Numbers of participants may not sum to total due to missing data.</p

The associations between DNA methylation and somatic mutation signatures based on EAGLE and TCGA data.

<p><b>(A)</b> The number of CpG probes significantly associated with the TNSM and the fractions of various types of point mutations (<i>p</i> < 1.5×10⁻⁷, based on Bonferroni correction). <b>(B)</b> CpG probe cg00042837 was strongly associated with TNSM, the fractions of C→A mutations, C→T mutations, and transversions. Each point represents one sample. The blue line was generated by “lowess,” a nonparametric statistical procedure for nonlinear regression. <b>(C)</b> The enrichment fold change of CpG probes mapping to different categories in the association with somatic point mutation types. “CGI” represents CpG island regions; “NonCGI” includes shore and shelf regions. <b>(D)</b> The enrichment fold change of CpG probes mapping to different gene regions in the association with point somatic mutation types. <b>(E)</b> and <b>(F)</b> show The proportion of identified CpG probes showing positive associations with different somatic point mutation types.</p

Somatic mutations in three LUAD candidate driver genes (<i>POU4F2</i>, <i>ZKSCAN1</i>, and <i>ASEF</i>) in EAGLE, TCGA and Broad Institute studies.

<p>The protein sequences from these three genes are schematically described using grey bars along with their respective structural and functional domains in color-coded blocks. Each mallet represents an independent nonsilent mutation with potential functional relevance in the three studies (the complete list of mutations is reported in <a href="http://www.plosmedicine.org/article/info:doi/10.1371/journal.pmed.1002162#pmed.1002162.s007" target="_blank">S1 Table</a>). Numbers below each sequence representation mark the total length of the transcript, the domain ranges, and the locations of mutations.</p

Distribution of demographic and clinical variables of 101 lung adenocarcinoma patients.

<p>Distribution of demographic and clinical variables of 101 lung adenocarcinoma patients.</p

Mutual exclusivity of driver genes detected in 825 patients combining TCGA, Broad Institute, and EAGLE WES of lung adenocarcinoma.

<p><b>(A)</b> A MEGS with six genes covering 60.3% of patients. Samples without nonsynonymous mutations in these six genes are not shown. Samples labelled as blue carry a nonsynonymous mutation in the gene region, while samples labelled as gray do not carry a synonymous mutation in the gene region. <b>(B)</b> A MEGS with four genes covering 33.3% of patients. Samples without nonsynonymous mutations in these four genes are not shown.</p