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  1. Article ; Online: A systematic scoping review of latent class analysis applied to accelerometry-assessed physical activity and sedentary behavior.

    Kebede, Michael / Howard, Annie Green / Ren, Yumeng / Anuskiewicz, Blake / Di, Chongzhi / Troester, Melissa A / Evenson, Kelly R

    PloS one

    2024  Volume 19, Issue 1, Page(s) e0283884

    Abstract: Background: Latent class analysis (LCA) identifies distinct groups within a heterogeneous population, but its application to accelerometry-assessed physical activity and sedentary behavior has not been systematically explored. We conducted a systematic ... ...

    Abstract Background: Latent class analysis (LCA) identifies distinct groups within a heterogeneous population, but its application to accelerometry-assessed physical activity and sedentary behavior has not been systematically explored. We conducted a systematic scoping review to describe the application of LCA to accelerometry.
    Methods: Comprehensive searches in PubMed, Web of Science, CINHAL, SPORTDiscus, and Embase identified studies published through December 31, 2021. Using Covidence, two researchers independently evaluated inclusion criteria and discrepancies were resolved by consensus. Studies with LCA applied to accelerometry or combined accelerometry/self-reported measures were selected. Data extracted included study characteristics and both accelerometry and LCA methods.
    Results: Of 2555 papers found, 66 full-text papers were screened, and 12 papers (11 cross-sectional, 1 cohort) from 8 unique studies were included. Study sample sizes ranged from 217-7931 (mean 2249, standard deviation 2780). Across 8 unique studies, latent class variables included measures of physical activity (100%) and sedentary behavior (75%). About two-thirds (63%) of the studies used accelerometry only and 38% combined accelerometry and self-report to derive latent classes. The accelerometer-based variables in the LCA model included measures by day of the week (38%), weekday vs. weekend (13%), weekly average (13%), dichotomized minutes/day (13%), sex specific z-scores (13%), and hour-by-hour (13%). The criteria to guide the selection of the final number of classes and model fit varied across studies, including Bayesian Information Criterion (63%), substantive knowledge (63%), entropy (50%), Akaike information criterion (50%), sample size (50%), Bootstrap likelihood ratio test (38%), and visual inspection (38%). The studies explored up to 5 (25%), 6 (38%), or 7+ (38%) classes, ending with 3 (50%), 4 (13%), or 5 (38%) final classes.
    Conclusions: This review explored the application of LCA to physical activity and sedentary behavior and identified areas of improvement for future studies leveraging LCA. LCA was used to identify unique groupings as a data reduction tool, to combine self-report and accelerometry, and to combine different physical activity intensities and sedentary behavior in one LCA model or separate models.
    MeSH term(s) Female ; Male ; Humans ; Sedentary Behavior ; Bayes Theorem ; Cross-Sectional Studies ; Latent Class Analysis ; Accelerometry ; Exercise
    Language English
    Publishing date 2024-01-22
    Publishing country United States
    Document type Systematic Review ; Journal Article
    ZDB-ID 2267670-3
    ISSN 1932-6203 ; 1932-6203
    ISSN (online) 1932-6203
    ISSN 1932-6203
    DOI 10.1371/journal.pone.0283884
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: Burden of lymphedema in long-term breast cancer survivors by race and age.

    Ren, Yumeng / Kebede, Michael A / Ogunleye, Adeyemi A / Emerson, Marc A / Evenson, Kelly R / Carey, Lisa A / Hayes, Sandra C / Troester, Melissa A

    Cancer

    2022  Volume 128, Issue 23, Page(s) 4119–4128

    Abstract: Background: Risk assessment for breast cancer-related lymphedema has emphasized upper-limb symptoms and treatment-related risk factors. This article examined breast cancer-related lymphedema after surgery, overall and in association with broader ... ...

    Abstract Background: Risk assessment for breast cancer-related lymphedema has emphasized upper-limb symptoms and treatment-related risk factors. This article examined breast cancer-related lymphedema after surgery, overall and in association with broader demographic and clinical features.
    Methods: The Carolina Breast Cancer Study phase 3 followed participants for breast cancer-related lymphedema from baseline (on average, 5 months after breast cancer diagnosis) to 7 years after diagnosis. Among 2645 participants, 552 self-reported lymphedema cases were identified. Time-to-lymphedema curves and inverse probability weighted conditional Cox proportional hazards model were used to evaluate whether demographics and clinical features were associated with breast cancer-related lymphedema.
    Results: Point prevalence of breast cancer-related lymphedema was 6.8% at baseline, and 19.9% and 23.8% at 2 and 7 years after diagnosis, respectively. Most cases had lymphedema in the arm (88%-93%), whereas 14% to 27% presented in the trunk and/or breast. Beginning approximately 10 months after diagnosis, younger Black women had the highest risk of breast cancer-related lymphedema and older non-Black women had the lowest risk. Positive lymph node status, larger tumor size (>5 cm), and estrogen receptor-negative breast cancer, as well as established risk factors such as higher body mass index, removal of more than five lymph nodes, mastectomy, chemotherapy, and radiation therapy, were significantly associated with increased hazard (1.5- to 3.5-fold) of lymphedema.
    Conclusions: Findings highlight that hazard of breast cancer-related lymphedema differs by demographic characteristics and clinical features. These factors could be used to identify those at greatest need of lymphedema prevention and early intervention.
    Lay summary: In this study, the aim was to investigate breast cancer-related lymphedema (BCRL) burden. This study found that risk of BCRL differs by race, age, and other characteristics.
    MeSH term(s) Female ; Humans ; Breast Cancer Lymphedema/epidemiology ; Breast Cancer Lymphedema/ethnology ; Breast Cancer Lymphedema/etiology ; Breast Neoplasms/complications ; Breast Neoplasms/ethnology ; Breast Neoplasms/surgery ; Cancer Survivors/statistics & numerical data ; Lymph Node Excision/adverse effects ; Mastectomy/adverse effects ; Risk Factors ; Racial Groups/statistics & numerical data ; Age Distribution
    Language English
    Publishing date 2022-10-12
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
    ZDB-ID 1429-1
    ISSN 1097-0142 ; 0008-543X ; 1934-662X
    ISSN (online) 1097-0142
    ISSN 0008-543X ; 1934-662X
    DOI 10.1002/cncr.34489
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article ; Online: Tracing Lung Cancer Risk Factors Through Mutational Signatures in Never-Smokers.

    Landi, Maria Teresa / Synnott, Naoise C / Rosenbaum, Jennifer / Zhang, Tongwu / Zhu, Bin / Shi, Jianxin / Zhao, Wei / Kebede, Michael / Sang, Jian / Choi, Jiyeon / Mendoza, Laura / Pacheco, Marwil / Hicks, Belynda / Caporaso, Neil E / Abubakar, Mustapha / Gordenin, Dmitry A / Wedge, David C / Alexandrov, Ludmil B / Rothman, Nathaniel /
    Lan, Qing / Garcia-Closas, Montserrat / Chanock, Stephen J

    American journal of epidemiology

    2021  Volume 190, Issue 6, Page(s) 962–976

    Abstract: Epidemiologic studies often rely on questionnaire data, exposure measurement tools, and/or biomarkers to identify risk factors and the underlying carcinogenic processes. An emerging and promising complementary approach to investigate cancer etiology is ... ...

    Abstract Epidemiologic studies often rely on questionnaire data, exposure measurement tools, and/or biomarkers to identify risk factors and the underlying carcinogenic processes. An emerging and promising complementary approach to investigate cancer etiology is the study of somatic "mutational signatures" that endogenous and exogenous processes imprint on the cellular genome. These signatures can be identified from a complex web of somatic mutations thanks to advances in DNA sequencing technology and analytical algorithms. This approach is at the core of the Sherlock-Lung study (2018-ongoing), a retrospective case-only study of over 2,000 lung cancers in never-smokers (LCINS), using different patterns of mutations observed within LCINS tumors to trace back possible exposures or endogenous processes. Whole genome and transcriptome sequencing, genome-wide methylation, microbiome, and other analyses are integrated with data from histological and radiological imaging, lifestyle, demographic characteristics, environmental and occupational exposures, and medical records to classify LCINS into subtypes that could reveal distinct risk factors. To date, we have received samples and data from 1,370 LCINS cases from 17 study sites worldwide and whole-genome sequencing has been completed on 1,257 samples. Here, we present the Sherlock-Lung study design and analytical strategy, also illustrating some empirical challenges and the potential for this approach in future epidemiologic studies.
    MeSH term(s) Causality ; DNA Mutational Analysis/methods ; Genetic Predisposition to Disease/epidemiology ; Humans ; Lung Neoplasms/genetics ; Retrospective Studies ; Risk Assessment/methods ; Risk Factors ; Whole Genome Sequencing/methods
    Language English
    Publishing date 2021-03-12
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Intramural
    ZDB-ID 2937-3
    ISSN 1476-6256 ; 0002-9262
    ISSN (online) 1476-6256
    ISSN 0002-9262
    DOI 10.1093/aje/kwaa234
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article ; Online: The self-curing phenomenon of schistosome infection in rhesus macaques: insight from in vitro studies.

    Torben, Workineh / Molehin, Adebayo J / Blair, Robert V / Kenway, Carys / Shiro, Faith / Roslyn, Davis / Chala, Bayissa / Gutu, Dereje / Kebede, Michael A / Ahmad, Gul / Zhang, Weidong / Aye, Pyone / Mohan, Mahesh / Lackner, Andrew / Siddiqui, Afzal A

    Annals of the New York Academy of Sciences

    2017  Volume 1408, Issue 1, Page(s) 79–89

    Abstract: A reduction in the burden of schistosomiasis is potentially achievable by integrating a schistosomiasis vaccine with current control measures. Here, we determine parasite-specific in vitro responses of B, T, and NK cells from naive uninfected rhesus ... ...

    Abstract A reduction in the burden of schistosomiasis is potentially achievable by integrating a schistosomiasis vaccine with current control measures. Here, we determine parasite-specific in vitro responses of B, T, and NK cells from naive uninfected rhesus macaques to Schistosoma mansoni (Sm) egg (SmEA) and worm antigen (SmWA) preparations isolated from infected baboons. Pronounced B cell responses to SmEA and NK cell responses to both SmEA and SmWA were observed. High levels of IL-2 and IL-21 responses against Sm antigens were observed in T and non-T cells of lymph nodes (LNs) and gut lamina propria-derived lymphocytes (LPLs). Data analysis showed multifunctionality of LN-derived CD4
    MeSH term(s) Animals ; Antigens, Helminth/immunology ; B-Lymphocytes/immunology ; CD4-Positive T-Lymphocytes/immunology ; CD8-Positive T-Lymphocytes/immunology ; Interleukin-2/immunology ; Interleukin-2/metabolism ; Interleukins/immunology ; Interleukins/metabolism ; Killer Cells, Natural/immunology ; Lymph Nodes/immunology ; Macaca mulatta ; Monkey Diseases/immunology ; Monkey Diseases/parasitology ; Papio ; Remission, Spontaneous ; Schistosoma mansoni/immunology ; Schistosoma mansoni/physiology ; Schistosomiasis mansoni/immunology ; Schistosomiasis mansoni/parasitology ; Schistosomiasis mansoni/veterinary
    Chemical Substances Antigens, Helminth ; Interleukin-2 ; Interleukins ; interleukin-21 (MKM3CA6LT1)
    Language English
    Publishing date 2017-08-30
    Publishing country United States
    Document type Journal Article
    ZDB-ID 211003-9
    ISSN 1749-6632 ; 0077-8923
    ISSN (online) 1749-6632
    ISSN 0077-8923
    DOI 10.1111/nyas.13565
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  5. Article ; Online: Genomic and evolutionary classification of lung cancer in never smokers.

    Zhang, Tongwu / Joubert, Philippe / Ansari-Pour, Naser / Zhao, Wei / Hoang, Phuc H / Lokanga, Rachel / Moye, Aaron L / Rosenbaum, Jennifer / Gonzalez-Perez, Abel / Martínez-Jiménez, Francisco / Castro, Andrea / Muscarella, Lucia Anna / Hofman, Paul / Consonni, Dario / Pesatori, Angela C / Kebede, Michael / Li, Mengying / Gould Rothberg, Bonnie E / Peneva, Iliana /
    Schabath, Matthew B / Poeta, Maria Luana / Costantini, Manuela / Hirsch, Daniela / Heselmeyer-Haddad, Kerstin / Hutchinson, Amy / Olanich, Mary / Lawrence, Scott M / Lenz, Petra / Duggan, Maire / Bhawsar, Praphulla M S / Sang, Jian / Kim, Jung / Mendoza, Laura / Saini, Natalie / Klimczak, Leszek J / Islam, S M Ashiqul / Otlu, Burcak / Khandekar, Azhar / Cole, Nathan / Stewart, Douglas R / Choi, Jiyeon / Brown, Kevin M / Caporaso, Neil E / Wilson, Samuel H / Pommier, Yves / Lan, Qing / Rothman, Nathaniel / Almeida, Jonas S / Carter, Hannah / Ried, Thomas / Kim, Carla F / Lopez-Bigas, Nuria / Garcia-Closas, Montserrat / Shi, Jianxin / Bossé, Yohan / Zhu, Bin / Gordenin, Dmitry A / Alexandrov, Ludmil B / Chanock, Stephen J / Wedge, David C / Landi, Maria Teresa

    Nature genetics

    2021  Volume 53, Issue 9, Page(s) 1348–1359

    Abstract: Lung cancer in never smokers (LCINS) is a common cause of cancer mortality but its genomic landscape is poorly characterized. Here high-coverage whole-genome sequencing of 232 LCINS showed 3 subtypes defined by copy number aberrations. The dominant ... ...

    Abstract Lung cancer in never smokers (LCINS) is a common cause of cancer mortality but its genomic landscape is poorly characterized. Here high-coverage whole-genome sequencing of 232 LCINS showed 3 subtypes defined by copy number aberrations. The dominant subtype (piano), which is rare in lung cancer in smokers, features somatic UBA1 mutations, germline AR variants and stem cell-like properties, including low mutational burden, high intratumor heterogeneity, long telomeres, frequent KRAS mutations and slow growth, as suggested by the occurrence of cancer drivers' progenitor cells many years before tumor diagnosis. The other subtypes are characterized by specific amplifications and EGFR mutations (mezzo-forte) and whole-genome doubling (forte). No strong tobacco smoking signatures were detected, even in cases with exposure to secondhand tobacco smoke. Genes within the receptor tyrosine kinase-Ras pathway had distinct impacts on survival; five genomic alterations independently doubled mortality. These findings create avenues for personalized treatment in LCINS.
    MeSH term(s) Adult ; Aged ; Aged, 80 and over ; DNA Copy Number Variations/genetics ; ErbB Receptors/genetics ; Female ; Genome/genetics ; Genome-Wide Association Study ; Humans ; Lung Neoplasms/genetics ; Lung Neoplasms/pathology ; Male ; Middle Aged ; Neoplastic Stem Cells/pathology ; Non-Smokers/statistics & numerical data ; Proto-Oncogene Proteins p21(ras)/genetics ; Receptors, Androgen/genetics ; Risk Factors ; Smoking/genetics ; Ubiquitin-Activating Enzymes/genetics ; Whole Genome Sequencing ; Young Adult
    Chemical Substances AR protein, human ; KRAS protein, human ; Receptors, Androgen ; UBA1 protein, human ; EGFR protein, human (EC 2.7.10.1) ; ErbB Receptors (EC 2.7.10.1) ; Proto-Oncogene Proteins p21(ras) (EC 3.6.5.2) ; Ubiquitin-Activating Enzymes (EC 6.2.1.45)
    Language English
    Publishing date 2021-09-06
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, N.I.H., Intramural ; Research Support, Non-U.S. Gov't
    ZDB-ID 1108734-1
    ISSN 1546-1718 ; 1061-4036
    ISSN (online) 1546-1718
    ISSN 1061-4036
    DOI 10.1038/s41588-021-00920-0
    Database MEDical Literature Analysis and Retrieval System OnLINE

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