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https://www.readbyqxmd.com/read/28339791/bridg-a-domain-information-model-for-translational-and-clinical-protocol-driven-research
#1
Lauren B Becnel, Smita Hastak, Wendy Ver Hoef, Robert P Milius, MaryAnn Slack, Diane Wold, Michael L Glickman, Boris Brodsky, Charles Jaffe, Rebecca Kush, Edward Helton
Background: It is critical to integrate and analyze data from biological, translational, and clinical studies with data from health systems; however, electronic artifacts are stored in thousands of disparate systems that are often unable to readily exchange data. Objective: To facilitate meaningful data exchange, a model that presents a common understanding of biomedical research concepts and their relationships with health care semantics is required. The Biomedical Research Integrated Domain Group (BRIDG) domain information model fulfills this need...
February 26, 2017: Journal of the American Medical Informatics Association: JAMIA
https://www.readbyqxmd.com/read/28338983/multi-site-clinical-assessment-of-myalgic-encephalomyelitis-chronic-fatigue-syndrome-mcam-design-and-implementation-of-a-prospective-retrospective-rolling-cohort-study
#2
Elizabeth R Unger, Jin-Mann S Lin, Hao Tian, Benjamin H Natelson, Gudrun Lange, Diana Vu, Michelle Blate, Nancy G Klimas, Elizabeth G Balbin, Lucinda Bateman, Ali Allen, Charles W Lapp, Wendy Springs, Andreas M Kogelnik, Catrina C Phan, Joan Danver, Richard N Podell, Trisha Fitzpatrick, Daniel L Peterson, C Gunnar Gottschalk, Mangalathu S Rajeevan
In the Multi-Site Clinical Assessment of Myalgic Encephalomyelitis/Chronic Fatigue Syndrome (MCAM), we relied on expert clinician diagnoses to enroll patients from 7 specialty clinics in the United States in order to perform a systematic collection of data on measures of myalgic encephalomyelitis (ME)/chronic fatigue syndrome (CFS). Healthy persons and those with other illnesses that share some features with ME/CFS were enrolled in comparison groups. The major objectives were to: 1) use standardized questionnaires to measure illness domains of ME/CFS and to evaluate patient heterogeneity overall and between clinics; 2) describe the course of illness, identify the measures that best correlate with meaningful clinical differences, and assess the performances of questionnaires as patient/person-reported outcome measures; 3) describe prescribed medications, orders for laboratory and other tests, and management tools used by expert clinicians to care for persons with ME/CFS; 4) collect biospecimens for future hypothesis testing and for evaluation of morning cortisol profiles; and 5) identify measures that best distinguish persons with ME/CFS from those in the comparison groups and detect subgroups of persons with ME/CFS who may have different underlying causes...
March 17, 2017: American Journal of Epidemiology
https://www.readbyqxmd.com/read/28338350/consensus-driven-development-of-a-terminology-for-biobanking-the-duke-experience
#3
Helena Ellis, Mary-Beth Joshi, Aenoch J Lynn, Anita Walden
Biobanking at Duke University has existed for decades and has grown over time in silos and based on specialized needs, as is true with most biomedical research centers. These silos developed informatics systems to support their own individual requirements, with no regard for semantic or syntactic interoperability. Duke undertook an initiative to implement an enterprise-wide biobanking information system to serve its many diverse biobanking entities. A significant part of this initiative was the development of a common terminology for use in the commercial software platform...
March 24, 2017: Biopreservation and Biobanking
https://www.readbyqxmd.com/read/28338345/challenges-and-driving-forces-for-business-plans-in-biobanking
#4
Tanja Macheiner, Berthold Huppertz, Michaela Bayer, Karine Sargsyan
BACKGROUND: Due to increased utilization of biospecimens for research and emergence of new technologies, the availability and quality of biospecimens and their collection are coming more and more into focus. However, the long-term economic situation of biobanks is still mostly unclear. Also, the common sustainable utilization of various international biobanks is challenging due to local differences in sample processing, law and ethics. AIM: This article discusses possible strategies to achieve a sustainable utilization of biospecimens as part of the business plan of biobanks...
March 24, 2017: Biopreservation and Biobanking
https://www.readbyqxmd.com/read/28333795/diagnostic-tests-for-evaluation-of-stillbirth-results-from-the-stillbirth-collaborative-research-network
#5
Jessica M Page, Lauren Christiansen-Lindquist, Vanessa Thorsten, Corette B Parker, Uma M Reddy, Donald J Dudley, George R Saade, Donald Coustan, Carol J Rowland Hogue, Deborah Conway, Radek Bukowski, Halit Pinar, Cara C Heuser, Karen J Gibbins, Robert L Goldenberg, Robert M Silver
OBJECTIVE: To estimate the usefulness of each diagnostic test in the work-up for potential causes of stillbirth. METHODS: A secondary analysis of 512 stillbirths enrolled in the Stillbirth Collaborative Research Network from 2006 to 2008 was performed. The Stillbirth Collaborative Research Network was a multisite, geographically, racially, and ethnically diverse, population-based study of stillbirth in the United States. Participants underwent standardized evaluations that included maternal interview, medical record abstraction, biospecimen collection, fetal autopsy, and placental pathology...
April 2017: Obstetrics and Gynecology
https://www.readbyqxmd.com/read/28302555/development-of-bioinformatics-infrastructure-for-genomics-research-in-h3africa
#6
Nicola J Mulder, Ezekiel Adebiyi, Marion Adebiyi, Seun Adeyemi, Azza Ahmed, Rehab Ahmed, Bola Akanle, Mohamed Alibi, Don L Armstrong, Shaun Aron, Efejiro Ashano, Shakuntala Baichoo, Alia Benkahla, David K Brown, Emile R Chimusa, Faisal M Fadlelmola, Dare Falola, Segun Fatumo, Kais Ghedira, Amel Ghouila, Scott Hazelhurst, Iunu Isewon, Segun Jung, Samar Kamal Kassim, Jonathan K Kayondo, Mamana Mbiyavanga, Ayton Meintjes, Somia Mohammed, Abayomi Mosaku, Ahmed Moussa, Mustafa Muhammd, Zahra Mungloo-Dilmohamud, Oyekanmi Nashiru, Trust Odia, Adaobi Okafor, Olaleye Oladipo, Victor Osamor, Jellili Oyelade, Khalid Sadki, Samson Pandam Salifu, Jumoke Soyemi, Sumir Panji, Fouzia Radouani, Oussama Souiai, Özlem Tastan Bishop
BACKGROUND: Although pockets of bioinformatics excellence have developed in Africa, generally, large-scale genomic data analysis has been limited by the availability of expertise and infrastructure. H3ABioNet, a pan-African bioinformatics network, was established to build capacity specifically to enable H3Africa (Human Heredity and Health in Africa) researchers to analyze their data in Africa. Since the inception of the H3Africa initiative, H3ABioNet's role has evolved in response to changing needs from the consortium and the African bioinformatics community...
March 13, 2017: Global Heart
https://www.readbyqxmd.com/read/28300421/the-state-of-cloud-based-biospecimen-and-biobank-data-management-tools
#7
Shonali Paul, Aditi Gade, Sumani Mallipeddi
Biobanks are critical for collecting and managing high-quality biospecimens from donors with appropriate clinical annotation. The high-quality human biospecimens and associated data are required to better understand disease processes. Therefore, biobanks have become an important and essential resource for healthcare research and drug discovery. However, collecting and managing huge volumes of data (biospecimens and associated clinical data) necessitate that biobanks use appropriate data management solutions that can keep pace with the ever-changing requirements of research...
March 16, 2017: Biopreservation and Biobanking
https://www.readbyqxmd.com/read/28295287/design-considerations-for-identifying-breast-cancer-risk-factors-in-a-population-based-study-in-africa
#8
Louise A Brinton, Baffour Awuah, Joe Nat Clegg-Lamptey, Beatrice Wiafe-Addai, Daniel Ansong, Kofi M Nyarko, Seth Wiafe, Joel Yarney, Richard Biritwum, Michelle Brotzman, Andrew A Adjei, Ernest Adjei, Francis Aitpillah, Lawrence Edusei, Florence Dedey, Sarah J Nyante, Joseph Oppong, Ernest Osei-Bonsu, Nicholas Titiloye, Verna Vanderpuye, Emma Brew Abaidoo, Bernard Arhin, Isaac Boakye, Margaret Frempong, Naomi Ohene Oti, Victoria Okyne, Jonine D Figueroa
Although breast cancer is becoming more prevalent in Africa, few epidemiologic studies have been undertaken and appropriate methodologic approaches remain uncertain. We therefore conducted a population-based case-control study in Accra and Kumasi, Ghana, enrolling 2,202 women with lesions suspicious for breast cancer and 2,161 population controls. Biopsy tissue for cases prior to neoadjuvant therapy (if given), blood, saliva and fecal samples were sought for study subjects. Response rates, risk factor prevalences, and odds ratios (OR) for established breast cancer risk factors were calculated...
March 13, 2017: International Journal of Cancer. Journal International du Cancer
https://www.readbyqxmd.com/read/28287583/a-rapid-filter-insert-based-3d-culture-system-for-primary-prostate-cell-differentiation
#9
Lucas Tricoli, Deborah L Berry, Chris Albanese
Conditionally reprogrammed cells (CRCs) provide a sustainable method for primary cell culture and the ability to develop extensive "living biobanks" of patient derived cell lines. For many types of epithelial cells, various three dimensional (3D) culture approaches have been described that support an improved differentiated state. While CRCs retain their lineage commitment to the tissue from which they are isolated, they fail to express many of the differentiation markers associated with the tissue of origin when grown under normal two dimensional (2D) culture conditions...
February 13, 2017: Journal of Visualized Experiments: JoVE
https://www.readbyqxmd.com/read/28277368/diagnostic-tests-for-evaluation-of-stillbirth-stillbirth-collaborative-research-network
#10
Jessica M Page, Lauren Christiansen-Lindquist, Vanessa Thorsten, Corette B Parker, Uma M Reddy, Donald J Dudley, George R Saade, Donald Coustan, Carol J Rowland Hogue, Deborah Conway, Radek Bukowski, Halit Pinar, Cara C Heuser, Karen J Gibbins, Robert L Goldenberg, Robert M Silver
OBJECTIVE: To estimate the usefulness of each diagnostic test in the work-up for potential causes of stillbirth. METHODS: A secondary analysis of 512 stillbirths enrolled in the Stillbirth Collaborative Research Network from 2006 to 2008 was performed. The Stillbirth Collaborative Research Network was a multisite, geographically, racially, and ethnically diverse, population-based study of stillbirth in the United States. Participants underwent standardized evaluations that included maternal interview, medical record abstraction, biospecimen collection, fetal autopsy, and placental pathology...
March 6, 2017: Obstetrics and Gynecology
https://www.readbyqxmd.com/read/28270385/revised-common-rule-allows-broad-consent
#11
(no author information available yet)
The U.S. Department of Health and Human Services has revised the Common Rule governing the protection of patients who donate biospecimens for research. The final rule eliminates a controversial proposal that would have required researchers to obtain renewed consent for use of donated samples beyond their original purpose.
March 7, 2017: Cancer Discovery
https://www.readbyqxmd.com/read/28238887/coenzyme-a-thioester-formation-of-11-and-15-oxo-eicosatetraenoic-acid
#12
Clementina Mesaros, Alejandro D Arroyo, Ian A Blair, Nathaniel W Snyder
Release of arachidonic acid (AA) by cytoplasmic phospholipase A2 (cPLA2), followed by metabolism through cyclooxygenase-2 (COX-2) and 15-hydroxyprostaglandin dehydrogenase (15-PGDH), results in the formation of the eicosanoids 11-oxo- and 15-oxo-eicosatetraenoic acid (oxo-ETE). Both 11-oxo- and 15-oxo-ETE have been identified in human biospecimens but their function and further metabolism is poorly described. The oxo-ETEs contain an α,β-unsaturated ketone and a free carboxyclic acid, and thus may form Michael adducts with a nucleophile or a thioester with the free thiol of Coenzyme A (CoA)...
February 24, 2017: Prostaglandins & Other Lipid Mediators
https://www.readbyqxmd.com/read/28212415/aflatoxin-exposure-during-the-first-36-months-of-life-was-not-associated-with-impaired-growth-in-nepalese-children-an-extension-of-the-mal-ed-study
#13
Nicole J Mitchell, Hui-Husan Hsu, Ram Krishna Chandyo, Binob Shrestha, Ladaporn Bodhidatta, Yu-Kang Tu, Yun-Yun Gong, Patricia A Egner, Manjeswori Ulak, John D Groopman, Felicia Wu
Exposure to aflatoxin, a mycotoxin common in many foods, has been associated with child growth impairment in sub-Saharan Africa. To improve our understanding of growth impairment in relation to aflatoxin and other risk factors, we assessed biospecimens collected in Nepalese children at 15, 24, and 36 months of age for aflatoxin exposure. Children (N = 85) enrolled in the Bhaktapur, Nepal MAL-ED study encompassed the cohort analysed in this study. Exposure was assessed through a plasma biomarker of aflatoxin exposure: the AFB1-lysine adduct...
2017: PloS One
https://www.readbyqxmd.com/read/28208263/visualization-quantification-and-alignment-of-spectral-drift-in-population-scale-untargeted-metabolomics-data
#14
Jeramie D Watrous, Mir Henglin, Brian Claggett, Kim A Lehmann, Martin G Larson, Susan Cheng, Mohit Jain
Untargeted liquid-chromatography-mass spectrometry (LC-MS)-based metabolomics analysis of human biospecimens has become among the most promising strategies for probing the underpinnings of human health and disease. Analysis of spectral data across population scale cohorts, however, is precluded by day-to-day nonlinear signal drifts in LC retention time or batch effects that complicate comparison of thousands of untargeted peaks. To date, there exists no efficient means of visualization and quantitative assessment of signal drift, correction of drift when present, and automated filtering of unstable spectral features, particularly across thousands of data files in population scale experiments...
February 7, 2017: Analytical Chemistry
https://www.readbyqxmd.com/read/28194268/filipino-women-s-diet-and-health-study-filwhel-design-and-methods
#15
Grace P Abris, Sangmo Hong, Sherlyn Mae P Provido, Jung Eun Lee, Chang Beom Lee
BACKGROUND: Immigration to South Korea from neighboring Asian countries has risen dramatically, primarily due to marriage between Korean men and foreign women. Although Filipino women rank fourth among married immigrant women, little is known about the health condition of this population. This manuscript focuses on the design and methods of Filipino women's diet and health study (FiLWHEL). SUBJECTS/METHODS: FiLWHEL is a cohort of Filipino women married to Korean men, aged 19 years old or over...
February 2017: Nutrition Research and Practice
https://www.readbyqxmd.com/read/28194131/needs-and-requirements-of-modern-biobanks-on-the-example-of-dystonia-syndromes
#16
Ebba Lohmann, Thomas Gasser, Kathrin Grundmann
Dystonia belongs to a group of rare diseases (RDs) characterized by etiologic heterogeneity, affection often in childhood, severe and variable clinical manifestation. The burden of this disease is aggravated by the lack of effective and specific treatment. In the field of dystonia as in other RDs the number of available biospecimens is, in general, limited. Here, we report a new approach to collect clinical and genetic data in biospecimens maintained collaboratively by researchers and their associated institutions in a decentralized system...
2017: Frontiers in Neurology
https://www.readbyqxmd.com/read/28186851/efficiently-maintaining-a-national-resource-of-historical-and-contemporary-biological-collections-the-nhlbi-biorepository-model
#17
Katheryn E Shea, Elizabeth L Wagner, Leah Marchesani, Kevin Meagher, Carol Giffen
INTRODUCTION: Reducing costs by improving storage efficiency has been a focus of the National Heart, Lung, and Blood Institute (NHLBI) Biologic Specimen Repository (Biorepository) and Biologic Specimen and Data Repositories Information Coordinating Center (BioLINCC) programs for several years. METHODS: Study specimen profiles were compiled using the BioLINCC collection catalog. Cost assessments and calculations on the return on investments to consolidate or reduce a collection, were developed and implemented...
February 2017: Biopreservation and Biobanking
https://www.readbyqxmd.com/read/28181200/a-community-driven-intervention-for-improving-biospecimen-donation-in-african-american-communities
#18
Kushal Patel, Wendelyn Inman, Jemal Gishe, Owen Johnson, Elizabeth Brown, Mohamed Kanu, Rosemary Theriot, Maureen Sanderson, Pamela Hull, Margaret Hargreaves
INTRODUCTION: Human biospecimens are an invaluable resource for addressing cancers and other chronic diseases. The purpose of this study was to assess the impact of an educational intervention on biospecimen knowledge and attitudes. METHODS: The participants consisted of 112 African Americans, 18 years and older, and who had not provided biospecimens for any health-related research in the past. A total of 55 participants received the educational brochure, and 57 received the educational video...
February 8, 2017: Journal of Racial and Ethnic Health Disparities
https://www.readbyqxmd.com/read/28176229/charting-the-maternal-and-infant-microbiome-what-is-the-role-of-diabetes-and-obesity-in-pregnancy
#19
REVIEW
Sirtaj Singh, Margaret R Karagas, Noel T Mueller
PURPOSE OF REVIEW: The purpose of this review is to summarize the evidence on whether diabetes, obesity, and related metabolic derangements during pregnancy are associated with the maternal and infant microbiomes, and to identify gaps in the literature and offer guidance on future research on this topic. RECENT FINDINGS: We found circumstantial evidence from four observational studies that the maternal gut microbiome was associated with either pre-pregnancy body mass index, gestational weight gain, gestational diabetes, and/or related metabolic biomarkers in pregnancy; we did not identify any studies that examined whether the vaginal microbiome varied according to these metabolic parameters...
February 2017: Current Diabetes Reports
https://www.readbyqxmd.com/read/28164165/accuracy-of-self-reported-smoking-exposure-among-bladder-cancer-patients-undergoing-surveillance-at-a-tertiary-referral-center
#20
Alan E Thong, Stacey Petruzella, Irene Orlow, Emily C Zabor, Behfar Ehdaie, Jamie S Ostroff, Bernard H Bochner, Helena Furberg Barnes
BACKGROUND: Smoking is a risk factor for developing bladder cancer (BCa). Even though continued exposure after diagnosis may adversely affect prognosis, patients may be reluctant to disclose to their physicians that they are currently smoking, leading to inaccurate reporting of exposure and missed opportunities to deliver smoking-cessation advice and treatment in the context of cancer care. OBJECTIVE: We examined the extent of misclassification of recent smoking exposure among patients undergoing BCa surveillance...
October 2016: European Urology Focus
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