2,239 results on '"Brown, Julia"'
Search Results
2. When She Was Good and the Eclipse of the Virtuous Heroine: A Revaluation
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Brown, Julia Prewitt
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- 2023
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3. Chiapas Cycle Blues: Rosario Castellanos's Fictional Prose as Affective Mapping
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Brown, Julia R.
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- 2022
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4. Affectual Erasure: Representations of Indigenous Peoples in Argentine Cinema by Cynthia Margarita Tompkins (review)
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Brown, Julia
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- 2020
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5. “I Have Fought for so Many Things”: Disadvantaged families’ Efforts to Obtain Community-Based Services for Their Child after Genomic Sequencing
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Ackerman, Sara L, Brown, Julia EH, Zamora, Astrid, and Outram, Simon
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Biological Sciences ,Genetics ,Health Services and Systems ,Health Sciences ,Human Society ,Social Work ,Human Genome ,Clinical Research ,Pediatric ,Prevention ,Health Services ,Good Health and Well Being ,Child ,Humans ,Community Health Services ,Genetic Testing ,ELSI ,Genomics ,developmental conditions ,ethnography ,pediatric ,therapeutic odyssey ,utility ,Sociology ,Applied Ethics ,Applied ethics - Abstract
BackgroundFamilies whose child has unexplained intellectual or developmental differences often hope that a genetic diagnosis will lower barriers to community-based therapeutic and support services. However, there is little known about efforts to mobilize genetic information outside the clinic or how socioeconomic disadvantage shapes and constrains outcomes.MethodsWe conducted an ethnographic study with predominantly socioeconomically disadvantaged families enrolled in a multi-year genomics research study, including clinic observations and in-depth interviews in English and Spanish at multiple time points. Coding and thematic development were used to collaboratively interpret fieldnotes and transcripts.ResultsThirty-two families participated. Themes included familial expectations that a genetic diagnosis could be translated into information, understanding, and assistance to improve the quality of a child's day-to-day life. After sequencing, however, genetic information was not readily converted into improved access to services beyond the clinic, with families often struggling to use a genetic diagnosis to advocate for their child.ConclusionFamilies' ability to use a genetic diagnosis as an effective advocacy tool beyond the clinic was limited by the knowledge and resources available to them, and by the eligibility criteria used by therapeutic service providers' - which focused on clinical diagnosis and functional criteria more than etiologic information. All families undertaking genomic testing, particularly those who are disadvantaged, need additional support to understand the limits and potential benefits of genetic information beyond the clinic.
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- 2023
6. John Schlesinger’s Bildungsfilm: Midnight Cowboy and the Problem of Youth
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Brown, Julia Prewitt
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- 2013
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7. Vitamin D Metabolites and Risk of Cardiovascular Disease in Chronic Kidney Disease: The CRIC Study.
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Hoofnagle, Andrew, Isakova, Tamara, Leonard, Mary, Lidgard, Benjamin, Robinson-Cohen, Cassianne, Wolf, Myles, Xie, Dawei, Kestenbaum, Bryan, de Boer, Ian, Hsu, Simon, Zelnick, Leila, Bansal, Nisha, Brown, Julia, Denburg, Michelle, Feldman, Harold, and Ginsberg, Charles
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cardiovascular disease ,chronic kidney disease ,vitamin D ,Humans ,Female ,Middle Aged ,Male ,Cardiovascular Diseases ,Cross-Sectional Studies ,Vitamin D ,Ergocalciferols ,Renal Insufficiency ,Chronic ,Vitamins ,Proteinuria ,Risk Factors - Abstract
Background The ratio of 24,25-dihydroxyvitamin D3/25-hydroxyvitamin D3 (vitamin D metabolite ratio [VDMR]) may reflect functional vitamin D activity. We examined associations of the VDMR, 25-hydroxyvitamin D (25[OH]D), and 1,25-dihydroxyvitamin D (1,25[OH]2D) with cardiovascular disease (CVD) in patients with chronic kidney disease. Methods and Results This study included longitudinal and cross-sectional analyses of 1786 participants from the CRIC (Chronic Renal Insufficiency Cohort) Study. Serum 24,25-dihydroxyvitamin D3, 25(OH)D, and 1,25(OH)2D were measured by liquid chromatography-tandem mass spectrometry 1 year after enrollment. The primary outcome was composite CVD (heart failure, myocardial infarction, stroke, and peripheral arterial disease). We used Cox regression with regression-calibrated weights to test associations of the VDMR, 25(OH)D, and 1,25(OH)2D with incident CVD. We examined cross-sectional associations of these metabolites with left ventricular mass index using linear regression. Analytic models adjusted for demographics, comorbidity, medications, estimated glomerular filtration rate, and proteinuria. The cohort was 42% non-Hispanic White race and ethnicity, 42% non-Hispanic Black race and ethnicity, and 12% Hispanic ethnicity. Mean age was 59 years, and 43% were women. Among 1066 participants without prevalent CVD, there were 298 composite first CVD events over a mean follow-up of 8.6 years. Lower VDMR and 1,25(OH)2D were associated with incident CVD before, but not after, adjustment for estimated glomerular filtration rate and proteinuria (hazard ratio, 1.11 per 1 SD lower VDMR [95% CI, 0.95-1.31]). Only 25(OH)D was associated with left ventricular mass index after full covariate adjustment (0.6 g/m2.7 per 10 ng/mL lower [95% CI, 0.0-1.3]). Conclusions Despite modest associations of 25(OH)D with left ventricular mass index, 25(OH)D, the VDMR, and 1,25(OH)2D were not associated with incident CVD in chronic kidney disease.
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- 2023
8. Genomic representativeness and chimerism in large collections of SAGs and MAGs of marine prokaryoplankton
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Chang, Tianyi, Gavelis, Gregory S., Brown, Julia M., and Stepanauskas, Ramunas
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- 2024
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9. Good Statistical Practice—development of tailored Good Clinical Practice training for statisticians
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Stocken, Deborah D., Mossop, Helen, Armstrong, Emma, Lewis, Steff, Dutton, Susan J., Peckitt, Claire, Gamble, Carrol, and Brown, Julia
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- 2024
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10. Impact of minimal residual disease (MRD) in salvage autologous stem cell transplantation for relapsed myeloma: results from the NCRI Myeloma X (intensive) trial
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de Tute, Ruth M., Cook, Gordon, Cairns, David A., Brown, Julia M., Cavenagh, Jamie, Ashcroft, A. John, Snowden, John A., Yong, Kwee, Tholouli, Eleni, Jenner, Matthew, Hockaday, Anna, Drayson, Mark T., Morris, Treen C. M., Rawstron, Andy C., and Owen, Roger G.
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- 2024
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11. Gaze as Mirror/Encountering the Other
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Karam, Tanius, primary and Brown, Julia R., additional
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- 2024
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12. Women Photographers and Mexican Modernity
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Brown, Julia R., primary, Stefkova, Radmila, additional, and Williams, Tamara R., additional
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- 2024
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13. Epilogue
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Brown, Julia R., primary, Stefkova, Radmila, additional, and Williams, Tamara R., additional
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- 2024
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14. Introduction
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Brown, Julia R., primary, Stefkova, Radmila, additional, and Williams, Tamara R., additional
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- 2024
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15. Seeing and Feeling the 1990s
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Brown, Julia R., primary
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- 2024
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16. Jane Austen: A Family Record , and: Jane Austen's Manuscript Letters in Facsimile. Reproductions of Every Known Extant Letter, Fragment, and Autograph Copy, with an Annotated List of All Known Letters , and: Jane Austen: Her Life (review)
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Brown, Julia Prewitt
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- 2011
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17. Fetal therapies and trials for lysosomal storage diseases: a survey of attitudes of parents and patients
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Schwab, Marisa E, Brown, Julia EH, Lianoglou, Billie, Jin, Chengshi, Conroy, Patricia C, Gallagher, Renata C, Harmatz, Paul, and MacKenzie, Tippi C
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Genetics ,Orphan Drug ,Digestive Diseases ,Clinical Research ,Clinical Trials and Supportive Activities ,Rare Diseases ,Pediatric ,Good Health and Well Being ,Attitude ,Clinical Trials ,Phase I as Topic ,Enzyme Replacement Therapy ,Female ,Fetal Therapies ,Glycogen Storage Disease Type II ,Humans ,Lysosomal Storage Diseases ,Parents ,Pregnancy ,Surveys and Questionnaires ,Lysosomal storage disease ,Mucopolysaccharidosis ,Fetal therapy ,Enzyme replacement therapy ,Gene therapy ,Patient attitudes ,Clinical trial ,ELSI (ethical ,legal and social implications) ,ELSI ,Other Medical and Health Sciences ,Genetics & Heredity - Abstract
BackgroundLysosomal storage diseases (LSDs) are inherited metabolic disorders that may lead to severe multi-organ disease. Current ERTs are limited by anti-drug antibodies, the blood-brain barrier, and early disease onset and progression before ERT is started. We have opened a phase I clinical trial of enzyme replacement therapy (ERT) for fetuses with LSDs (NCT04532047). We evaluated the attitudes of parents and patients with LSDs towards fetal clinical trials and therapies.MethodsA multidisciplinary team designed a survey which was distributed by five international patient advocacy groups. We collected patients' demographic, diagnostic, and treatment information. Associations between respondent characteristics and attitudes towards fetal therapies/trials were analyzed using multivariate ordinal logistic regression.ResultsThe survey was completed by 181 adults from 19 countries. The majority of respondents were mothers from the United States. The most common diseases were MPS1 (26%), MPS3 (19%), and infantile-onset Pompe (14%). Most patients (88%) were diagnosed after birth, at a median of 21 months. Altogether, 65% of participating patients and children of participants had received ERT, 27% a stem cell transplant, and 4% gene therapy. We found that half (49%) of respondents were unlikely to terminate a future affected pregnancy, 55% would enroll in a phase I clinical trial for fetal ERT, and 46% would enroll in a fetal gene therapy trial. Respondents who received postnatal ERT were significantly more likely enroll in a trial for fetal ERT or gene therapy (ERT OR 4.48, 95% CI 2.13-9.44, p
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- 2022
18. Functional genomics of OCTN2 variants informs protein-specific variant effect predictor for Carnitine Transporter Deficiency
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Koleske, Megan L, McInnes, Gregory, Brown, Julia EH, Thomas, Neil, Hutchinson, Keino, Chin, Marcus Y, Koehl, Antoine, Arkin, Michelle R, Schlessinger, Avner, Gallagher, Renata C, Song, Yun S, Altman, Russ B, and Giacomini, Kathleen M
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Human Genome ,Genetics ,Prevention ,2.1 Biological and endogenous factors ,Aetiology ,Generic health relevance ,Humans ,Solute Carrier Family 22 Member 5 ,Organic Cation Transport Proteins ,HEK293 Cells ,Carnitine ,Genomics ,transporter ,variant interpretation ,machine learning ,rare disease - Abstract
Genetic variants in SLC22A5, encoding the membrane carnitine transporter OCTN2, cause the rare metabolic disorder Carnitine Transporter Deficiency (CTD). CTD is potentially lethal but actionable if detected early, with confirmatory diagnosis involving sequencing of SLC22A5. Interpretation of missense variants of uncertain significance (VUSs) is a major challenge. In this study, we sought to characterize the largest set to date (n = 150) of OCTN2 variants identified in diverse ancestral populations, with the goals of furthering our understanding of the mechanisms leading to OCTN2 loss-of-function (LOF) and creating a protein-specific variant effect prediction model for OCTN2 function. Uptake assays with 14C-carnitine revealed that 105 variants (70%) significantly reduced transport of carnitine compared to wild-type OCTN2, and 37 variants (25%) severely reduced function to less than 20%. All ancestral populations harbored LOF variants; 62% of green fluorescent protein (GFP)-tagged variants impaired OCTN2 localization to the plasma membrane of human embryonic kidney (HEK293T) cells, and subcellular localization significantly associated with function, revealing a major LOF mechanism of interest for CTD. With these data, we trained a model to classify variants as functional (>20% function) or LOF (
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- 2022
19. Integrating Patient Reported Outcomes With Clinical Cancer Registry Data: A Feasibility Study of the Electronic Patient-Reported Outcomes From Cancer Survivors (ePOCS) System
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Ashley, Laura, Jones, Helen, Thomas, James, Newsham, Alex, Downing, Amy, Morris, Eva, Brown, Julia, Velikova, Galina, Forman, David, and Wright, Penny
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Computer applications to medicine. Medical informatics ,R858-859.7 ,Public aspects of medicine ,RA1-1270 - Abstract
BackgroundRoutine measurement of Patient Reported Outcomes (PROs) linked with clinical data across the patient pathway is increasingly important for informing future care planning. The innovative electronic Patient-reported Outcomes from Cancer Survivors (ePOCS) system was developed to integrate PROs, collected online at specified post-diagnostic time-points, with clinical and treatment data in cancer registries. ObjectiveThis study tested the technical and clinical feasibility of ePOCS by running the system with a sample of potentially curable breast, colorectal, and prostate cancer patients in their first 15 months post diagnosis. MethodsPatients completed questionnaires comprising multiple Patient Reported Outcome Measures (PROMs) via ePOCS within 6 months (T1), and at 9 (T2) and 15 (T3) months, post diagnosis. Feasibility outcomes included system informatics performance, patient recruitment, retention, representativeness and questionnaire completion (response rate), patient feedback, and administration burden involved in running the system. ResultsePOCS ran efficiently with few technical problems. Patient participation was 55.21% (636/1152) overall, although varied by approach mode, and was considerably higher among patients approached face-to-face (61.4%, 490/798) than by telephone (48.8%, 21/43) or letter (41.0%, 125/305). Older and less affluent patients were less likely to join (both P
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- 2013
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20. Prospective Learning: Principled Extrapolation to the Future
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De Silva, Ashwin, Ramesh, Rahul, Ungar, Lyle, Shuler, Marshall Hussain, Cowan, Noah J., Platt, Michael, Li, Chen, Isik, Leyla, Roh, Seung-Eon, Charles, Adam, Venkataraman, Archana, Caffo, Brian, How, Javier J., Kebschull, Justus M, Krakauer, John W., Bichuch, Maxim, Kinfu, Kaleab Alemayehu, Yezerets, Eva, Jayaraman, Dinesh, Shin, Jong M., Villar, Soledad, Phillips, Ian, Priebe, Carey E., Hartung, Thomas, Miller, Michael I., Dey, Jayanta, Ningyuan, Huang, Eaton, Eric, Etienne-Cummings, Ralph, Ogburn, Elizabeth L., Burns, Randal, Osuagwu, Onyema, Mensh, Brett, Muotri, Alysson R., Brown, Julia, White, Chris, Yang, Weiwei, Rusu, Andrei A., Verstynen, Timothy, Kording, Konrad P., Chaudhari, Pratik, and Vogelstein, Joshua T.
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Computer Science - Machine Learning ,Computer Science - Artificial Intelligence - Abstract
Learning is a process which can update decision rules, based on past experience, such that future performance improves. Traditionally, machine learning is often evaluated under the assumption that the future will be identical to the past in distribution or change adversarially. But these assumptions can be either too optimistic or pessimistic for many problems in the real world. Real world scenarios evolve over multiple spatiotemporal scales with partially predictable dynamics. Here we reformulate the learning problem to one that centers around this idea of dynamic futures that are partially learnable. We conjecture that certain sequences of tasks are not retrospectively learnable (in which the data distribution is fixed), but are prospectively learnable (in which distributions may be dynamic), suggesting that prospective learning is more difficult in kind than retrospective learning. We argue that prospective learning more accurately characterizes many real world problems that (1) currently stymie existing artificial intelligence solutions and/or (2) lack adequate explanations for how natural intelligences solve them. Thus, studying prospective learning will lead to deeper insights and solutions to currently vexing challenges in both natural and artificial intelligences., Comment: Accepted at the 2nd Conference on Lifelong Learning Agents (CoLLAs), 2023
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- 2022
21. Life strategies for Aminicenantia in subseafloor oceanic crust
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Booker, Anne E., D’Angelo, Timothy, Adams-Beyea, Annabelle, Brown, Julia M., Nigro, Olivia, Rappé, Michael S., Stepanauskas, Ramunas, and Orcutt, Beth N.
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- 2023
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22. How often are infusion sets for central venous catheters changed in Australian and New Zealand Intensive Care Units? A point prevalence survey
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Hammond, Naomi, Freeman-Sanderson, Amy, Ganu, Subodh, Howe, Belinda, Litton, Ed, Mackle, Diane, Saxena, Manoj, Seppelt, Ian, Towns, Miriam, Yarad, Elizabeth, Knowles, Serena, Gao, Annie, Li, Yang, Myburgh, John, Nangla, Conrad, Butt, Fatima, Duke, Graeme, Hunter, Stephanie, Evans, Julie, Parker, Dianne, Loughnan, Clare, Thomas, Blessy, Gilder, Eileen, Robertson, Melissa, McMahon, Ellie, Ali, Farisha, Cowdrey, Keri-Anne, McArthur, Colin, Chen, Yan, Simmonds, Catherine, McConnochie, Rachael, O'Connor, Caroline, El-Khawas, Khaled, Hill, Dianne, Cattigan, Claire, Horton, Michelle, Trickey, Jemma, Knott, Cameron, Smith, Julie, Boschert, Catherine, Sara, Treena, Nand, Kiran, Ramanan, Mahesh, Marella, Prashanti, Affleck, Julia, Simpson, Shannon, Ellem, Katrina, McKenna, Toni, Nourse, Mary, Leung, Kristine, Edmunds, Tash, McDonald, Bree, Mehrtens, Jan, Cross, Rosalba, Wong, Helen, Twardowski, Pawel, France, Dawn, Hanlon, Gabrielle, Barrett, Jonathan, Palermo, Annamaria, Pellicano, Susan, Eroglu, Ege, Bihari, Shailesh, Brown, Julia, Grear, Laura, Jin, Xia, French, Craig, Bates, Samantha, Marshall, Fiona, McEldrew, Rebecca, McCullough, James, Tallott, Mandy, Gough, Maimoonbe, Nalos, Marek, Younger, Laura, Krishnamurphy, Ravi, Trent, Louise, How, Janet, Stuart, Anne, Chadwick, Llesley, Bhadange, Neeraj, Tyler, Steven, Sosnowski, Kellie, Morrison, Lynette, Sutton, Joanne, Soar, Natalie, Lee, David, Doyle, Marina, Jongebloed, Katherine, Finnis, Mackenzie, Wilson, Jane, Williams, Tony, Song, Rima, Lai, Vivian, Girijadevi, Dinu, Habraken, Hannah, Browne, Alex, Koelle, Jette, McNab, Charlotte, Masters, Kristy, Gresham, Rebecca, Lowrey, Julie, Whitehead, Christina, Liang, Janet, Harward, Meg, Jones, Cassie, Peake, Sandra, Williams, Tricia, Kurenda, Catherine, Tabah, Alexis, Duroux, Maree, Warhurst, Timothy, Ratcliffe, Megan, Pollock, Hamish, Baker, Stuart, Sonawane, Ravikiran, O'Connor, Stephanie, Brown, Nerissa, Glasby, Kathleen, Rivett, Justine, Campbell, Lewis, Tabuzo, Vera, Smyth, Kirsty, Bass, Frances, O'Connor, Anne, Leonard, Anton, Waterson, Sharon, Coles, Jennifer, Buhr, Heidi, Newman, Duncan, Boorawong, Piyaporn, Bregolin, Vanessa, Yun, Ji-Hyun, Anstey, Matthew, Rock, Lara, Endemann, Anthadene, Lo, Wei, Ferrier, Janet, Reynolds, Claire, Santamaria, John, Holmes, Jennifer, Beca, John, Sherring, Claire, Garrett, Peter, Murray, Lauren, Brailsford, Jane, Browne, Troy, Goodson, Jennifer, Udy, Andrew, Young, Meredith, Board, Jasmin, McCracken, Phoebe, Martin, Emma-Leah, Martynoga, Robert, Butler, Amelia, Trask, Kara, Olatunji, Shaanti, Cruz, Rhoze Sol, Cruz, Raulle Sol, Navarra, Leanlove, Delaney, Kirsha, Lesona, Eden, Young, Chelsea, Spring, Amelia, Aguilar, April, Young, Paul, Law, Erin, Anstey, Matthew H., Maxwell, Nicky, Rickard, Claire M., Hammond, Naomi E., and McGain, Forbes
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- 2024
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23. Surgical trial design for incorporating the effects of learning: what is the current methodological guidance, and is it sufficient?
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Corrigan, Neil, Brown, Julia M., Emsley, Richard, Jayne, David G., and Walwyn, Rebecca E. A.
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- 2023
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24. “Let’s Just Wait Until She’s Born”: Temporal Factors That Shape Decision-Making for Prenatal Genomic Sequencing Amongst Families Underrepresented in Genomic Research
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Brown, Julia EH, Zamora, Astrid N, Outram, Simon, Sparks, Teresa N, Lianoglou, Billie R, Norstad, Matthew, Hodoglugil, Nuriye N Sahin, Norton, Mary E, and Ackerman, Sara L
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Biological Sciences ,Genetics ,Biotechnology ,Human Genome ,Perinatal Period - Conditions Originating in Perinatal Period ,Pediatric Research Initiative ,Clinical Research ,Pediatric ,Generic health relevance ,Reproductive health and childbirth ,Good Health and Well Being ,ELSI ,prenatal exome sequencing ,temporality ,equity ,genomic medicine ,Clinical Sciences ,Law - Abstract
Genomic sequencing has been increasingly utilized for prenatal diagnosis in recent years and this trend is likely to continue. However, decision-making for parents in the prenatal period is particularly fraught, and prenatal sequencing would significantly expand the complexity of managing health risk information, reproductive options, and healthcare access. This qualitative study investigates decision-making processes amongst parents who enrolled or declined to enroll in the prenatal arm of the California-based Program in Prenatal and Pediatric Genome Sequencing (P3EGS), a study in the Clinical Sequencing Evidence-Generating Research (CSER) consortium that offered whole exome sequencing for fetal anomalies with a focus on underrepresented groups in genomic research. Drawing on the views of 18 prenatal families who agreed to be interviewed after enrolling (n = 15) or declining to enroll (n = 3) in P3EGS, we observed that the timing of sequencing, coupled with unique considerations around experiences of time during pregnancy and prenatal testing, intersect with structural supports beyond the clinic to produce preferences for and against prenatal sequencing and to contain the threat of unwelcome, uncertain knowledge. Particularly for those without structural supports, finding out consequential information may be more palatable after the birth, when the first stage of the uncertain future has been revealed. Future research should examine the role of temporality in decision-making around prenatal genomic sequencing across diverse population cohorts, in order to observe more precisely the role that structural barriers play in patient preferences.
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- 2022
25. Parental Hopes and Understandings of the Value of Prenatal Diagnostic Genomic Sequencing: A Qualitative Analysis.
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Outram, Simon M, Brown, Julia EH, Zamora, Astrid N, Sahin-Hodoglugil, Nuriye, and Ackerman, Sara L
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empowerment ,genomics ,interviews ,prenatal ,sequencing ,Human Genome ,Genetics ,Biotechnology ,Pediatric ,Reproductive health and childbirth ,Clinical Sciences ,Law - Abstract
Objective: To provide qualitative empirical data on parental expectations of diagnostic prenatal genomic sequencing and the value of the results to families. Methods: We interviewed 15 families-mothers and/or fathers-who had had prenatal genomic sequencing about their expectations and their respective evaluations of the benefits of genomic sequencing. Results: Families' hopes for genetic sequencing clustered around three themes: hoping to identify the cause of the fetal anomaly in a terminated pregnancy; hopes for guidance as to the likely outcome of current pregnancy; and hopes for information to support future family planning. In addition, hopes were discussed in terms of the potential for results to be beneficial in acquiring greater knowledge, while at the same time recognizing that new knowledge may raise more questions. Assessment of the value of sequencing largely mirrored these expectations when positive results seen. Negative results can also be seen as valuable in ruling out a genetic cause and in providing certainty that families had done everything that they could to know about the cause of fetal demise. Conclusion: It would appear that with guidance from genetic counsellors, families were largely able to navigate the many uncertainties of prenatal genomic sequencing and thus see themselves as benefitting from sequencing. However, support structures are essential to guide them through their expectations and interpretations of results to minimize possible harms. Engaging in the process of genomic sequencing was seen as beneficial in of itself to families who would otherwise be left without any options to seek diagnostic answers.
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- 2022
26. Systematic Review of Patient-Reported Outcome Measures in Locally Recurrent Rectal Cancer
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McKigney, Niamh, Houston, Fergus, Ross, Ellen, Velikova, Galina, Brown, Julia, and Harji, Deena Pravin
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- 2023
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27. SARS CoV-2 detected in neonatal stool remote from maternal COVID-19 during pregnancy
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Jin, Jenny C., Ananthanarayanan, Aparna, Brown, Julia A., Rager, Stephanie L., Bram, Yaron, Sanidad, Katherine Z., Amir, Mohammed, Baergen, Rebecca N., Stuhlmann, Heidi, Schwartz, Robert E., Perlman, Jeffrey M., and Zeng, Melody Y.
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- 2023
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28. Routine sterile glove and instrument change at the time of abdominal wound closure to prevent surgical site infection (ChEETAh): a model-based cost-effectiveness analysis of a pragmatic, cluster-randomised trial in seven low-income and middle-income countries
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Kachapila, Mwayi, Oppong, Raymond, Ademuyiwa, Adesoji O., Bhangu, Aneel, Dauda, Risikat, Ghosh, Dhruva N., Kamarajah, Sivesh K, Lawani, Ismail, Medina, Antonio Ramos-De la, Monahan, Mark, Morton, Dion G., Omar, Omar, Picciochi, Maria, Tabiri, Stephen, Roberts, Tracy E., Brocklehurst, Peter, Chakrabortee, Sohini, Glasbey, James, Hardy, Pollyanna, Harrison, Ewen, Lillywhite, Rachel, Magill, Laura, Nepogodiev, Dmitri, Simoes, Joana, Smith, Donna, Kadir, Bryar, Pinkney, Thomas, Brant, Felicity, Li, Elizabeth, Runigamugabo, Emmy, Bahrami-Hessari, Michael, Bywater, Edward, Martinez, Laura, Habumuremyi, Sosthene, Ntirenganya, Faustin, Williams, Emmanuel, Fourtounas, Maria, Melic, Bokossa K. Covalic, Suroy, Atul, Ahogni, Didier, Ahounou, Aristide, Boukari, K. Alassan, Gbehade, Oswald, Hessou, Thierry K, Nindopa, Sinama, Nontonwanou, M.J. Bienvenue, Guessou, Nafissatou Orou, Sambo, Arouna, Tchati, Sorekou Victoire, Tchogo, Affisatou, Tobome, Semevo Romaric, Yanto, Parfait, Gandaho, Isidore, Hadonou, Armel, Hinvo, Simplice, Hodonou, Montcho Adrien, Tamou, Sambo Bio, Lawani, Souliath, Dossou, Francis Moise, Gaou, Antoine, Goudou, Roland, Kouroumta, Marie-Claire, Malade, Enrif, Dikao, Anne stredy Mkoh, Nsilu, Joel Nzuwa, Ogouyemi, Pencome, Akpla, Marcelin, Mitima, Nathan Bisimwa, Kovohouande, Blaise, Loupeda, Stephane Laurent, Agbangla, Mamonde Victorin, Hedefoun, Sena Emmanuel, Mavoha, Thierry, Ngaguene, Juvenal, Rugendabanga, Janvier, Soton, Rish Romaric, Totin, Martin, Agbadebo, Mouhamed, Dewamon, Hubert, Akpo, Irene, Djeto, Martin, Hada, Aissatou, Hollo, Monsede, Houndji, Albert, Houndote, Anasthasie, Hounsa, Sylvestre, Kpatchassou, Expedit, Yome, Hugues, Alidou, Mohamed Moussa, Bara, Eric Jerry, Yovo, B.T. Bonheur Dossou, Guinnou, Robert, Hamadou, Souleymane, Kola, H.Pauline, Moussa, Nabil, Cakpo, Boniface, Etchisse, Lolyta, Hatangimana, Emery, Muhindo, Moise, Sanni, Katia, Yevide, Agossou Barthelemy, Agossou, Hermann, Musengo, Fiston Basirwa, Behanzin, Hulrich, Seto, Djifid Morel, Alia, Bill Armstrong, Alitonou, Arnaud, Mehounou, Y.Edith, Agbanda, Lucien, Attinon, Julien, Hounsou, Nounagnon Rene, Gbassi, Marcel, Adagrah, Aniakwo, Alhassan, Bin Baaba Alhaji, Amoako-Boateng, Mabel Pokuah, Appiah, Anthony Baffour, Asante-Asamani, Alvin, Boakye, Benedict, Debrah, Samuel A, Ganiyu, Rahman Adebisi, Enti, Donald, Koggoh, Patience, Kpankpari, Richard, Opandoh, Isanella Naa M., Manu, Meshach Agyemang, Manu, Maison Patrick Opoku, Mensah, Samuel, Morna, Martin Tangnaa, Nortey, Michael, Nkrumah, John, Ofori, Emmanuel Owusu, Quartson, Elizaberth Mercy, Acquah, Ato Oppong, Adam-Zakariah, Leslie Issa, Asabre, Esther, Boateng, Ruby Acheampong, Koomson, Barbara, Kusiwaa, Ataa, Twerefour, Emmanuel Yaw, Ankomah, James, Assah-Adjei, Frank, Boakye, Anthony Appiah, Fosu, Godfred, Serbeh, Godwin, Gyan, Kofi Yeboah, Nyarko, Isaac Omane, Robertson, Zelda, Acheampong, Dorcas O, Acquaye, Jane, Adinku, Michael, Agbedinu, Kwabena, Agbeko, Anita Eseenam, Amankwa, Emmanuel Gyimah, Amoah, Michael, Amoah, George, Appiah, Juliana, Arthur, Joshua, Ayim, Alex, Ayodeji, Emmanuel Kafui, Boakye-Yiadom, Jonathan, Boateng, Edward Amoah, Dally, Charles, Davor, Anthony, Gyasi-Sarpong, Christian Kofi, Hamidu, Naabo Nuhu Noel, Haruna, Iddrisu, Kwarley, Naa, Lovi, Agbenya Kobla, Nimako, Boateng, Nyadu, Bertina Beauty, Opoku, Dominic, Osabutey, Anita, Sagoe, Robert, Tuffour, Samuel, Tufour, Yaa, Yamoah, Francis Akwaw, Yefieye, Abiboye Cheduko, Yorke, Joseph, Addo, Kwame Gyambibi, Akosa, Enoch Appiah, Boakye, Percy, Coompson, Christian Larbi, Gyamfi, Brian, Kontor, Bismark Effah, Kyeremeh, Christian, Manu, Ruth, Mensah, Elijah, Solae, Friko Ibrahim, Toffah, Gideon Kwasi, Adu-Brobbey, Raphael, Labaran, 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Joshua, Samaila, Lawal, Jamila, Mohammed, Caleb, Nuwam, Deborah, Sale, Danjuma, Sani, Abdulrasheed, Tabara, Salome, Usam, Emmanuel, Yakubu, Josiah, Adegoke, Folasade, Ige, Oluwasuyi, Bakare, Adewumi, Akande, Olukemi, Anyanwu, Noble, Eke, Grace, Oyewole, Yemisi, Abunimye, Esther, Adeoluwa, Adebunmi, Adesiyakan, Adedotun, Amao, Michael, Ashley-Osuzoka, Christiana, Gbenga-Oke, Christianah, Olanrewaju, Olabisi, Olayioye, Olawunmi, Olutola, Stephen, Onyekachi, Kenneth, Osariemen, Emili, Osunwusi, Benedetto, Owie, Emmanuel, Okoro, Chukwuemeka, Ugwuanyi, Kenneth, Ugwunne, Chuka, Olasehinde, Olalekan, Akinloye, Abidemi, Akinniyi, Ayodeji, Ejimogu, Joseph, Okedare, Amos, Omotola, Omolara, Sanwo, Francis, Awodele, Kehinde, Aisuodionoe-Shadrach, Oseremen, Alfred, Janet, Atim, Terkaa, Mbajiekwe, Ndubuisi, Olori, amson, Suleiman, Salisu, Sunday, Helen, Ida, Genesis, Oruade, David, Osemwegie, Osarenkhoe, Ajibola, Gboyega, Elemile, Peter, Fakoya, Adegbolahan, Ojediran, Oluwabukade, Olagunju, Naomi, Bello, Robiat, Ojajuni, Adeolu, Oyewale, Sabur, Abhulimen, Victor, Okoi, Nnyonno, Mizero, Japhet, Mutimamwiza, Immaculee, Nirere, Francoise, Niyongombwa, Irenee, Byaruhanga, Anastase, Dukuzimana, Rongin, Uwizeye, Marcel, Ruhosha, Mathias, Igiraneza, joselyne, Ingabire, Faustine, Karekezi, Aloys, Mpirimbanyi, Christophe, Mukamazera, Lydia, Mukangabo, Clemence, Imanishimwe, Alphonsine, Kanyarukiko, Salathiel, Mukaneza, Francine, Mukantibaziyaremye, Deborah, Munyaneza, Aphrodis, Ndegamiye, Gibert, Nyirangeri, Pierrine, Tubasiime, Ronald, Dusabe, Moses, Izabiriza, Emelyne, Mutuyimana, Josiane, Mwenedata, Olivier, Rwagahirima, Elisee, Zirikana, Job, Sibomana, Isaie, Rubanguka, Desire, Umuhoza, Josine, Uwayezu, Roda, Uzikwambara, Leoncie, Dieudonne, Aime, Kabanda, Elysee, Mbonimpaye, Salomee, Mukakomite, Christine, Muroruhirwe, Piolette, Butana, Herbert, Dusabeyezu, Moise, Batangana, Mediatrice, Bucyibaruta, Georges, Mukanyange, Violette, Munyaneza, Emmanuel, Mutabazi, Emmanuel, Mwungura, Espoir, Ncogoza, Isaie, Nyirahabimana, Jeannette, Nyirasebura, Dancilla, Dusabimana, Anaclet, Kanyesigye, Sam, Munyaneza, Robert, Hyman, Gabriella, Moore, Rachel, Sentholang, Nnosa, Wondoh, Paul, Ally, Zain, Domingo, Aimee, Munda, Philip, Nyatsambo, Chido, Ojo, Victor, Pswarayi, Rudo, Cook, Jonathan, Jayne, David, Laurberg, Soeren, Brown, Julia, Smart, Neil, and Cousens, Simon
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- 2024
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29. Frailty and Cardiovascular Outcomes in Adults With CKD: Findings From the Chronic Renal Insufficiency Cohort (CRIC) Study
- Author
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Chen, Jing, Cohen, Debbie L., Feldman, Harold I., Go, Alan S., Nelson, Robert G., Rahman, Mahboob, Rao, Panduranga S., Shah, Vallabh O., Unruh, Mark L., Hannan, Mary, Chen, Jinsong, Hsu, Jesse, Zhang, Xiaoming, Saunders, Milda R., Brown, Julia, McAdams-DeMarco, Mara, Mohanty, Madhumita Jena, Vyas, Rahul, Hajjiri, Zahraa, Carmona-Powell, Eunice, Meza, Natalie, Porter, Anna C., Ricardo, Ana C., and Lash, James P.
- Published
- 2024
- Full Text
- View/download PDF
30. Factors Associated With Non-vaccination for Influenza Among Patients With CKD: Findings From the Chronic Renal Insufficiency Cohort (CRIC) Study
- Author
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Dember, Laura M., Landis, J. Richard, Townsend, Raymond R., Fink, Jeffrey, Rahman, Mahboob, Horwitz, Edward J., Rao, Panduranga S., Sondheimer, James H., Go, Alan S., Hsu, Chi-yuan, Parsa, Afshin, Rankin, Tracy, Ishigami, Junichi, Jaar, Bernard G., Charleston, Jeanne B., Lash, James P., Brown, Julia, Chen, Jing, Mills, Katherine T., Taliercio, Jonathan J., Kansal, Sheru, Crews, Deidra C., Riekert, Kristin A., Dowdy, David W., Appel, Lawrence J., and Matsushita, Kunihiro
- Published
- 2024
- Full Text
- View/download PDF
31. Using visual storytelling to share aggregate findings with families participating in clinical genomics research
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Zamora, Astrid N., Brown, Julia E.H., Outram, Simon, and Ackerman, Sara L.
- Published
- 2024
- Full Text
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32. Filmmaking - the great adventure
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Brown, Julia
- Published
- 2005
33. SPIRIT-PRO Extension explanation and elaboration: guidelines for inclusion of patient-reported outcomes in protocols of clinical trials.
- Author
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Calvert, Melanie, King, Madeleine, Mercieca-Bebber, Rebecca, Aiyegbusi, Olalekan, Kyte, Derek, Slade, Anita, Chan, An-Wen, Basch, E, Bell, Jill, Bennett, Antonia, Bhatnagar, Vishal, Blazeby, Jane, Bottomley, Andrew, Brown, Julia, Brundage, Michael, Campbell, Lisa, Cappelleri, Joseph C, Draper, Heather, Dueck, Amylou C, Ells, Carolyn, Frank, Lori, Golub, Robert M, Griebsch, Ingolf, Haywood, Kirstie, Hunn, Amanda, King-Kallimanis, Bellinda, Martin, Laura, Mitchell, Sandra, Morel, Thomas, Nelson, Linda, Norquist, Josephine, O'Connor, Daniel, Palmer, Michael, Patrick, Donald, Price, Gary, Regnault, Antoine, Retzer, Ameeta, Revicki, Dennis, Scott, Jane, Stephens, Richard, Turner, Grace, Valakas, Antonia, Velikova, Galina, von Hildebrand, Maria, Walker, Anita, and Wenzel, Lari
- Subjects
Humans ,Research Design ,Quality of Life ,Checklist ,Research Report ,Patient Reported Outcome Measures ,clinical trials ,education & training ,protocols & guidelines ,statistics & research methods ,Clinical Sciences ,Public Health and Health Services ,Other Medical and Health Sciences - Abstract
Patient-reported outcomes (PROs) are used in clinical trials to provide valuable evidence on the impact of disease and treatment on patients' symptoms, function and quality of life. High-quality PRO data from trials can inform shared decision-making, regulatory and economic analyses and health policy. Recent evidence suggests the PRO content of past trial protocols was often incomplete or unclear, leading to research waste. To address this issue, international, consensus-based, PRO-specific guidelines were developed: the Standard Protocol Items: Recommendations for Interventional Trials (SPIRIT)-PRO Extension. The SPIRIT-PRO Extension is a 16-item checklist which aims to improve the content and quality of aspects of clinical trial protocols relating to PRO data collection to minimise research waste, and ultimately better inform patient-centred care. This SPIRIT-PRO explanation and elaboration (E&E) paper provides information to promote understanding and facilitate uptake of the recommended checklist items, including a comprehensive protocol template. For each SPIRIT-PRO item, we provide a detailed description, one or more examples from existing trial protocols and supporting empirical evidence of the item's importance. We recommend this paper and protocol template be used alongside the SPIRIT 2013 and SPIRIT-PRO Extension paper to optimise the transparent development and review of trial protocols with PROs.
- Published
- 2021
34. Synthase-Selective Exploration of a Tunicate Microbiome by Activity-Guided Single-Cell Genomics
- Author
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Kim, Woojoo E, Charov, Katherine, Džunková, Mária, Becraft, Eric D, Brown, Julia, Schulz, Frederik, Woyke, Tanja, La Clair, James J, Stepanauskas, Ramunas, and Burkart, Michael D
- Subjects
Microbiology ,Biochemistry and Cell Biology ,Biological Sciences ,Human Genome ,Biotechnology ,Genetics ,2.1 Biological and endogenous factors ,Aetiology ,Animals ,Bacillus subtilis ,Carrier Proteins ,Ciona intestinalis ,Computational Biology ,Escherichia coli ,Flow Cytometry ,Genomics ,Microbiota ,Multigene Family ,Peptide Synthases ,Phylogeny ,Polyketides ,Secondary Metabolism ,Siderophores ,Single-Cell Analysis ,Chemical Sciences ,Organic Chemistry ,Biological sciences ,Chemical sciences - Abstract
While thousands of environmental metagenomes have been mined for the presence of novel biosynthetic gene clusters, such computational predictions do not provide evidence of their in vivo biosynthetic functionality. Using fluorescent in situ enzyme assay targeting carrier proteins common to polyketide (PKS) and nonribosomal peptide synthetases (NRPS), we applied fluorescence-activated cell sorting to tunicate microbiome to enrich for microbes with active secondary metabolic capabilities. Single-cell genomics uncovered the genetic basis for a wide biosynthetic diversity in the enzyme-active cells and revealed a member of marine Oceanospirillales harboring a novel NRPS gene cluster with high similarity to phylogenetically distant marine and terrestrial bacteria. Interestingly, this synthase belongs to a larger class of siderophore biosynthetic gene clusters commonly associated with pestilence and disease. This demonstrates activity-guided single-cell genomics as a tool to guide novel biosynthetic discovery.
- Published
- 2021
35. Opportunities and challenges for the computational interpretation of rare variation in clinically important genes
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McInnes, Gregory, Sharo, Andrew G, Koleske, Megan L, Brown, Julia EH, Norstad, Matthew, Adhikari, Aashish N, Wang, Sheng, Brenner, Steven E, Halpern, Jodi, Koenig, Barbara A, Magnus, David C, Gallagher, Renata C, Giacomini, Kathleen M, and Altman, Russ B
- Subjects
Pharmacology and Pharmaceutical Sciences ,Biological Sciences ,Biomedical and Clinical Sciences ,Genetics ,Patient Safety ,Clinical Research ,Machine Learning and Artificial Intelligence ,Human Genome ,Biotechnology ,Precision Medicine ,Cancer Genomics ,Cancer ,2.1 Biological and endogenous factors ,Aetiology ,Generic health relevance ,Good Health and Well Being ,Genetic Variation ,Genetics ,Medical ,Genome ,Human ,Genomics ,Humans ,Infant ,Newborn ,Machine Learning ,Metabolism ,Inborn Errors ,Pharmacogenetics ,Medical and Health Sciences ,Genetics & Heredity ,Biological sciences ,Biomedical and clinical sciences ,Health sciences - Abstract
Genome sequencing is enabling precision medicine-tailoring treatment to the unique constellation of variants in an individual's genome. The impact of recurrent pathogenic variants is often understood, however there is a long tail of rare genetic variants that are uncharacterized. The problem of uncharacterized rare variation is especially acute when it occurs in genes of known clinical importance with functionally consequential variants and associated mechanisms. Variants of uncertain significance (VUSs) in these genes are discovered at a rate that outpaces current ability to classify them with databases of previous cases, experimental evaluation, and computational predictors. Clinicians are thus left without guidance about the significance of variants that may have actionable consequences. Computational prediction of the impact of rare genetic variation is increasingly becoming an important capability. In this paper, we review the technical and ethical challenges of interpreting the function of rare variants in two settings: inborn errors of metabolism in newborns and pharmacogenomics. We propose a framework for a genomic learning healthcare system with an initial focus on early-onset treatable disease in newborns and actionable pharmacogenomics. We argue that (1) a genomic learning healthcare system must allow for continuous collection and assessment of rare variants, (2) emerging machine learning methods will enable algorithms to predict the clinical impact of rare variants on protein function, and (3) ethical considerations must inform the construction and deployment of all rare-variation triage strategies, particularly with respect to health disparities arising from unbalanced ancestry representation.
- Published
- 2021
36. The Association of Intravitreal Anti-VEGF Injections With Kidney Function in Diabetic Retinopathy
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Bunge, Casey C., Dalal, Prarthana J., Gray, Elizabeth, Culler, Kasen, Brown, Julia J., Quaggin, Susan E., Srivastava, Anand, and Gill, Manjot K.
- Published
- 2023
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37. Editing fetal genomes is on the horizon − a medical anthropologist explains why ethical discussions with the target communities should happen sooner rather than later
- Author
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Brown, Julia
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Genomics ,News, opinion and commentary - Abstract
(The Conversation is an independent and nonprofit source of news, analysis and commentary from academic experts.) https://theconversation.com/profiles/julia-brown-117061, https://theconversation.com/institutions/university-of-california-san-francisco-689 (THE CONVERSATION) With their primary goal to advance scientific knowledge, most scientists [...]
- Published
- 2024
38. Contributors
- Author
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Agrawala, Paban K., primary, Alvarado, Christopher, additional, Amir, Mohammed, additional, Bernau, Ksenija, additional, Bhattacharya, Aditi, additional, Biswas, Biswajit, additional, Block, Megan, additional, Boosani, Anvitha, additional, Boosani, Chandra S., additional, Brasier, Allan R., additional, Brown, Julia A., additional, Chakraborty, Rajasree, additional, Das, Abhijit, additional, Dasari, Nikhitha, additional, DiStefano, Johanna K., additional, Dwarakanath, B.S., additional, Fukai, Tohru, additional, Gaikwad, Anil Bhanudas, additional, Gong, Fangyan, additional, Gornati, Rosalba, additional, Goswami, Ritobrata, additional, Gunasekar, Palanikumar, additional, Gupta, Noopur, additional, Hassan, Ebrahim Bani, additional, Jadhav, Gopal P., additional, Jain, Natasha Victoria, additional, Jiang, Fang, additional, Jiang, Wanlin, additional, Kreger, Jonathan, additional, Kulkarni, Yogesh A., additional, Le, Patricia N., additional, Liu, Lei, additional, Maini, Jayant, additional, Mondal, Papiya, additional, Nakai, Kenta, additional, Natarajan, Umamaheswari, additional, Olson, Michael T., additional, Pagiatakis, Christina, additional, Pandkar, Madhura R., additional, Pant, Amit M., additional, Papait, Roberto, additional, Patnaik, Srinivas, additional, Pelham, Christopher J., additional, Prakash, Anu, additional, Rathinavelu, Appu, additional, Sandbo, Nathan, additional, Sarkar, Subhajit, additional, Sharma, Ajay, additional, Sharma, Nisha, additional, Sharma, Vineeta, additional, Shiva, Niharika, additional, Shukla, Sanjeev, additional, Singh, Lakshman, additional, Singh, Sukhveer, additional, Singhal, Saurabh, additional, Srivastava, Vikas, additional, Sudhahar, Varadarajan, additional, Tiffon, Céline, additional, Ushio-Fukai, Masuko, additional, Vandenbon, Alexis, additional, Weng, Judy, additional, Woo, Jesse, additional, Wu, Xiumei, additional, Yadav, Pooja, additional, and Zeng, Melody Y., additional
- Published
- 2023
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39. Epigenetic modifications and regulation in infection
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Brown, Julia A., primary, Amir, Mohammed, additional, and Zeng, Melody Y., additional
- Published
- 2023
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40. Decoupling of respiration rates and abundance in marine prokaryoplankton
- Author
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Munson-McGee, Jacob H., Lindsay, Melody R., Sintes, Eva, Brown, Julia M., D’Angelo, Timothy, Brown, Joe, Lubelczyk, Laura C., Tomko, Paxton, Emerson, David, Orcutt, Beth N., Poulton, Nicole J., Herndl, Gerhard J., and Stepanauskas, Ramunas
- Published
- 2022
- Full Text
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41. Association of genetic variants with patient reported quality of life and pain experience in patients in the UK NCRI Myeloma X Relapse [Intensive]) trial; an exploratory study
- Author
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Snowden, John A., Ahmedzai, Sam H., Cox, Angela, Cairns, David A., Ashcroft, A. John, Williams, Cathy, Cavenagh, Jamie D., Hockaday, Anna, Brown, Julia M., Brock, Ian W., Morris, Treen C. M., and Cook, Gordon
- Published
- 2022
- Full Text
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42. Efficient and flexible simulation-based sample size determination for clinical trials with multiple design parameters
- Author
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Wilson, Duncan T., Walwyn, Rebecca E. A., Hooper, Richard, Brown, Julia, and Farrin, Amanda J.
- Subjects
Statistics - Methodology - Abstract
Simulation offers a simple and flexible way to estimate the power of a clinical trial when analytic formulae are not available. The computational burden of using simulation has, however, restricted its application to only the simplest of sample size determination problems, minimising a single parameter (the overall sample size) subject to power being above a target level. We describe a general framework for solving simulation-based sample size determination problems with several design parameters over which to optimise and several conflicting criteria to be minimised. The method is based on an established global optimisation algorithm widely used in the design and analysis of computer experiments, using a non-parametric regression model as an approximation of the true underlying power function. The method is flexible, can be used for almost any problem for which power can be estimated using simulation, and can be implemented using existing statistical software packages. We illustrate its application to three increasingly complicated sample size determination problems involving complex clustering structures, co-primary endpoints, and small sample considerations.
- Published
- 2019
- Full Text
- View/download PDF
43. Bayesian design and analysis of external pilot trials for complex interventions
- Author
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Wilson, Duncan T., Wason, James M. S., Brown, Julia, Farrin, Amanda J., and Walwyn, Rebecca E. A.
- Subjects
Statistics - Methodology - Abstract
External pilot trials of complex interventions are used to help determine if and how a confirmatory trial should be undertaken, providing estimates of parameters such as recruitment, retention and adherence rates. The decision to progress to the confirmatory trial is typically made by comparing these estimates to pre-specified thresholds known as progression criteria, although the statistical properties of such decision rules are rarely assessed. Such assessment is complicated by several methodological challenges, including the simultaneous evaluation of multiple endpoints, complex multi-level models, small sample sizes, and uncertainty in nuisance parameters. In response to these challenges, we describe a Bayesian approach to the design and analysis of external pilot trials. We show how progression decisions can be made by minimising the expected value of a loss function, defined over the whole parameter space to allow for preferences and trade-offs between multiple parameters to be articulated and used in the decision making process. The assessment of preferences is kept feasible by using a piecewise constant parameterisation of the loss function, the parameters of which are chosen at the design stage to lead to desirable operating characteristics. We describe a flexible, yet computationally intensive, nested Monte Carlo algorithm for estimating operating characteristics. The method is used to revisit the design of an external pilot trial of a complex intervention designed to increase the physical activity of care home residents.
- Published
- 2019
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44. A hypothesis test of feasibility for external pilot trials assessing recruitment, follow-up and adherence rates
- Author
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Wilson, Duncan T., Walwyn, Rebecca E. A., Brown, Julia, and Farrin, Amanda J.
- Subjects
Statistics - Methodology - Abstract
The power of a large clinical trial can be adversely affected by low recruitment, follow-up and adherence rates. External pilot trials estimate these rates and use them, via pre-specified decision rules, to determine if the definitive trial is feasible and should go ahead. There is little methodological research underpinning how these decision rules, or the sample size of the pilot, should be chosen. In this paper we propose a hypothesis test of the feasibility of a definitive trial, to be applied to the external pilot data and used to make progression decisions. We quantify feasibility by the power of the planned trial, as a function of recruitment, follow-up and adherence rates. We use this measure to define hypotheses to test in the pilot, propose a test statistic, and show how the error rates of this test can be calculated for the common scenario of a two-arm parallel group definitive trial with a single normally distributed primary endpoint. We use our method to re-design TIGA-CUB, an external pilot trial comparing a psychotherapy with treatment as usual for children with conduct disorders. We then extend our formulation to include using the pilot data to estimate the standard deviation of the primary endpoint. and incorporate this into the progression decision.
- Published
- 2019
- Full Text
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45. How much do we throw away in the intensive care unit? An observational point prevalence study of Australian and New Zealand ICUs
- Author
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Hammond, Naomi, Knowles, Serena, Freeman-Sanderson, Amy, Ganu, Subodh, Howe, Belinda, Litton, Ed, Mackle, Diane, Saxena, Manoj, Seppelt, Ian, Towns, Miriam, Yarad, Elizabeth, Hammond, Gao, Annie, Li, Yang, Myburgh, John, Nangla, Conrad, Butt, Fatima, Duke, Graeme, Hunter, Stephanie, Evans, Julie, Parker, Dianne, Loughnan, Clare, Thomas, Blessy, Gilder, Eileen, Robertson, Melissa, McMahon, Ellie, Ali, Farisha, Cowdrey, Keri-Anne, McArthur, Colin, Chen, Yan, Simmonds, Catherine, McConnochie, Rachael, O'Connor, Caroline, El-Khawas, Khaled, Hill, Dianne, Cattigan, Claire, Horton, Michelle, Trickey, Jemma, Knott, Cameron, Smith, Julie, Boschert, Catherine, Sara, Treena, Nand, Kiran, Ramanan, Mahesh, Marella, Prashanti, Affleck, Julia, Simpson, Shannon, Ellem, Katrina, McKenna, Toni, Nourse, Mary, Leung, Kristine, Edmunds, Tash, McDonald, Bree, Mehrtens, Jan, Cross, Rosalba, Wong, Helen, Twardowski, Pawel, France, Dawn, Hanlon, Gabrielle, Barrett, Jonathan, Palermo, Annamaria, Pellicano, Susan, Eroglu, Ege, Bihari, Shailesh, Brown, Julia, Grear, Laura, Jin, Xia, French, Craig, Bates, Samantha, Marshall, Fiona, McEldrew, Rebecca, McCullough, James, Tallott, Mandy, Gough, Maimoonbe, Nalos, Marek, Younger, Laura, Krishnamurphy, Ravi, Trent, Louise, How, Janet, Stuart, Anne, Chadwick, Llesley, Bhadange, Neeraj, Tyler, Steven, Sosnowski, Kellie, Morrison, Lynette, Sutton, Joanne, Soar, Natalie, Lee, David, Doyle, Marina, Jongebloed, Katherine, Finnis, Mackenzie, Wilson, Jane, Williams, Tony, Song, Rima, Lai, Vivian, Girijadevi, Dinu, Habraken, Hannah, Browne, Alex, Koelle, Jette, McNab, Charlotte, Masters, Kristy, Gresham, Rebecca, Lowrey, Julie, Whitehead, Christina, Liang, Janet, Harward, Meg, Jones, Cassie, Peake, Sandra, Williams, Tricia, Kurenda, Catherine, Tabah, Alexis, Duroux, Maree, Warhurst, Timothy, Ratcliffe, Megan, Pollock, Hamish, Baker, Stuart, Sonawane, Ravikiran, O'Connor, Stephanie, Brown, Nerissa, Glasby, Kathleen, Rivett, Justine, Campbell, Lewis, Tabuzo, Vera, Smyth, Kirsty, Bass, Frances, O'Connor, Anne, Leonard, Anton, Waterson, Sharon, Coles, Jennifer, Buhr, Heidi, Newman, Duncan, Boorawong, Piyaporn, Bregolin, Vanessa, Yun, Ji-Hyun, Anstey, Matthew, Rock, Lara, Endemann, Anthadene, Lo, Wei, Ferrier, Janet, Reynolds, Claire, Santamaria, John, Holmes, Jennifer, Beca, John, Sherring, Claire, Garrett, Peter, Murray, Lauren, Brailsford, Jane, Browne, Troy, Goodson, Jennifer, Udy, Andrew, Young, Meredith, Board, Jasmin, McCracken, Phoebe, Martin, Emma-Leah, Martynoga, Robert, Butler, Amelia, Trask, Kara, Olatunji, Shaanti, Cruz, Rhoze Sol, Cruz, Raulle Sol, Navarra, Leanlove, Delaney, Kirsha, Lesona, Eden, Young, Chelsea, Spring, Amelia, Aguilar, April, Young, Paul, Law, Erin, Anstey, Matthew H., Bhonagiri, Deepak, Hammond, Naomi E., and McGain, Forbes
- Published
- 2023
- Full Text
- View/download PDF
46. Development and validation of a patient reported outcome measure for health-related quality of life for locally recurrent rectal cancer: a multicentre, three-phase, mixed-methods, cohort study
- Author
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Harji, Deena P., Koh, Cherry, McKigney, Niamh, Solomon, Michael J., Griffiths, Ben, Evans, Martyn, Heriot, Alexander, Sagar, Peter M., Velikova, Galina, and Brown, Julia M.
- Published
- 2023
- Full Text
- View/download PDF
47. Ibrutinib and rituximab versus fludarabine, cyclophosphamide, and rituximab for patients with previously untreated chronic lymphocytic leukaemia (FLAIR): interim analysis of a multicentre, open-label, randomised, phase 3 trial
- Author
-
Hillmen, Peter, Pitchford, Alexandra, Bloor, Adrian, Broom, Angus, Young, Moya, Kennedy, Ben, Walewska, Renata, Furtado, Michelle, Preston, Gavin, Neilson, Jeffrey R, Pemberton, Nicholas, Sidra, Gamal, Morley, Nicholas, Cwynarski, Kate, Schuh, Anna, Forconi, Francesco, Elmusharaf, Nagah, Paneesha, Shankara, Fox, Christopher P, Howard, Dena R, Hockaday, Anna, Brown, Julia M, Cairns, David A, Jackson, Sharon, Greatorex, Natasha, Webster, Nichola, Shingles, Jane, Dalal, Surita, Patten, Piers E M, Allsup, David, Rawstron, Andrew, and Munir, Talha
- Published
- 2023
- Full Text
- View/download PDF
48. Hiding in Plain Sight: The Globally Distributed Bacterial Candidate Phylum PAUC34f
- Author
-
Chen, Michael L, Becraft, Eric D, Pachiadaki, Maria, Brown, Julia M, Jarett, Jessica K, Gasol, Josep M, Ravin, Nikolai V, Moser, Duane P, Nunoura, Takuro, Herndl, Gerhard J, Woyke, Tanja, and Stepanauskas, Ramunas
- Subjects
Microbiology ,Biological Sciences ,Ecology ,Life Below Water ,microbial ecology ,uncultivated bacteria ,microbial genomics ,dark ocean ,host-association ,Environmental Science and Management ,Soil Sciences ,Medical microbiology - Abstract
Bacterial candidate phylum PAUC34f was originally discovered in marine sponges and is widely considered to be composed of sponge symbionts. Here, we report 21 single amplified genomes (SAGs) of PAUC34f from a variety of environments, including the dark ocean, lake sediments, and a terrestrial aquifer. The diverse origins of the SAGs and the results of metagenome fragment recruitment suggest that some PAUC34f lineages represent relatively abundant, free-living cells in environments other than sponge microbiomes, including the deep ocean. Both phylogenetic and biogeographic patterns, as well as genome content analyses suggest that PAUC34f associations with hosts evolved independently multiple times, while free-living lineages of PAUC34f are distinct and relatively abundant in a wide range of environments.
- Published
- 2020
49. Ancestral Absence of Electron Transport Chains in Patescibacteria and DPANN
- Author
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Beam, Jacob P, Becraft, Eric D, Brown, Julia M, Schulz, Frederik, Jarett, Jessica K, Bezuidt, Oliver, Poulton, Nicole J, Clark, Kayla, Dunfield, Peter F, Ravin, Nikolai V, Spear, John R, Hedlund, Brian P, Kormas, Konstantinos A, Sievert, Stefan M, Elshahed, Mostafa S, Barton, Hazel A, Stott, Matthew B, Eisen, Jonathan A, Moser, Duane P, Onstott, Tullis C, Woyke, Tanja, and Stepanauskas, Ramunas
- Subjects
Microbiology ,Biological Sciences ,Genetics ,Human Genome ,Generic health relevance ,Bacteria ,Archaea ,evolution ,genomics fermentation ,respiration ,oxidoreductases ,Environmental Science and Management ,Soil Sciences ,Medical microbiology - Abstract
Recent discoveries suggest that the candidate superphyla Patescibacteria and DPANN constitute a large fraction of the phylogenetic diversity of Bacteria and Archaea. Their small genomes and limited coding potential have been hypothesized to be ancestral adaptations to obligate symbiotic lifestyles. To test this hypothesis, we performed cell-cell association, genomic, and phylogenetic analyses on 4,829 individual cells of Bacteria and Archaea from 46 globally distributed surface and subsurface field samples. This confirmed the ubiquity and abundance of Patescibacteria and DPANN in subsurface environments, the small size of their genomes and cells, and the divergence of their gene content from other Bacteria and Archaea. Our analyses suggest that most Patescibacteria and DPANN in the studied subsurface environments do not form specific physical associations with other microorganisms. These data also suggest that their unusual genomic features and prevalent auxotrophies may be a result of ancestral, minimal cellular energy transduction mechanisms that lack respiration, thus relying solely on fermentation for energy conservation.
- Published
- 2020
50. Glycolytic lactate in diabetic kidney disease
- Author
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Darshi, Manjula, primary, Kugathasan, Luxcia, additional, Maity, Soumya, additional, Sridhar, Vikas S., additional, Fernandez, Roman, additional, Limonte, Christine P., additional, Grajeda, Brian I., additional, Saliba, Afaf, additional, Zhang, Guanshi, additional, Drel, Viktor R., additional, Kim, Jiwan J., additional, Montellano, Richard, additional, Tumova, Jana, additional, Montemayor, Daniel, additional, Wang, Zhu, additional, Liu, Jian-Jun, additional, Wang, Jiexun, additional, Perkins, Bruce A., additional, Lytvyn, Yuliya, additional, Natarajan, Loki, additional, Lim, Su Chi, additional, Feldman, Harold, additional, Toto, Robert, additional, Sedor, John R., additional, Patel, Jiten, additional, Waikar, Sushrut S., additional, Brown, Julia, additional, Osman, Yahya, additional, He, Jiang, additional, Chen, Jing, additional, Reeves, W. Brian, additional, de Boer, Ian H., additional, Roy, Sourav, additional, Vallon, Volker, additional, Hallan, Stein, additional, Gelfond, Jonathan A.L., additional, Cherney, David Z.I., additional, and Sharma, Kumar, additional
- Published
- 2024
- Full Text
- View/download PDF
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