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JOURNAL ARTICLE
Soichi Hayashi, Bradley A Caron, Anibal Sólon Heinsfeld, Sophia Vinci-Booher, Brent McPherson, Daniel N Bullock, Giulia Bertò, Guiomar Niso, Sandra Hanekamp, Daniel Levitas, Kimberly Ray, Anne MacKenzie, Paolo Avesani, Lindsey Kitchell, Josiah K Leong, Filipi Nascimento-Silva, Serge Koudoro, Hanna Willis, Jasleen K Jolly, Derek Pisner, Taylor R Zuidema, Jan W Kurzawski, Kyriaki Mikellidou, Aurore Bussalb, Maximilien Chaumon, Nathalie George, Christopher Rorden, Conner Victory, Dheeraj Bhatia, Dogu Baran Aydogan, Fang-Cheng F Yeh, Franco Delogu, Javier Guaje, Jelle Veraart, Jeremy Fischer, Joshua Faskowitz, Ricardo Fabrega, David Hunt, Shawn McKee, Shawn T Brown, Stephanie Heyman, Vittorio Iacovella, Amanda F Mejia, Daniele Marinazzo, R Cameron Craddock, Emanuale Olivetti, Jamie L Hanson, Eleftherios Garyfallidis, Dan Stanzione, James Carson, Robert Henschel, David Y Hancock, Craig A Stewart, David Schnyer, Damian O Eke, Russell A Poldrack, Steffen Bollman, Ashley Stewart, Holly Bridge, Ilaria Sani, Winrich A Freiwald, Aina Puce, Nicholas L Port, Franco Pestilli
Neuroscience is advancing standardization and tool development to support rigor and transparency. Consequently, data pipeline complexity has increased, hindering FAIR (findable, accessible, interoperable and reusable) access. brainlife.io was developed to democratize neuroimaging research. The platform provides data standardization, management, visualization and processing and automatically tracks the provenance history of thousands of data objects. Here, brainlife.io is described and evaluated for validity, reliability, reproducibility, replicability and scientific utility using four data modalities and 3,200 participants...
April 11, 2024: Nature Methods
#2
JOURNAL ARTICLE
Nada Kojak, Junko Kuno, Kristina E Fittipaldi, Ambereen Khan, David Wenger, Michael Glasser, Roberto A Donnianni, Yajun Tang, Jade Zhang, Katie Huling, Roxanne Ally, Alejandro O Mujica, Terrence Turner, Gina Magardino, Pei Yi Huang, Sze Yen Kerk, Gustavo Droguett, Marine Prissette, Jose Rojas, Teodoro Gomez, Anthony Gagliardi, Charleen Hunt, Jeremy S Rabinowitz, Guochun Gong, William Poueymirou, Eric Chiao, Brian Zambrowicz, Chia-Jen Siao, Daisuke Kajimura
Expansion of a G4C2 repeat in the C9orf72 gene is associated with familial Amyotrophic Lateral Sclerosis (ALS) and Frontotemporal Dementia (FTD). To investigate the underlying mechanisms of repeat instability, which occurs both somatically and intergenerationally, we created a novel mouse model of familial ALS/FTD that harbors 96 copies of G4C2 repeats at a humanized C9orf72 locus. In mouse embryonic stem cells, we observed two modes of repeat expansion. First, we noted minor increases in repeat length per expansion event, which was dependent on a mismatch repair pathway protein Msh2...
April 10, 2024: Nucleic Acids Research
#3
JOURNAL ARTICLE
Elizabeth G Hunt, Katie E Hurst, Brian P Riesenberg, Andrew S Kennedy, Evelyn J Gandy, Alex M Andrews, Coral Del Mar Alicea Pauneto, Lauren E Ball, Emily D Wallace, Peng Gao, Jeremy Meier, John J Serody, Michael F Coleman, Jessica E Thaxton
The solid tumor microenvironment (TME) imprints a compromised metabolic state in tumor-infiltrating T cells (TILs), hallmarked by the inability to maintain effective energy synthesis for antitumor function and survival. T cells in the TME must catabolize lipids via mitochondrial fatty acid oxidation (FAO) to supply energy in nutrient stress, and it is established that T cells enriched in FAO are adept at cancer control. However, endogenous TILs and unmodified cellular therapy products fail to sustain bioenergetics in tumors...
March 11, 2024: Cell Metabolism
#4
JOURNAL ARTICLE
Angela Hayward, Benjamin J Hunt, Julian Haas, Ellie Bushnell-Crowther, Bartlomiej J Troczka, Adam Pym, Katherine Beadle, Jeremy Field, David R Nelson, Ralf Nauen, Chris Bass
Recent work has demonstrated that many bee species have specific cytochrome P450 enzymes (P450s) that can efficiently detoxify certain insecticides. The presence of these P450s, belonging or closely related to the CYP9Q subfamily (CYP9Q-related), is generally well conserved across the diversity of bees. However, the alfalfa leafcutter bee, Megachile rotundata , lacks CYP9Q-related P450s and is 170-2500 times more sensitive to certain insecticides than bee pollinators with these P450s. The extent to which these findings apply to other Megachilidae bee species remains uncertain...
January 2024: Evolutionary Applications
#5
JOURNAL ARTICLE
Allison L Hunt, Nicholas W Bateman, Waleed Barakat, Sasha C Makohon-Moore, Tamara Abulez, Jordan A Driscoll, Joshua P Schaaf, Brian L Hood, Kelly A Conrads, Ming Zhou, Valerie Calvert, Mariaelena Pierobon, Jeremy Loffredo, Katlin N Wilson, Tracy J Litzi, Pang-Ning Teng, Julie Oliver, Dave Mitchell, Glenn Gist, Christine Rojas, Brian Blanton, Kathleen M Darcy, Uma N M Rao, Emanuel F Petricoin, Neil T Phippen, G Larry Maxwell, Thomas P Conrads
BACKGROUND: Although uterine serous carcinoma (USC) represents a small proportion of all uterine cancer cases, patients with this aggressive subtype typically have high rates of chemotherapy resistance and disease recurrence that collectively result in a disproportionately high death rate. The goal of this study was to provide a deeper view of the tumor microenvironment of this poorly characterized uterine cancer variant through multi-region microsampling and quantitative proteomics. METHODS: Tumor epithelium, tumor-involved stroma, and whole "bulk" tissue were harvested by laser microdissection (LMD) from spatially resolved levels from nine USC patient tumor specimens and underwent proteomic analysis by mass spectrometry and reverse phase protein arrays, as well as transcriptomic analysis by RNA-sequencing for one patient's tumor...
January 22, 2024: Clinical Proteomics
#6
JOURNAL ARTICLE
Cynthia X Ma, Vera J Suman, Souzan Sanati, Kiran Vij, Meenakshi Anurag, A Marilyn Leitch, Gary W Unzeitig, Jeremy Hoog, Aranzazu Fernandez-Martinez, Cheng Fan, Richard A Gibbs, Mark A Watson, Travis J Dockter, Olwen Hahn, Joseph M Guenther, Abigail Caudle, Erika Crouch, Amy Tiersten, Monica Mita, Wajeeha Razaq, Tina J Hieken, Yang Wang, Mothaffar F Rimawi, Anna Weiss, Eric P Winer, Kelly K Hunt, Charles M Perou, Matthew J Ellis, Ann H Partridge, Lisa A Carey
IMPORTANCE: Adding fulvestrant to anastrozole (A+F) improved survival in postmenopausal women with advanced estrogen receptor (ER)-positive/ERBB2 (formerly HER2)-negative breast cancer. However, the combination has not been tested in early-stage disease. OBJECTIVE: To determine whether neoadjuvant fulvestrant or A+F increases the rate of pathologic complete response or ypT1-2N0/N1mic/Ki67 2.7% or less residual disease (referred to as endocrine-sensitive disease) over anastrozole alone...
January 18, 2024: JAMA Oncology
#7
JOURNAL ARTICLE
Shelby C Carlson, John A Vucetich, L Mark Elbroch, Shelby Perry, Lydia A Roe, Tom Butler, Jeremy T Bruskotter
A critical but underattended feature of the biodiversity crisis is the contraction of geographic range experienced by most studied terrestrial vertebrates. In the United States, the primary policy tool for mitigating the biodiversity crisis is a federal law, the Endangered Species Act (ESA). For the past two decades, the federal agencies that administer the ESA have interpreted the act in a manner that precludes treating this geographic element of the crisis. Therefore, the burden of mitigating the biodiversity crisis largely falls on wildlife agencies within state government, which are obligated to operate on behalf of the interests of their constituents...
December 2023: Bioscience
#8
JOURNAL ARTICLE
Felix Clay, Rachel Hunt, Neche Obiefuna, Jeremy E Solly, Emily Watson, Alison Wilkinson, Raminder Chohan, Catherine Hatfield, Paul C Fletcher, Benjamin R Underwood
This service evaluation reviewed inclusion of Immersive Virtual Reality (iVR) relaxation activities as part of routine occupational therapy sensory sessions on a specialist dementia unit. Twenty-five sessions were completed over 13 wk with 14 participants. Nine participants chose to engage in multiple sessions. Feasibility was assessed through participant engagement and tolerability. Modal first session length was in the range 30 s to 2 min . This increased to over 2 min on second sessions...
November 7, 2023: Occupational Therapy in Health Care
#9
JOURNAL ARTICLE
Jonathan P Traylor, Randall J Hunt, Jeremy White, Michael N Fienen
No abstract text is available yet for this article.
October 28, 2023: Ground Water
#10
JOURNAL ARTICLE
Jeremy P Koelmel, Michael Kummer, Olivier Chevallier, Ralph Hindle, Kathy Hunt, Camden G Camacho, Nandarani Abril, Emily L Gill, Christopher W W Beecher, Timothy J Garrett, Richard A Yost, Timothy G Townsend, Christian Klein, Emma E Rennie, John A Bowden, Krystal J Godri Pollitt
Per- and polyfluoroalkyl substances (PFAS) are widespread, persistent environmental contaminants that have been linked to various health issues. Comprehensive PFAS analysis often relies on ultra-high-performance liquid chromatography coupled with high-resolution mass spectrometry (UHPLC HRMS) and molecular fragmentation (MS/MS). However, the selection and fragmentation of ions for MS/MS analysis using data-dependent analysis results in only the topmost abundant ions being selected. To overcome these limitations, All Ions fragmentation (AIF) can be used alongside data-dependent analysis...
September 26, 2023: Journal of the American Society for Mass Spectrometry
#11
JOURNAL ARTICLE
Rui Qi, Esther Sammler, Claudia P Gonzalez-Hunt, Ivana Barraza, Nicholas Pena, Jeremy P Rouanet, Yahaira Naaldijk, Steven Goodson, Marie Fuzzati, Fabio Blandini, Kirk I Erickson, Andrea M Weinstein, Michael W Lutz, John B Kwok, Glenda M Halliday, Nicolas Dzamko, Shalini Padmanabhan, Roy N Alcalay, Cheryl Waters, Penelope Hogarth, Tanya Simuni, Danielle Smith, Connie Marras, Francesca Tonelli, Dario R Alessi, Andrew B West, Sruti Shiva, Sabine Hilfiker, Laurie H Sanders
Parkinson's disease (PD) is the most common neurodegenerative movement disorder, and neuroprotective or disease-modifying interventions remain elusive. High-throughput markers aimed at stratifying patients on the basis of shared etiology are required to ensure the success of disease-modifying therapies in clinical trials. Mitochondrial dysfunction plays a prominent role in the pathogenesis of PD. Previously, we found brain region-specific accumulation of mitochondrial DNA (mtDNA) damage in PD neuronal culture and animal models, as well as in human PD postmortem brain tissue...
August 30, 2023: Science Translational Medicine
#12
JOURNAL ARTICLE
Lauren Rowland, Brandon Smart, Anthony Brown, Gino M Dettorre, Yoshihiro Gocho, Jeremy Hunt, Wenjian Yang, Satoshi Yoshimura, Noemi Reyes, Guoqing Du, August John, Dylan Maxwell, Wendy Stock, Steven Kornblau, Mary V Relling, Hiroto Inaba, Ching-Hon Pui, Jean-Pierre Bourquin, Seth E Karol, Charles G Mullighan, William E Evans, Jun J Yang, Kristine R Crews
Resistance of acute lymphoblastic leukemia (ALL) cells to chemotherapy, whether present at diagnosis or acquired during treatment, is a major cause of treatment failure. Primary ALL cells are accessible for drug sensitivity testing at the time of new diagnosis or at relapse, but there are major limitations with current methods for determining drug sensitivity ex vivo. Here, we describe a functional precision medicine method using a fluorescence imaging platform to test drug sensitivity profiles of primary ALL cells...
August 5, 2023: Bio-protocol
#13
Soichi Hayashi, Bradley Caron, Anibal S Heinsfeld, Sophia Vinci-Booher, Brent C McPherson, Daniel N Bullock, Giulia Berto, J Guiomar Niso, Sandra Hanekamp, Daniel Levitas, Lindsey Kitchell, Josiah Leong, Filipi N Silva, Serge Koudoro, Hanna Willis, Jasleen Jolly, Derek Pisner, Taylor Zuidema, Jan Kurzwaski, Koulla Mikellidou, Aurore Bussalb, Christopher Rorden, Conner Victory, Dheeraj Bhatia, D Baran Aydogan, Frank C Yeh, Franco Delogu, Javier Guaje, Jelle Veraart, Jeremy Fischer, Joshua Faskowitz, Maximilien Chaumon, Ricardo Fabrega, David Hunt, Shawn McKee, Shaw T Brown, Stephanie Heyman, Vittorio Iacovella, Amanda Mejia, Daniele Marinazzo, Cameron Craddock, Emanuele Olivetti, Jamie Hanson, Paolo Avesani, Eleftherios Garyfallidis, Daniel Stanzione, James P Carson, Robert Henschel, David Y Hancock, Craig A Stewart, David Schnyer, Damian Eke, Russell A Poldrack, Nathalie George, Holly Bridge, Ilaria Sani, Winrich Freiwald, Aina Puce, Nicholas Port, Franco Pestilli
Neuroscience research has expanded dramatically over the past 30 years by advancing standardization and tool development to support rigor and transparency. Consequently, the complexity of the data pipeline has also increased, hindering access to FAIR (Findable, Accessible, Interoperabile, and Reusable) data analysis to portions of the worldwide research community. brainlife.io was developed to reduce these burdens and democratize modern neuroscience research across institutions and career levels. Using community software and hardware infrastructure, the platform provides open-source data standardization, management, visualization, and processing and simplifies the data pipeline...
June 8, 2023: ArXiv
#14
RANDOMIZED CONTROLLED TRIAL
Glenn Eastwood, Alistair D Nichol, Carol Hodgson, Rachael L Parke, Shay McGuinness, Niklas Nielsen, Stephen Bernard, Markus B Skrifvars, Dion Stub, Fabio S Taccone, John Archer, Demetrios Kutsogiannis, Josef Dankiewicz, Gisela Lilja, Tobias Cronberg, Hans Kirkegaard, Gilles Capellier, Giovanni Landoni, Janneke Horn, Theresa Olasveengen, Yaseen Arabi, Yew Woon Chia, Andrej Markota, Matthias Hænggi, Matt P Wise, Anders M Grejs, Steffen Christensen, Heidi Munk-Andersen, Asger Granfeldt, Geir Ø Andersen, Eirik Qvigstad, Arnljot Flaa, Matthew Thomas, Katie Sweet, Jeremy Bewley, Minna Bäcklund, Marjaana Tiainen, Manuela Iten, Anja Levis, Leah Peck, James Walsham, Adam Deane, Angajendra Ghosh, Filippo Annoni, Yan Chen, David Knight, Eden Lesona, Haytham Tlayjeh, Franc Svenšek, Peter J McGuigan, Jade Cole, David Pogson, Matthias P Hilty, Joachim P Düring, Michael J Bailey, Eldho Paul, Bridget Ady, Kate Ainscough, Anna Hunt, Sinéad Monahan, Tony Trapani, Ciara Fahey, Rinaldo Bellomo
BACKGROUND: Guidelines recommend normocapnia for adults with coma who are resuscitated after out-of-hospital cardiac arrest. However, mild hypercapnia increases cerebral blood flow and may improve neurologic outcomes. METHODS: We randomly assigned adults with coma who had been resuscitated after out-of-hospital cardiac arrest of presumed cardiac or unknown cause and admitted to the intensive care unit (ICU) in a 1:1 ratio to either 24 hours of mild hypercapnia (target partial pressure of arterial carbon dioxide [Paco2 ], 50 to 55 mm Hg) or normocapnia (target Paco2 , 35 to 45 mm Hg)...
July 6, 2023: New England Journal of Medicine
#15
JOURNAL ARTICLE
Jeremy Harper, Sylia Wilson, Jessica L Bair, Ruskin H Hunt, Kathleen M Thomas, Stephen M Malone, William G Iacono
BACKGROUND: Alcohol, cannabis, and nicotine use are highly comorbid and alarmingly prevalent in young adults. The hippocampus may be particularly sensitive to substance exposure. This remains largely untested in humans and familial risk may confound exposure effects. We extend prior work on alcohol and hippocampal volume in women by testing common and unique substance use effects and the potential moderating role of sex on hippocampal volume during emerging adulthood. A quasi-experimental cotwin control (CTC) design was used to separate familial risk from exposure consequences...
April 2023: Psychological Medicine
#16
JOURNAL ARTICLE
Ryan K Logan, Jeremy J Vaudo, Bradley M Wetherbee, Mahmood S Shivji
Pelagic predators must contend with low prey densities that are irregularly distributed and dynamic in space and time. Based on satellite imagery and telemetry data, many pelagic predators will concentrate horizontal movements on ephemeral surface fronts-gradients between water masses-because of enhanced local productivity and increased forage fish densities. Vertical fronts (e.g. thermoclines, oxyclines) can be spatially and temporally persistent, and aggregate lower trophic level and diel vertically migrating organisms due to sharp changes in temperature, water density or available oxygen...
June 7, 2023: Journal of Animal Ecology
#17
JOURNAL ARTICLE
Ryan C Blejewski, Justin T Van Heukelom, Jeremy S Langford, Katelyn H Hunt, Isabelle R Rinkert, Thomas J Wagner, Raymond C Pitts, Christine E Hughes
μ-Opioid agonists (e.g., morphine) typically increase impulsive choice, which has been interpreted as an opioid-induced increase in sensitivity to reinforcement delay. Relatively little research has been done with opioids other than morphine (e.g., oxycodone), or on sex differences in opioid effects, on impulsive choice. The present study investigated the effects of acute (0.1-1.0 mg/kg) and chronic (1.0 mg/kg twice/day) administration of oxycodone on choice controlled by reinforcement delay, a primary mechanism implicated in impulsive choice, in female and male rats...
May 18, 2023: Experimental and Clinical Psychopharmacology
#18
JOURNAL ARTICLE
Jagdev Singh, Dominic A Fitzgerald, Adam Jaffe, Sharon Hunt, Jeremy J Barr, Jonathan Iredell, Hiran Selvadurai
INTRODUCTION: Cystic fibrosis (CF) is a multisystem condition that is complicated by recurrent pulmonary infections requiring aggressive antibiotic treatment. This predisposes the patient to complications such as sensorineural hearing loss, renal impairment, hypersensitivity and the development of antibiotic resistance. Pseudomonas aeruginosa is one of the more common organisms which cause recurrent infections and result in greater morbidity and mortality in people living with CF. Bacteriophages have been identified as a potential alternative or adjunct to antibiotics...
May 2023: BMJ Open Respiratory Research
#19
JOURNAL ARTICLE
Reza M Taghavi, Guangming Zhu, Max Wintermark, Gabriella M Kuraitis, Eric S Sussman, Benjamin Pulli, Brook Biniam, Sophie Ostmeier, Gary K Steinberg, Jeremy J Heit
BACKGROUND: Aneurysmal subarachnoid hemorrhage results in significant mortality and disability, which is worsened by the development of delayed cerebral ischemia. Tests to identify patients with delayed cerebral ischemia prospectively are of high interest. OBJECTIVE: We created a machine learning system based on clinical variables to predict delayed cerebral ischemia in aneurysmal subarachnoid hemorrhage patients. We also determined which variables have the most impact on delayed cerebral ischemia prediction using SHapley Additive exPlanations method...
April 17, 2023: Interventional Neuroradiology
#20
JOURNAL ARTICLE
Jeremy Larroque, Niko Balkenhol
Estimates of wildlife population size are critical for conservation and management, but accurate estimates are difficult to obtain for many species. Several methods have recently been developed that estimate abundance using kinship relationships observed in genetic samples, particularly parent-offspring pairs. While these methods are similar to traditional Capture-Mark-Recapture, they do not need physical recapture, as individuals are considered recaptured if a sample contains one or more close relatives. This makes methods based on genetically-identified parent-offspring pairs particularly interesting for species for which releasing marked animals back into the population is not desirable or not possible ( e...
2023: PeerJ
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