424 results on '"Goodman JM"'
Search Results
2. Towards quantifying the uncertainty in in silico predictions using Bayesian learning
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Allen, TEH, Middleton, AM, Goodman, JM, Russell, PJ, Kukic, P, Gutsell, S, Goodman, Jonathan [0000-0002-8693-9136], and Apollo - University of Cambridge Repository
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34 Chemical Sciences ,Clinical Research ,Health, Toxicology and Mutagenesis ,Bioengineering ,Generic health relevance ,3404 Medicinal and Biomolecular Chemistry ,Toxicology ,Computer Science Applications - Abstract
Next-generation risk assessment (NGRA) involves the combination of in vitro and in silico models for more human-relevant, ethical, and sustainable human chemical safety assessment. NGRA requires a quantitative mechanistic understanding of the effects of chemicals across human biology (be they molecular, cellular, organ-level or higher) coupled with a quantitative understanding of the uncertainty in any experimentally measured or predicted values. These values with their uncertainties can then be considered as a probability distribution, which can then be compared to exposure estimates to establish the presence or absence of a margin of safety. We have constructed Bayesian learning neural networks to provide such quantitative predictions and uncertainties for 20 pharmacologically important human molecular initiating events. These models produce high quality quantitative estimates (p(IC50), p(EC50), p(Ki), p(Kd)) of biochemical activity at a molecular initiating event (MIE) with average mean absolute errors (in Log units) of 0.625 ± 0.048 in test data and 0.941 ± 0.215 in external validation data. The key advantage of these models is their ability to also produce standard deviations and credible intervals (CIs) to quantify the uncertainty in these predictions, which we show to be able to distinguish between molecules close to the training data in chemical structure, those less similar to the training data, and decoy compounds drawn from the wider ChEMBL database. These uncertainty values mean that when a prediction is made a user can understand the certainty of the prediction, similar to a quantitative applicability domain, aiding prediction usefulness in NGRA. The ability for in silico methods to produce quantitative predictions with these kinds of probability distributions will be vital to their further use in NGRA, and here clear first steps have been taken.
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- 2022
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3. High-dimensional control of volitional hand movements.
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UCL - SST/ICTM/INMA - Pôle en ingénierie mathématique, Yan, Y, Moore, DD, Goodman, JM, Delhaye, Benoit, Bensmaia, SJ, Society for Neuroscience Annual Meeting, UCL - SST/ICTM/INMA - Pôle en ingénierie mathématique, Yan, Y, Moore, DD, Goodman, JM, Delhaye, Benoit, Bensmaia, SJ, and Society for Neuroscience Annual Meeting
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- 2018
4. Transfer Hydrogenation of ortho-Hydroxybenzophenone Ketimines Catalysed by BINOL-derived Phosphoric Acid Occurs by a 14-Membered Bifunctional Transition Structure
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Reid, JP, Goodman, JM, Goodman, Jonathan [0000-0002-8693-9136], and Apollo - University of Cambridge Repository
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inorganic chemicals ,0306 Physical Chemistry (incl. Structural) ,organic chemicals - Abstract
Chiral BINOL-derived phosphoric acids catalyse the transfer hydrogenation of ketimines using Hantszch esters. In many cases the nitrogen on the imine binds to the catalyst through the catalyst hydroxyl group and the nucleophile forms a second hydrogen bond to the phosphoryl oxygen. DFT and ONIOM calculations show that the introduction of an ortho- hydroxyaryl group on the carbon atom of the ketimine leads the reaction to proceed through a 14-membered bifunctional mechanism. The transition states of these reactions involve both hydrogen bonding from the hydroxyl group on the imine and the nucleophile’s proton to the phosphate catalyst. This mechanistic pathway is lower in energy than the conventional route, consistent with the experimentally observed increased rates of reaction relative to imines that are not derived from ortho-hydroxybenzophenone. To complement the high-level calculations, an accessible qualitative model has been developed that predicts the correct sense of stereoinduction for all examples.
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- 2017
5. Community Readiness for Adopting a Physical Activity Program for People With Arthritis in West Virginia
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Jones, DL, primary, Settipalli, S, additional, Goodman, JM, additional, Hootman, JM, additional, and Goins, RT, additional
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- 2012
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6. Computer-assisted design of chiral boron enolates: The role of ate complexes in determining aldol stereoselectivity
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Bernardi, A, Comotti, A, Gennari, C, Hewkin, C, Goodman, J, Schlapbach, A, Paterson, I, COMOTTI, ANGIOLINA, Hewkin, CT, Goodman, JM, Paterson, I., Bernardi, A, Comotti, A, Gennari, C, Hewkin, C, Goodman, J, Schlapbach, A, Paterson, I, COMOTTI, ANGIOLINA, Hewkin, CT, Goodman, JM, and Paterson, I.
- Abstract
Transition-state modelling for the aldol reaction of chiral Z and E enol borinates (1 and 2, Scheme 1) bearing mixed ligands (L 1 = Ipc, L 2 = 9) predicted higher enantioselectivities than those calculated and experimentally tested with C 2 symmetric systems (L 1 = L 2 = Ipc, L 1 = L 2 = 9). Reagent 8 was prepared and used to generate E enol borinates 24, which reacted with aldehydes to give the anti aldol products 25-28 with substantially lower enantiomeric excesses than predicted. This unexpected result suggested that ate complex formation may be an important factor in controlling the selectivity of the boron-mediated aldol reaction. In particular, the presence of two different ligands on boron makes it a prostereogenic centre, and two diastereomeric ate complexes (29 and 30) can be formed on aldehyde complexation. These ate complexes are calculated to display different re: si face selectivities. The experimental results are similar to the ones predicted if the aldol reaction proceeds via the less selective ate complex 29
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- 1994
7. Developing a force field for the transition state of the aldol reactions of enolborinates: Evaluation of the use of fixed point charges
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Bernardi, A, Cassinari, A, Comotti, A, Gardner, M, Gennari, C, Goodman, J, Paterson, I, Goodman, JM, Paterson, I., Bernardi, A, Cassinari, A, Comotti, A, Gardner, M, Gennari, C, Goodman, J, Paterson, I, Goodman, JM, and Paterson, I.
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A method for assigning atom-centred point charges, within the constraints of the MacroModel implementation of the MM2 force field, is described. The method has been applied to obtain charges with sensible magnitudes for the transition structures of boron enolate aldol reactions. The effect of these new charges on the aldol force field model is discussed, and it is concluded that atom-centred point charges do not help in the analysis of this transition state, and a more flexible system for the treatment of electrostatics is essential
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- 1992
8. The Rational Design of Highly Stereoselective Boron Enolates Using Transition-State Computer Modeling: A Novel, Asymmetric Anti Aldol Reaction for Ketones
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Gennari, C, Hewkin, C, Molinari, F, Bernardi, A, Comotti, A, Goodman, J, Paterson, I, Hewkin, CT, COMOTTI, ANGIOLINA, Goodman, JM, Paterson, I., Gennari, C, Hewkin, C, Molinari, F, Bernardi, A, Comotti, A, Goodman, J, Paterson, I, Hewkin, CT, COMOTTI, ANGIOLINA, Goodman, JM, and Paterson, I.
- Abstract
The design and development of highly enantioselective anti aldol reactions based on computer-aided transition-state modeling is reported. The new chiral boron ligand L = 6 was conceived based on its conformational preferences and on minimization of (±) double gauche pentane interactions. Modeling the transition structures for the aldol reaction of Z enolates 1 (L = 6) predicted a selectivity which is equal to or slightly lower than that calculated and experimentally tested with L = Ipc (isopinocampheyl) (see Table I). The predictions for E enol borinates (2) were synthetically more interesting: the new ligand (6) was calculated to be much more selective than Ipc (see Table II). Preparation of the boron reagent {[(Menth)CH2]2BCl-OEt2} (11) necessary for the synthesis of ligand 6-derived E enolates is reported, starting from commercially available enantiomerically pure (-)-menthone. Enolization of a range of cyclic and acyclic ketones {[(Menth)CH2]2BCl-OEt2, Et3N, 1:1 CH2Cl2-Et2O, -78°C} and addition of an aldehyde (-78°C) gave anti aldols with high diastereoselectivity (86:14 to 100:0 anti:syn) and in good enantiomeric excess (56-88% ee). These conditions ensured high stereoselectivity toward formation of the E enolate (2), which then reacted preferentially by attack on the re face of the aldehyde (re:si 3.5:1 Io 15.6:1). Also in the aldol reactions with methyl ketone enolates (3) the new reagent compared favorably with the existing methods.
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- 1992
9. Origins of stereoselectivity in chiral boron enolate aldol reactions: A computational study using transition state modelling
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Bernardi, A, Capelli, A, Comotti, A, Gennari, C, Gardner, M, Goodman, J, Paterson, I, Capelli, AM, COMOTTI, ANGIOLINA, Goodman, JM, Paterson, I., Bernardi, A, Capelli, A, Comotti, A, Gennari, C, Gardner, M, Goodman, J, Paterson, I, Capelli, AM, COMOTTI, ANGIOLINA, Goodman, JM, and Paterson, I.
- Abstract
A molecular mechanics model of the boron enolate aldol transition state is used to analyse the stereoselectivity of various synthetically interesting reactions. The model reproduces the sense and degree of stereoselectivity for several examples, including reactions involving chiral ketones, as in 1 (substrate control) and chiral ligands on boron (reagent control). The origins of the stereoselectivity in the aldoll reactions of Z enol diisopinocampheyl borinates are analysed in detail. It is concluded that the relative orientation of the ligands with respect to the chair transition structure core, as well as the relative orientation and restrained rotation of one ligand relative to the other, are important for determining the reaction selectivity. For chiral ketone cases, a general model 59, can be devised by inspection of the preferred transition structures viewed as the Newman projections (31, 38 and 44). This model has the hydrogen on the stereogenic centre of the enol borinate directed towards the boron ligand (i.e. the dihedral angle C=C-C*-H is in the range 133-173%), the large group opposite to the incoming aldehyde, and the small group pointing towards the forming C-C bond of the chair transition structure. As shown by the work described here, our force field model of the boron aldol transition state is useful in understanding the origins of the stereoselectivity over a wide range of substrates. The aldol force field model, therefore, may also have predictive value in new situations.
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- 1991
10. On the configuration and conformation of oxyallyls in medium and large rings
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Goodman, JM, primary, Hoffmann, HMR, additional, and Vinter, JG, additional
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- 1995
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11. An internal region of the peroxisomal membrane protein PMP47 is essential for sorting to peroxisomes
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McCammon, MT, primary, McNew, JA, additional, Willy, PJ, additional, and Goodman, JM, additional
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- 1994
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12. Aerobic exercise training in healthy postmenopausal women: effects of hormone therapy.
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O'Donnell E, Kirwan LD, and Goodman JM
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- 2009
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13. Aerobic and resistance training in coronary disease: single versus multiple sets.
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Marzolini S, Oh PI, Thomas SG, and Goodman JM
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- 2008
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14. Exercise training in women with heart disease: influence of hormone replacement therapy.
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Kirwan LD, Mertens DJ, Kavanagh T, Thomas SG, and Goodman JM
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- 2003
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15. Central and peripheral adaptations after 12 weeks of exercise training in post-coronary artery bypass surgery patients.
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Goodman JM, Pallandi DV, Reading JR, Plyley MJ, Liu PP, and Kavanagh T
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- 1999
16. Measurement of left ventricular function during arm ergometry using the VEST nuclear probe.
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Goodman LS, Goodman JM, Yang L, Sloninko J, Hsia T, and Freeman MR
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- 1994
17. PROLIFERATION AND METABOLIC SIGNIFICANCE OF PEROXISOMES IN CANDIDA-BOIDINII DURING GROWTH ON DEUTERIUM-ALANINE OR OLEIC-ACID AS THE SOLE CARBON SOURCE
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SULTER, GJ, WATERHAM, HR, GOODMAN, JM, VEENHUIS, M, and Electron Microscopy
18. A review of molecular representation in the age of machine learning
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Daniel S. Wigh, Jonathan M. Goodman, Alexei A. Lapkin, Wigh, Daniel S [0000-0002-0494-643X], Goodman, Jonathan M [0000-0002-8693-9136], Lapkin, Alexei A [0000-0001-7621-0889], Apollo - University of Cambridge Repository, Wigh, DS [0000-0002-0494-643X], Goodman, JM [0000-0002-8693-9136], and Lapkin, AA [0000-0001-7621-0889]
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Computational Mathematics ,machine learning ,Advanced Review ,molecular representation ,Materials Chemistry ,Advanced Reviews ,variational autoencoder ,fingerprints ,Physical and Theoretical Chemistry ,Biochemistry ,chemoinformatics ,Computer Science Applications - Abstract
Funder: UCB; Id: http://dx.doi.org/10.13039/100011110, Research in chemistry increasingly requires interdisciplinary work prompted by, among other things, advances in computing, machine learning, and artificial intelligence. Everyone working with molecules, whether chemist or not, needs an understanding of the representation of molecules in a machine‐readable format, as this is central to computational chemistry. Four classes of representations are introduced: string, connection table, feature‐based, and computer‐learned representations. Three of the most significant representations are simplified molecular‐input line‐entry system (SMILES), International Chemical Identifier (InChI), and the MDL molfile, of which SMILES was the first to successfully be used in conjunction with a variational autoencoder (VAE) to yield a continuous representation of molecules. This is noteworthy because a continuous representation allows for efficient navigation of the immensely large chemical space of possible molecules. Since 2018, when the first model of this type was published, considerable effort has been put into developing novel and improved methodologies. Most, if not all, researchers in the community make their work easily accessible on GitHub, though discussion of computation time and domain of applicability is often overlooked. Herein, we present questions for consideration in future work which we believe will make chemical VAEs even more accessible. This article is categorized under: Data Science > Chemoinformatics
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- 2022
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19. Mechanistically driven identification of novel structural alerts for mitochondrial toxicity
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Katarzyna R. Przybylak, Charles Gong, Jonathan M. Goodman, Gong, C [0000-0003-4493-0317], Przybylak, KR [0000-0002-9824-9562], Goodman, JM [0000-0002-8693-9136], and Apollo - University of Cambridge Repository
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Health, Toxicology and Mutagenesis ,In silico ,Computational biology ,Biology ,Toxicology ,medicine.disease ,3101 Biochemistry and Cell Biology ,Cardiovascular ,Computer Science Applications ,Mitochondrial toxicity ,Adverse health effect ,5.1 Pharmaceuticals ,Adverse Outcome Pathway ,medicine ,Statistical analysis ,Identification (biology) ,Patient Safety ,Generic health relevance ,5 Development of treatments and therapeutic interventions ,31 Biological Sciences - Abstract
Mitochondrial toxicity is a problem of growing concern in modern society, resulting in several serious adverse health effects including cardiac failure, hepatotoxicity, and neurodegenerative disorders. Adverse outcome pathways provide models for structuring a mechanistic understanding of toxicology, but most existing in silico models for prediction of mitochondrial toxicity do not account for the mechanism of action of potential toxicants. In a recent study by Hallinger et al., the Seahorse respirometric assay provides experimental data relating to the mechanism of action of several mitochondrial toxins. This makes possible, for the first time, the development of structural alerts for mitochondrial toxicity linked to mechanisms. By using a maximal common substructure searcher and Bayesian statistical analysis, we have discovered 11 alerts associated with different mechanisms of action. Eight of these are completely novel. By incorporating the mechanisms into the structural alert, more information can be gained about the molecular initiating events involved and build toward more complete adverse outcome pathways for mitochondrial toxicity.
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- 2021
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20. Learning from employer experiences with paid leave policy expansions during the COVID-19 pandemic.
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Dow WH, Goodman JM, Lin P, and Park P
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The United States does not have a federal policy offering employees paid leave. We study employer attitudes toward the Families First Coronavirus Response Act (FFCRA) federal emergency paid leave policies temporarily adopted during the COVID-19 pandemic to draw lessons for proposed permanent federal paid leave policies. We analyzed a 2021 survey of 300 San Francisco Bay Area employers to examine employers' experiences with paid sick leave (PSL) and paid family leave (PFL) policies during the COVID-19 pandemic, along with their attitudes regarding FFCRA paid leave. Most firms reported that it was not difficult to comply with or seek reimbursement for FFCRA leave. Nevertheless, most smaller firms did report difficulty in understanding policy details, and many reported being unaware of FFCRA paid leave availability. FFCRA paid leave was broadly popular among firms aware of it: 64% supported (9% opposed) the PSL provisions, and 52% supported (12% opposed) PFL. However, support for permanent extension dropped to just over 40%, despite this Bay Area sample having long familiarity with California's state paid leave policies. We conclude that federal pandemic paid leave offers a potential model that could be refined for future paid leave policies, but support is mixed., Competing Interests: Conflicts of interest Please see ICMJE form(s) for author conflicts of interest. These have been provided as supplementary materials., (© The Author(s) 2024. Published by Oxford University Press on behalf of Project HOPE - The People-To-People Health Foundation, Inc.)
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- 2024
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21. Introduction to Computational Organic Chemistry.
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Goodman JM, Reid JP, and Wu JI
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- 2024
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22. Self-reported follow-up care needs can be met in both facility and self-managed abortion: Evidence from low- and middle-income countries.
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Jacobson LE, Jayaweera R, Footman K, Goodman JM, Gerdts C, and Darney BG
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Objectives: To understand in-facility follow-up care-seeking behavior among both people who self-managed medication abortions and those who obtained facility-managed care in low-and-middle-income countries. We explore factors that contribute to meeting individual self-reported follow-up care needs, core to person-centered care., Study Design: We conducted a qualitative, codebook thematic analysis of 67 in-depth interviews conducted with people who self-managed medication abortions or obtained facility-managed medication abortion care. We first classified individuals as having their follow-up care needs met (not seeking care when the participant felt confident that additional care was not warranted or desired or receiving care if it was desired) or not. Our a priori analytic domains came from the Anderson model of health services utilization - predisposing, enabling, or need factors (perceived and evaluated need for health services) that contributed to having follow-up care needs met or not. We also describe emergent themes within each domain., Results: Most participants (n=59, 88%) had their follow-up care needs met; half (n=33, 49%) sought follow-up care in a facility. Prior birth or abortion experiences emerged as predisposing factors for having follow-up care needs met. Having accompaniment support (from activists or hotlines who provide abortion guidance outside of clinical settings), knowing what to expect, and information sources were key enabling factors for having follow-up care needs met. Need factors included flexible follow-up care guidelines. Those who did not have their follow-up care needs met described predisposing negative health system experiences; enabling factors including health system challenges, stigma from providers, and legal risk; and need factors of required follow-up care guidelines., Conclusions: Medication abortion follow-up care experiences are diverse, and individual needs can be met both in and outside of health facilities. Understanding prior experiences, enabling accompaniment support, and considering flexible follow-up care guidelines can support meeting individual follow-up care needs, which is essential to person-centered abortion care., Implications: Follow-up care needs, essential to ensuring access to high-quality abortion services, can be met in both self-managed and in-facility medication abortion models. Policies that require follow-up care when it is not needed or desired by the person can reinforce ideas that self-managed abortion is not safe or effective, despite existing evidence., (Copyright © 2024 Elsevier Inc. All rights reserved.)
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- 2024
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23. Adipogenin Dictates Adipose Tissue Expansion by Facilitating the Assembly of a Dodecameric Seipin Complex.
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Li C, Sun XN, Funcke JB, Vanharanta L, Joffin N, Li Y, Prasanna X, Paredes M, Joung C, Gordillo R, Vörös C, Kulig W, Straub L, Chen S, Velasco J, Cobb A, Padula D, Wang MY, Onodera T, Varlamov O, Li Y, Liu C, Nawrocki AR, Zhao S, Oh DY, Wang ZV, Goodman JM, Wynn RM, Vattulainen I, Han Y, Ikonen E, and Scherer PE
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Adipogenin (Adig) is an evolutionarily conserved microprotein and is highly expressed in adipose tissues and testis. Here, we identify Adig as a critical regulator for lipid droplet formation in adipocytes. We determine that Adig interacts directly with seipin, leading to the formation of a rigid complex. We solve the structure of the seipin/Adig complex by Cryo-EM at 2.98Å overall resolution. Surprisingly, seipin can form two unique oligomers, undecamers and dodecamers. Adig selectively binds to the dodecameric seipin complex. We further find that Adig promotes seipin assembly by stabilizing and bridging adjacent seipin subunits. Functionally, Adig plays a key role in generating lipid droplets in adipocytes. In mice, inducible overexpression of Adig in adipocytes substantially increases fat mass, with enlarged lipid droplets. It also elevates thermogenesis during cold exposure. In contrast, inducible adipocyte-specific Adig knockout mice manifest aberrant lipid droplet formation in brown adipose tissues and impaired cold tolerance.
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- 2024
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24. Breastfeeding among women employed in Mexico's informal sector: strategies to overcome key barriers.
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Goodman JM, Lara-Mejía V, Hernández-Cordero S, and Vilar-Compte M
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- Humans, Mexico, Female, Informal Sector, Adult, Women, Working statistics & numerical data, Interviews as Topic, Breast Feeding, Employment, Qualitative Research
- Abstract
Background: Rates of exclusive breastfeeding fall below recommended levels, particularly among women in paid employment. In Mexico, more than half of women are in informal employment, meaning they lack many of the protections that may support breastfeeding., Methods: In-depth interviews with 15 key informants representing government agencies (n = 6 organizations), NGOs (n = 4), international organizations (n = 2), and academia (n = 2) in Mexico. Interviews were conducted between March and June 2023. To understand and describe barriers to breastfeeding among informally employed women in Mexico according to key informants and the current and potential policies to address these barriers, we conducted a qualitative thematic analysis., Results: Current policies to promote, protect, and support breastfeeding predominantly apply to all employed women, but respondents expressed concern that they did not provide adequate protection for women in informal employment. Additional themes concerned the need for relevant programs to be institutionalized and coordinated, discussions of breastfeeding as a right, and the legal equivalence (whether true in practice or not) of formal and informal workers., Conclusions: Women employed in Mexico's informal sector face a dearth of maternity protections. According to key informants, few policies exist to promote, protect, and support breastfeeding among employed women, in general, but the economic vulnerability and challenging working conditions of women in informal employment exacerbates their situation. The lack of access to formal labor protections, such as paid maternity leave, creates a significant barrier to breastfeeding for women in the informal sector. Recommendations include short-term policies to fill gaps in social protection for informally employed women, as well as longer-term solutions such as the development of universal social protection programs and supporting formalization., (© 2024. The Author(s).)
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- 2024
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25. Barriers to Accessing Paid Parental Leave Among Birthing Parents With Perinatal Health Complications: A Multiple-Methods Study.
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Dumet LM, Dow WH, Karasek D, Franck LS, and Goodman JM
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- Humans, Female, Adult, Pregnancy, Surveys and Questionnaires, Infant, Newborn, California, Parents psychology, Health Services Accessibility, Premature Birth, Parental Leave, Mothers psychology
- Abstract
Introduction: Even in the small number of U.S. states with paid parental leave (PPL) programs, studies have found awareness of PPL remains low and unevenly distributed among parents. Moreover, little is known about whether parents with perinatal health complications have unmet needs in obtaining information about and support for accessing parental leave during that time. This study aims to address this research gap. Given the strong evidence linking paid leave with improvements in maternal and infant health, it is critical to evaluate access among vulnerable populations., Methods: We used a multiple methods approach, including a subset of the 2016-2017 Bay Area Parental Leave Survey of Mothers (analytic sample = 1,007) and interview data from mothers who stayed at a neonatal intensive care unit in 2019 (n = 7). All participants resided at that time in California, a state that offers PPL. The independent variable for the survey analysis was a composite measure of perinatal complications, quantified as binary with a value of 1 if respondents reported experiencing any of the four complications: poor maternal mental health during or after pregnancy, premature birth, or poor infant health. Dependent variables for the survey analysis measured lack of support or information for accessing PPL. We used linear probability models to assess the relationship between perinatal complications and PPL support. Thematic analysis was conducted with the interview data to understand how perinatal complications shape the process of accessing PPL., Results: Survey results revealed that parents with perinatal complications had a lower understanding of PPL benefits and low overall support for accessing leave, including from employers, compared with parents without perinatal complications. From interviews, we learned that perinatal complications present unique challenges to parents navigating PPL. There were multiple entities involved in managing leave and providing information, such as the benefits coordinator and employers. Supervisors were reported as providers of critical emotional and financial support., Conclusions: Taken together, the findings from surveys and interviews suggest that health care and human resources personnel should be better equipped to provide information and support, particularly to those who experience perinatal complications and might struggle to complete paperwork while facing health challenges., (Copyright © 2024 Jacobs Institute of Women's Health, George Washington University. Published by Elsevier Inc. All rights reserved.)
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- 2024
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26. Screening tools for employment in clinical healthcare delivery systems: a content analysis.
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Colon M and Goodman JM
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- Humans, Social Determinants of Health, Qualitative Research, Mass Screening methods, Employment, Delivery of Health Care
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Background: The relationship between work and health is complex and bidirectional, where work can have both health-harming and health-enhancing effects. Though employment is recognized as a social determinant of health, and clinical healthcare delivery systems are increasingly using screening tools to ask patients about social needs, little research has explored the extent to which employment-related social risk is captured in these screening tools. This study aimed to identify and characterize employment- and work-related questions in social risk screening tools that have been implemented in clinical healthcare delivery systems., Methods: We conducted a qualitative content analysis of employment-related items in screening tools that have been implemented in clinical healthcare service delivery systems. Three content areas guided data extraction and analysis: Setting, Domain, and Level of Contextualization., Results: Screening tools that asked employment-related questions were implemented in settings that were diverse in the populations served and the scope of care provided. The intent of employment-related items focused on four domains: Social Risk Factor, Social Need, Employment Exposure, and Legal Need. Most questions were found to have a low Level of Contextualization and were largely focused on identifying an individual's employment status., Conclusions: Several existing screening tools include measures of employment-related social risk, but these items do not have a clear purpose and range widely depending on the setting in which they are implemented. In order to maximize the utility of these tools, clinical healthcare delivery systems should carefully consider what domain(s) they aim to capture and how they anticipate using the screening tools to address social determinants of health., (© 2024. The Author(s).)
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- 2024
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27. Leveraging Language Model Multitasking To Predict C-H Borylation Selectivity.
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Kotlyarov R, Papachristos K, Wood GPF, and Goodman JM
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- Models, Chemical, Neural Networks, Computer, Hydrogen chemistry
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C-H borylation is a high-value transformation in the synthesis of lead candidates for the pharmaceutical industry because a wide array of downstream coupling reactions is available. However, predicting its regioselectivity, especially in drug-like molecules that may contain multiple heterocycles, is not a trivial task. Using a data set of borylation reactions from Reaxys, we explored how a language model originally trained on USPTO_500_MT, a broad-scope set of patent data, can be used to predict the C-H borylation reaction product in different modes: product generation and site reactivity classification. Our fine-tuned T5Chem multitask language model can generate the correct product in 79% of cases. It can also classify the reactive aromatic C-H bonds with 95% accuracy and 88% positive predictive value, exceeding purpose-developed graph-based neural networks.
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- 2024
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28. Suppressing Cis/Trans 'Ring-Flipping' in Organoaluminium(III)-2-Pyridyl Dimers-Design Strategies Towards Lewis Acid Catalysts for Alkene Oligomerisation.
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Choudhury D, Lam CC, Farag NL, Slaughter J, Bond AD, Goodman JM, and Wright DS
- Abstract
Owing to its high natural abundance compared to the commonly used transition (precious) metals, as well as its high Lewis acidity and ability to change oxidation state, aluminium has recently been explored as the basis for a range of single-site catalysts. This paper aims to establish the ground rules for the development of a new type of cationic alkene oligomerisation catalyst containing two Al(III) ions, with the potential to act co-operatively in stereoselective assembly. Five new dimers of the type [R
2 Al(2-py')]2 (R=Me,i Bu; py'=substituted pyridyl group) with different substituents on the Al atoms and pyridyl rings have been synthesised. The formation of the undesired cis isomers can be suppressed by the presence of substituents on the 6-position of the pyridyl ring due to steric congestion, with DFT calculations showing that the selection of the trans isomer is thermodynamically controlled. Calculations show that demethylation of the dimers [Me2 Al(2-py')]2 with Ph3 C+ to the cations [{MeAl(2-py')}2 (μ-Me)]+ is highly favourable and that the desired trans disposition of the 2-pyridyl ring units is influenced by steric effects. Preliminary experimental studies confirm that demethylation of [Me2 Al(6-MeO-2-py)]2 can be achieved using [Ph3 C][B(C6 F5 )4 ]., (© 2024 The Authors. Chemistry - A European Journal published by Wiley-VCH GmbH.)- Published
- 2024
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29. "How Do I Prepare for This?" Patient Perspectives on Providers' Employment-related Support During Pregnancy.
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Goodman JM, Crawford AM, Cottrell EK, and Guise JM
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- Humans, Female, Pregnancy, Adult, Health Personnel psychology, Pregnant Women psychology, Workplace, Young Adult, Employment, Qualitative Research, Interviews as Topic
- Abstract
Background: Health care providers can offer employment-related support to pregnant patients by providing information about occupational risks and benefits, discussing adjustments, and/or completing paperwork to help patients obtain accommodations or benefits, but little research has examined whether and how this support is provided., Methods: We conducted interviews with 20 adults who had been employed while pregnant within the 5 years preceding data collection. Eligible participants had low incomes, were hourly wage earners, or were employed in service or retail occupations. Applied thematic analysis was used to identify emergent themes., Results: People who had been employed while pregnant described a range of experiences during that time, including physical and psychological demands from work, lack of access to appropriate accommodations, difficulties combining breastfeeding with work, and work-related challenges accessing health care. Participants described four primary roles that health care providers played: 1) completing paperwork needed to apply for benefits or receive work modification; 2) providing information about how to mitigate employment-related risks; 3) providing referrals to social or medical services; and 4) advocating for patients to ensure receipt of accommodations, resources, and information. Strategies identified by patients that could be enacted within health care to help them better navigate the work-pregnancy interface include increasing appointment flexibility, providing information about work-related risks and benefits programs and referrals to legal support, and helping providers to understand and support their patients' individual work-related concerns., Conclusions: Health care providers have a critical role to play in supporting employed pregnant people to achieve flexibility in managing their work and to be active participants in discussions about recommended workplace accommodations., (Copyright © 2024 Jacobs Institute of Women's Health, George Washington University. Published by Elsevier Inc. All rights reserved.)
- Published
- 2024
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- View/download PDF
30. HSQC Spectra Simulation and Matching for Molecular Identification.
- Author
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Priessner M, Lewis RJ, Johansson MJ, Goodman JM, Janet JP, and Tomberg A
- Subjects
- Neural Networks, Computer, Computer Simulation
- Abstract
In the pursuit of improved compound identification and database search tasks, this study explores heteronuclear single quantum coherence (HSQC) spectra simulation and matching methodologies. HSQC spectra serve as unique molecular fingerprints, enabling a valuable balance of data collection time and information richness. We conducted a comprehensive evaluation of the following four HSQC simulation techniques: ACD/Labs (ACD), MestReNova (MNova), Gaussian NMR calculations (DFT), and a graph-based neural network (ML). For the latter two techniques, we developed a reconstruction logic to combine proton and carbon 1D spectra into HSQC spectra. The methodology involved the implementation of three peak-matching strategies (minimum-sum, Euclidean-distance, and Hungarian distance) combined with three padding strategies (zero-padding, peak-truncated, and nearest-neighbor double assignment). We found that coupling these strategies with a robust simulation technique facilitates the accurate identification of correct molecules from similar analogues (regio- and stereoisomers) and allows for fast and accurate large database searches. Furthermore, we demonstrated the efficacy of the best-performing methodology by rectifying the structures of a set of previously misidentified molecules. This research indicates that effective HSQC spectral simulation and matching methodologies significantly facilitate molecular structure elucidation. Furthermore, we offer a Google Colab notebook for researchers to use our methods on their own data (https://github.com/AstraZeneca/hsqc_structure_elucidation.git).
- Published
- 2024
- Full Text
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31. Left atrial reservoir pressure-volume relations during exercise in healthy older adults.
- Author
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Wright SP, Goodman JM, Sasson Z, Granton JT, and Mak S
- Subjects
- Humans, Aged, Pulmonary Wedge Pressure physiology, Heart, Blood Pressure physiology, Atrial Pressure, Exercise physiology
- Abstract
The left atrium (LA) mediates cardiopulmonary interactions. During ventricular systole, the LA functions as a compliant reservoir that is coupled to the left ventricle (LV) and offloads volume from the pulmonary vasculature. We aimed to describe LA reservoir function using phasic relationships between pulmonary artery wedge pressure (PAWP) and LA volume events. We included healthy adults (7 M/6 F, 56 ± 8 yr) who were studied at rest and during semirecumbent cycle ergometry at a target of 100 beats/min heart rate. Right heart catheterization was performed to record the PAWP and two-dimensional (2-D) echocardiography was used to measure LA and LV volumes. We manually measured A-wave, x-trough, V-wave, and y-trough PAWP beat-by-beat, as well as minimal, maximal, and precontraction biplane LA volumes. Heart rate increased by 40 ± 7 beats/min with exercise; stroke volume and cardiac output also rose. Although all phasic PAWP measurements increased with exercise, the x-V pressure pulse during LA filling doubled from 4 ± 2 to 8 ± 4 mmHg ( P = 0.001). LA minimal volume was unchanged but maximal volume increased from 39 ± 9 to 48 ± 9 mL ( P < 0.001) with exercise, and so reservoir volume increased from 24 ± 5 to 32 ± 8 mL ( P < 0.001). As such, calculated LA compliance decreased from 6.8 ± 3.4 to 4.8 ± 2.6 mL/mmHg ( P = 0.029). The product of V-wave PAWP and LA maximal volume, a surrogate for LA wall stress, increased from 486 ± 193 to 953 ± 457 mmHg·mL ( P < 0.001). In healthy older adults during submaximal exercise, the PAWP waveform shifts upward and its amplitude widens, LA filling increases, LA compliance decreases modestly, and LA wall stress may augment substantially. NEW & NOTEWORTHY We combined invasive estimates of left atrial pressure with noninvasive left atrial volume measurements made at rest and during exercise in healthy humans. Left atrial pressure and volume both increased with exercise, though the pressure increase was relatively greater, and calculated compliance decreased modestly while estimated peak wall stress nearly doubled. Our results demonstrate left atrial loading during exercise in healthy older adults and provide insight into how the left atrium mediates cardiopulmonary interactions.
- Published
- 2024
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32. Exercise-Dependent Modulation of Immunological Response Pathways in Endurance Athletes With and Without Atrial Fibrillation.
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Dorian D, Gustafson D, Quinn R, Bentley RF, Dorian P, Goodman JM, Fish JE, and Connelly KA
- Subjects
- Humans, Male, Adult, Middle Aged, Aged, Prospective Studies, Proteomics, Exercise physiology, Athletes, Risk Factors, Physical Endurance physiology, Atrial Fibrillation
- Abstract
Background: Atrial fibrillation (AF) is a common arrhythmia characterized by uncoordinated atrial electrical activity. Lone AF occurs in the absence of traditional risk factors and is frequently observed in male endurance athletes, who face a 2- to 5-fold higher risk of AF compared with healthy, moderately active males. Our understanding of how endurance exercise contributes to the pathophysiology of lone AF remains limited. This study aimed to characterize the circulating protein fluctuations during high-intensity exercise as well as explore potential biomarkers of exercise-associated AF., Methods and Results: A prospective cohort of 12 male endurance cyclists between the ages of 40 and 65 years, 6 of whom had a history of exercise-associated AF, were recruited to participate using a convenience sampling method. The circulating proteome was subsequently analyzed using multiplex immunoassays and aptamer-based proteomics before, during, and after an acute high-intensity endurance exercise bout to assess temporality and identify potential markers of AF. The endurance exercise bout resulted in significant alterations to proteins involved in immune modulation (eg, growth/differentiation factor 15), skeletal muscle metabolism (eg, α-actinin-2), cell death (eg, histones), and inflammation (eg, interleukin-6). Subjects with AF differed from those without, displaying modulation of proteins previously known to have associations with incident AF (eg, C-reactive protein, insulin-like growth factor-1, and angiopoietin-2), and also with proteins having no previous association (eg, tapasin-related protein and α
2 -Heremans-Schmid glycoprotein)., Conclusions: These findings provide insights into the proteomic response to acute intense exercise, provide mechanistic insights into the pathophysiology behind AF in athletes, and identify targets for future study and validation.- Published
- 2024
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33. Atrial fibrillation in middle-aged athletes: Impact on left atrial, ventricular and exercise performance.
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Vecchiarelli E, Bentley RF, Connelly KA, Dorian P, Yan A, Mak S, Sasson Z, and Goodman JM
- Subjects
- Male, Middle Aged, Humans, Heart Atria diagnostic imaging, Echocardiography, Exercise, Athletes, Atrial Fibrillation
- Abstract
High volume endurance training may increase the risk of paroxysmal atrial fibrillation (AF) in middle-aged athletes. Limited data are available describing the cardiovascular phenotype of middle-aged endurance athletes, or the impact of AF on atrial function and exercise performance performed in sinus rhythm. The purpose of this study was to characterize LA phasic function at rest and during exercise in athletes with paroxysmal AF, and to determine its impact on exercise performance. Fifteen endurance trained males (EA) (56 ± 5 years) without AF and 14 endurance trained males with paroxysmal AF (EA-AF) (55 ± 8 years) underwent echocardiography during cycle-ergometry at light and moderate intensities. Resting LA maximal volumes were similar between EA and EA-AF (30 ± 4 vs. 29 ± 8 ml/m2, p = 0.50), and there were no differences in atrial electromechanical delay (AEMD). During moderate intensity exercise, EA-AF had reduced LA conduit (30 ± 6 vs. 40 ± 5 ml/m2, p = 0.002) LA booster volumes (17 ± 5 vs. 21 ± 4 ml/m2, p = 0.021), and reduced LV stroke volumes (100 ± 12 vs. 117 ± 16 ml, p = 0.007). These results demonstrate that exercise testing in athletes with AF unmasks evidence of adverse functional cardiac remodelling that may contribute to impaired exercise performance. It is unclear whether these functional alterations are the consequence of AF. Reductions in LA conduit volume, LA booster volume, and LV stroke volume during exercise may be helpful in clinical management and distinguishing pathologic from physiologic remodelling., Competing Interests: The authors have declared that no competing interests exist., (Copyright: © 2024 Vecchiarelli et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.)
- Published
- 2024
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34. The effect of chronic exercise training and acute exercise on power spectral analysis of heart rate variability.
- Author
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Bentley RF, Dorian P, Vecchiarelli E, Banks L, Connelly KA, Yan AT, Osman W, and Goodman JM
- Subjects
- Middle Aged, Humans, Heart Rate physiology, Exercise physiology, Exercise Test
- Abstract
Moderate to vigorous physical activity performed regularly is cardioprotective and reduces all-cause mortality, concomitant with increased resting heart rate variability (HRV). However, there are contradictory reports regarding the effects of chronic and acute exercise on nocturnal HRV in those performing exercise well-beyond physical activity guidelines. Therefore, the purpose of this study was to compare the power spectral analysis components of HRV in middle-aged endurance athletes (EA) and recreationally active individuals (REC) and explore acute exercise effects in EA. A total of 119 EA (52, 49-57 years) and 32 REC (56, 52-60 years) were recruited to complete 24 h Holter monitoring (GE SEER 1000) in the absence of exercise. Fifty one EA (52, 49-57 years) then underwent 24 h Holter monitoring following an intense bout of endurance exercise. Power spectral HRV analysis was completed hourly and averaged to quantify morning (1000-1200 h), evening (1900-2100 h), and nocturnal (0200-0400 h) HRV. EA had greater very low frequency (VLF) and low frequency (LF) (both p < 0.001) compared to REC. LF/high frequency (HF) was greater in EA at 0200-0400 h ( p = 0.04). Among all participants, the change in HR and HF from 1000-1200 to 0200-0400 h was negatively correlated ( r = -0.47, p < 0.001). Following acute exercise in EA, only nocturnal HRV was assessed. VLF ( p < 0.001) and HF ( p = 0.008) decreased, while LF/HF increased ( p = 0.02). These results suggest that in EA, both long-term and acute exercises increase nocturnal sympathovagal activity through an increase in LF and decrease in HF, respectively. Further work is required to understand the mechanism underlying reduced nocturnal HRV in middle-aged EA and the long-term health implications., Competing Interests: The authors have no competing interests to declare.
- Published
- 2024
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35. Client-reported quality of facility-managed medication abortion compared with pharmacy-sourced self-managed abortion in Bangladesh.
- Author
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Jacobson LE, Baum SE, Pearson E, Chowdhury R, Chakraborty NM, Goodman JM, Gerdts C, and Darney BG
- Subjects
- Pregnancy, Female, Humans, Bangladesh, Pharmacies, Self-Management, Abortion, Induced, Pharmacy
- Abstract
Objective: We used the newly developed Abortion Care Quality Tool (ACQTool) to compare client-reported quality of medication abortion care by source (facility-managed vs pharmacy-sourced self-managed abortion (SMA)) in Bangladesh., Methods: We leveraged exit and 30-day follow-up surveys collected to develop and validate the ACQTool collected at nongovernmental organisation (NGO)-supported or -operated facilities in the public and private sector and pharmacies from three districts in Bangladesh. We used bivariate statistics to compare 18 client-reported quality indicators grouped in six domains and eight abortion outcomes, by source (facility vs pharmacy). We used multivariable logistic regression to identify factors associated with selected quality indicators and outcomes (abortion affordability, information provision, and knowing what to do for an adverse event), controlling for client sociodemographic characteristics., Results: Of 550 abortion clients, 146 (26.5%) received a facility-managed medication abortion and 404 (73.5%) had a pharmacy-sourced SMA. Clients reported higher quality in facilities for five indicators, and higher in pharmacies for two indicators; the remaining 11 indicators were not different by source. Compared with facility-based clients, pharmacy clients had higher odds of reporting that the cost of abortion was affordable (adjusted odds ratio (aOR) 3.55; 95% CI 2.27 to 5.58) but lower odds of reporting high information provision (aOR 0.14; 95% CI 0.09 to 0.23). Seven of eight abortion outcomes showed no differences; pharmacy clients had lower odds of knowing what to do if an adverse event occurred (aOR 0.45; 95% CI 0.23 to 0.82)., Conclusions: In Bangladesh, there is no difference in client-reported quality of medication abortion care between health facilities and pharmacies for the majority of quality and outcome indicators. However, information provision and preparedness were higher quality at facilities, while pharmacies were more affordable., Competing Interests: Competing interests: BGD’s institution receives research funding from Organon and the Office of Population Affairs (OPA) on which she is Principal Investigator, and she is a member of the Board of Directors of the Society of Family Planning (SFP) and a Deputy Editor on Contraception. She has received an honorarium from the American College of Obstetrics and Gynecology (ACOG) for committee work., (© Author(s) (or their employer(s)) 2024. No commercial re-use. See rights and permissions. Published by BMJ.)
- Published
- 2024
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36. Potential for Machine Learning to Address Data Gaps in Human Toxicity and Ecotoxicity Characterization.
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von Borries K, Holmquist H, Kosnik M, Beckwith KV, Jolliet O, Goodman JM, and Fantke P
- Subjects
- Humans, Risk Assessment, Machine Learning
- Abstract
Machine Learning (ML) is increasingly applied to fill data gaps in assessments to quantify impacts associated with chemical emissions and chemicals in products. However, the systematic application of ML-based approaches to fill chemical data gaps is still limited, and their potential for addressing a wide range of chemicals is unknown. We prioritized chemical-related parameters for chemical toxicity characterization to inform ML model development based on two criteria: (1) each parameter's relevance to robustly characterize chemical toxicity described by the uncertainty in characterization results attributable to each parameter and (2) the potential for ML-based approaches to predict parameter values for a wide range of chemicals described by the availability of chemicals with measured parameter data. We prioritized 13 out of 38 parameters for developing ML-based approaches, while flagging another nine with critical data gaps. For all prioritized parameters, we performed a chemical space analysis to assess further the potential for ML-based approaches to predict data for diverse chemicals considering the structural diversity of available measured data, showing that ML-based approaches can potentially predict 8-46% of marketed chemicals based on 1-10% with available measured data. Our results can systematically inform future ML model development efforts to address data gaps in chemical toxicity characterization.
- Published
- 2023
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37. Racial/ethnic and gender inequities in the sufficiency of paid leave during the COVID-19 pandemic: Evidence from the service sector.
- Author
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Goodman JM and Schneider D
- Subjects
- Male, Humans, Female, Gender Equity, Pandemics, Salaries and Fringe Benefits, Sick Leave, COVID-19
- Abstract
Background: Access to paid family and medical leave (PFML), including leave to care for a seriously ill loved one or recover from one's own serious illness, conveys health and economic benefits for workers and their families. However, without a national PFML policy, access to paid leave remains limited and unequal. Previous work documenting inequitable access by socioeconomic status and race/ethnicity primarily focuses on parental leave, measures theoretical access to paid leave rather than actual leave uptake, and lacks an accounting for why workers of color and women may have less access to PFML. We extend this literature by looking at leave-taking for medical needs or caregiving among a high-risk population during the COVID-19 pandemic., Methods: We draw on data from 2595 service-sector workers surveyed by the Shift Project in 2020 and 2021 to estimate inequities in leave uptake among workers who experienced qualifying events. We then estimate the relative importance of worker demographic characteristics, qualifying event types (medical vs. caregiving leave), proxies for access to state and employer PFML policies, job characteristics, and ultimately within-firm differences to these gaps., Results: Overall, one-fifth of workers reported sufficient leave. Women are significantly more likely than men to report insufficient or no leave. Hispanic and Black workers are more likely to take insufficient or no leave, respectively, but these differences were attenuated when controlling for covariates., Conclusions: The dearth of PFML laws leaves women and workers of color without access to leave that is paid and of sufficient duration when facing a qualifying event., (© 2023 The Authors. American Journal of Industrial Medicine published by Wiley Periodicals LLC.)
- Published
- 2023
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38. Reaction dynamics as the missing puzzle piece: the origin of selectivity in oxazaborolidinium ion-catalysed reactions.
- Author
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Lam CC and Goodman JM
- Abstract
The selectivity in a group of oxazaborolidinium ion-catalysed reactions between aldehyde and diazo compounds cannot be explained using transition state theory. VRAI-selectivity, developed to predict the outcome of dynamically controlled reactions, can account for both the chemo- and the stereo-selectivity in these reactions, which are controlled by reaction dynamics. Subtle modifications to the substrate or catalyst substituents alter the potential energy surface, leading to changes in predominant reaction pathways and altering the barriers to the major product when reaction dynamics are considered. In addition, this study suggests an explanation for the mysterious inversion of enantioselectivity resulting from the inclusion of an ortho
i PrO group in the catalyst., Competing Interests: There are no conflicts of interest., (This journal is © The Royal Society of Chemistry.)- Published
- 2023
- Full Text
- View/download PDF
39. Response: about exercise control when comparing the effects of different training exercises.
- Author
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Currie KD and Goodman JM
- Subjects
- Humans, Exercise Therapy, Exercise
- Published
- 2023
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- View/download PDF
40. CONFPASS: Fast DFT Re-Optimizations of Structures from Conformation Searches.
- Author
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Lam CC and Goodman JM
- Subjects
- Thermodynamics, Molecular Conformation
- Abstract
CONFPASS ( Conf ormer P rioritizations and A naly s i s for DFT re-optimizations) has been developed to extract dihedral angle descriptors from conformational searching outputs, perform clustering, and return a priority list for density functional theory (DFT) re-optimizations. Evaluations were conducted with DFT data of the conformers for 150 structurally diverse molecules, most of which are flexible. CONFPASS gives a confidence estimate that the global minimum structure has been found, and based on our dataset, we can have 90% confidence after optimizing half of the FF structures. Re-optimizing conformers in order of the FF energy often generates duplicate results; using CONFPASS, the duplication rate is reduced by a factor of 2 for the first 30% of the re-optimizations, which include the global minimum structure about 80% of the time.
- Published
- 2023
- Full Text
- View/download PDF
41. Selective Functionalisation of 5-Methylcytosine by Organic Photoredox Catalysis.
- Author
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Simpson MM, Lam CC, Goodman JM, and Balasubramanian S
- Abstract
The epigenetic modification 5-methylcytosine plays a vital role in development, cell specific gene expression and disease states. The selective chemical modification of the 5-methylcytosine methyl group is challenging. Currently, no such chemistry exists. Direct functionalisation of 5-methylcytosine would improve the detection and study of this epigenetic feature. We report a xanthone-photosensitised process that introduces a 4-pyridine modification at a C(sp
3 )-H bond in the methyl group of 5-methylcytosine. We propose a reaction mechanism for this type of reaction based on density functional calculations and apply transition state analysis to rationalise differences in observed reaction efficiencies between cyanopyridine derivatives. The reaction is initiated by single electron oxidation of 5-methylcytosine followed by deprotonation to generate the methyl group radical. Cross coupling of the methyl radical with 4-cyanopyridine installs a 4-pyridine label at 5-methylcytosine. We demonstrate use of the pyridination reaction to enrich 5-methylcytosine-containing ribonucleic acid., Competing Interests: S.B. is an advisor and shareholder of Biomodal Ltd. (formerly called Cambridge Epigenetix Ltd.), Inflex Ltd. and Elyx Ltd. A patent application has been filed based on some of the work described in this manuscript., (© 2023 The Authors. Angewandte Chemie published by Wiley-VCH GmbH.)- Published
- 2023
- Full Text
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42. Preservation of Right Ventricular Function in Middle-Aged Recreational Endurance Athletes.
- Author
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Girgis M, Bentley RF, Goodman JM, and Sasson Z
- Subjects
- Middle Aged, Humans, Athletes, Physical Endurance, Ventricular Function, Left, Ventricular Remodeling, Ventricular Function, Right, Sports
- Published
- 2023
- Full Text
- View/download PDF
43. Acute physiological responses to high-intensity interval exercise in patients with coronary artery disease.
- Author
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Currie KD, Dizonno V, Oh PI, and Goodman JM
- Subjects
- Female, Humans, Oxygen Consumption physiology, Exercise physiology, Heart Rate, Coronary Artery Disease, High-Intensity Interval Training methods
- Abstract
Purpose: Time spent closer to maximal effort during exercise is a potent stimulus for cardiorespiratory adaptations. The primary purpose was to determine which high-intensity interval exercise (HIIE) protocol provided the greatest physiological stimulus by comparing time spent ≥ 90% peak oxygen consumption (V̇O
2 peak) and heart rate reserve (HRR) in patients with coronary artery disease (CAD) in response to 3 HIIE protocols and the exercise standard of care, moderate-intensity continuous exercise (MICE). A secondary purpose was to assess protocol preference., Methods: Fifteen patients with CAD (6 females, 67 ± 6 years) underwent measurements of V̇O2 and heart rate during MICE and three HIIE protocols all performed on a treadmill. The HIIE protocols included one with long intervals (4 × 4-min), short intervals (10 × 1-min), and an adapted version of the 4 × 4 [Toronto Rehabilitation Institute Protocol, (TRIP)]. Time spent ≥ 90% V̇O2 peak and HRR were compared., Results: Time spent ≥ 90% V̇O2 peak was higher during 4 × 4 (6.3 ± 8.4 min) vs. MICE (1.7 ± 3.9 min; P = 0.001), while time spent ≥ 90% HRR was higher during 4 × 4 (6.0 ± 5.3 min) vs. MICE (0.1 ± 0.2 min; P < 0.001) and 10 × 1 (0.7 ± 0.8 min; P = 0.016). TRIP had similar responses as 10 × 1 and MICE. The 10 × 1 was the most preferred protocol and the 4 × 4 was the least preferred protocol., Conclusion: Longer intervals (4 × 4) provided the greatest physiological stimulus compared to the exercise standard of care and shorter intervals. However, this protocol was least preferred which may impact exercise adherence. Although the physiological stimulus is important to maximize training adaptations, exercise preferences and attitudes should be considered., (© 2022. The Author(s), under exclusive licence to Springer-Verlag GmbH Germany, part of Springer Nature.)- Published
- 2023
- Full Text
- View/download PDF
44. Quantitative In Silico Prediction of the Rate of Protodeboronation by a Mechanistic Density Functional Theory-Aided Algorithm.
- Author
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Wigh DS, Tissot M, Pasau P, Goodman JM, and Lapkin AA
- Abstract
Computational reaction prediction has become a ubiquitous task in chemistry due to the potential value accurate predictions can bring to chemists. Boronic acids are widely used in industry; however, understanding how to avoid the protodeboronation side reaction remains a challenge. We have developed an algorithm for in silico prediction of the rate of protodeboronation of boronic acids. A general mechanistic model devised through kinetic studies of protodeboronation was found in the literature and forms the foundation on which the algorithm presented in this work is built. Protodeboronation proceeds through 7 distinct pathways, though for any particular boronic acid, only a subset of mechanistic pathways are active. The rate of each active mechanistic pathway is linearly correlated with its characteristic energy difference, which in turn can be determined using Density Functional Theory. We validated the algorithm using leave-one-out cross-validation on a data set of 50 boronic acids and made a further 50 rate predictions on academically and industrially important boronic acids out of sample. We believe this work will provide great assistance to chemists performing reactions that feature boronic acids, such as Suzuki-Miyaura and Chan-Evans-Lam couplings.
- Published
- 2023
- Full Text
- View/download PDF
45. Interpreting vibrational circular dichroism spectra: the Cai•factor for absolute configuration with confidence.
- Author
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Lam J, Lewis RJ, and Goodman JM
- Abstract
Vibrational circular dichroism (VCD) spectroscopy can generate the data required for the assignment of absolute configuration, but the spectra are hard to interpret. We have recorded VCD data for thirty pairs of small organic compounds and we use this database to validate a method for the automated analysis of VCD spectra and the assignment of absolute configuration: the Cai•factor (Configuration: absolute information). The analysis of the data demonstrates that the procedure is a reliable and time-efficient method for determination of absolute configuration, which gives both the assignment and a measure of confidence in the outcome, even when the spectra are imperfect. The majority of molecules tested have a high confidence score and all of these have the correct assignment., (© 2023. The Author(s).)
- Published
- 2023
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- View/download PDF
46. Editorial: The evolving role of lipid droplets: Advancements and future directions.
- Author
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Choudhary V and Goodman JM
- Abstract
Competing Interests: The authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest.
- Published
- 2023
- Full Text
- View/download PDF
47. Work as a social risk factor in pregnancy: A systematic review of screening practices related to working conditions and family leave among pregnant adults.
- Author
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Goodman JM, Colon M, Cottrell EK, and Guise JM
- Subjects
- Female, Pregnancy, Humans, Adult, Risk Factors, Family Leave, Working Conditions, Employment
- Abstract
Background: Paid family leave and working conditions are components of employment quality-a key social determinant of health across the life course, particularly during pregnancy. Increased research on prenatal social risk screening has not extended to employment quality. The objective of this systematic review was to identify prenatal screening practices and interventions in health care settings that address employment and working conditions as social risk factors among pregnant adults and to describe their properties and key findings., Method: We searched MEDLINE, PsychINFO, SocINDEX, EMBASE, and the SIREN Evidence and Resource Library for studies published through February 14, 2022. We selected multiple search terms related to four domains: (1) employment or working conditions; (2) screening; (3) health care settings; and (4) pregnancy or maternal health., Results: Of the 2317 unique titles and abstracts that were potentially relevant, eight articles met all inclusion criteria and focused on pregnant populations. The content of identified screening practices varied substantially, highlighting the multiple ways employment is conceptualized as a potential risk factor. Few studies included multidimensional measures of employment to assess working conditions, which may be particularly relevant during pregnancy., Conclusions: Our review suggests that screening for employment as a social risk factor does not regularly occur in prenatal care. Although pragmatic properties of the screening tools we assessed are promising, tools seldom examine the multidimensional nature of work. Understanding the principal intent of screening for employment prenatally could provide greater opportunity to collect and interpret contextual factors that influence how both providers and patients respond to social risk., (© 2022 Wiley Periodicals LLC.)
- Published
- 2023
- Full Text
- View/download PDF
48. Fatty Acyl Coenzyme A Synthetase Fat1p Regulates Vacuolar Structure and Stationary-Phase Lipophagy in Saccharomyces cerevisiae.
- Author
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Qiu F, Kang N, Tan J, Yan S, Lin L, Cai L, Goodman JM, and Gao Q
- Subjects
- Vacuoles metabolism, Fatty Acids metabolism, Coenzyme A Ligases genetics, Coenzyme A Ligases metabolism, Autophagy, Fatty Acid Transport Proteins metabolism, Saccharomyces cerevisiae metabolism, Saccharomyces cerevisiae Proteins genetics, Saccharomyces cerevisiae Proteins metabolism
- Abstract
During yeast stationary phase, a single spherical vacuole (lysosome) is created by the fusion of several small ones. Moreover, the vacuolar membrane is reconstructed into two distinct microdomains. Little is known, however, about how cells maintain vacuolar shape or regulate their microdomains. Here, we show that Fat1p, a fatty acyl coenzyme A (acyl-CoA) synthetase and fatty acid transporter, and not the synthetases Faa1p and Faa4p, is essential for vacuolar shape preservation, the development of vacuolar microdomains, and cell survival in stationary phase of the yeast Saccharomyces cerevisiae. Furthermore, Fat1p negatively regulates general autophagy in both log- and stationary-phase cells. In contrast, Fat1p promotes lipophagy, as the absence of FAT1 limits the entry of lipid droplets into the vacuole and reduces the degradation of liquid droplet (LD) surface proteins. Notably, supplementing with unsaturated fatty acids or overexpressing the desaturase Ole1p can reverse all aberrant phenotypes caused by FAT1 deficiency. We propose that Fat1p regulates stationary phase vacuolar morphology, microdomain differentiation, general autophagy, and lipophagy by controlling the degree of fatty acid saturation in membrane lipids. IMPORTANCE The ability to sense environmental changes and adjust the levels of cellular metabolism is critical for cell viability. Autophagy is a recycling process that makes the most of already-existing energy resources, and the vacuole/lysosome is the ultimate autophagic processing site in cells. Lipophagy is an autophagic process to select degrading lipid droplets. In yeast cells in stationary phase, vacuoles fuse and remodel their membranes to create a single spherical vacuole with two distinct membrane microdomains, which are required for yeast lipophagy. In this study, we discovered that Fat1p was capable of rapidly responding to changes in nutritional status and preserving cell survival by regulating membrane lipid saturation to maintain proper vacuolar morphology and the level of lipophagy in the yeast S. cerevisiae. Our findings shed light on how cells maintain vacuolar structure and promote the differentiation of vacuole surface microdomains for stationary-phase lipophagy.
- Published
- 2023
- Full Text
- View/download PDF
49. Paid parental leave and mental health: the importance of equitable policy design.
- Author
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Goodman JM and Dumet Poma L
- Subjects
- Humans, Parents, Policy, Employment, Mental Health, Parental Leave
- Abstract
Competing Interests: JMG has received financial support from Fulbright-García Robles, Fulbright Uruguay, Washington Center for Equitable Growth, Robert Wood Johnson Foundation, and the Eunice Kennedy Shriver National Institute of Child Health and Human Development of the National Institutes of Health (award K12HD043488), all outside of the submitted work. JMG was a volunteer board member of the Pro-Choice Oregon Foundation until September, 2022. LDP has received funding from Fogarty International Center, Women in Science Portland, and Total Worker Health of the National Institute for Occupational Safety and Health, all outside of the submitted work.
- Published
- 2023
- Full Text
- View/download PDF
50. COVID-19, Inflammatory Heart Disease, and Vaccination in the Athlete and Highly Active Person: An Update and Further Considerations.
- Author
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Moulson N, Connelly KA, Dorian P, Fournier A, Goodman JM, Grubic N, Isserow S, Johri AM, Philippon F, Pipe A, Poirier P, Quinn R, Taylor T, Thornton J, Wilkinson M, and McKinney J
- Subjects
- Athletes, Heart, Humans, Vaccination, COVID-19 prevention & control, Heart Diseases
- Published
- 2022
- Full Text
- View/download PDF
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