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  1. Article: Lactate Dehydrogenase Inhibitors Suppress

    Lynch, Adam / Pearson, Patrick / Savinov, Sergey N / Li, Andrew Y / Rich, Stephen M

    Pathogens (Basel, Switzerland)

    2023  Volume 12, Issue 7

    Abstract: ... Borrelia ... ...

    Abstract Borrelia burgdorferi
    Language English
    Publishing date 2023-07-22
    Publishing country Switzerland
    Document type Journal Article
    ZDB-ID 2695572-6
    ISSN 2076-0817
    ISSN 2076-0817
    DOI 10.3390/pathogens12070962
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: Pediatric Fungal Ventriculoperitoneal Shunt Infection Due to Paecilomyces.

    Li, Adam Y / Stephen, Tyler / Jay, Catherine / D George, Derek / Furst, Taylor / Cameron, Andrew / Weinberg, Geoffrey A / Silberstein, Howard J

    The Pediatric infectious disease journal

    2023  

    Language English
    Publishing date 2023-12-27
    Publishing country United States
    Document type Journal Article
    ZDB-ID 392481-6
    ISSN 1532-0987 ; 0891-3668
    ISSN (online) 1532-0987
    ISSN 0891-3668
    DOI 10.1097/INF.0000000000004161
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article: What drives consumer activism during trade disputes? Experimental evidence from Canada.

    Li, Xiaojun / Liu, Adam Y

    International journal (Toronto, Ont.)

    2020  Volume 76, Issue 1, Page(s) 68–84

    Abstract: What drives consumer activism during trade disputes? We investigate this important and timely question using a survey experiment in the context of the recent Canada-US trade dispute. We find that Canadians are more likely to express willingness to take ... ...

    Abstract What drives consumer activism during trade disputes? We investigate this important and timely question using a survey experiment in the context of the recent Canada-US trade dispute. We find that Canadians are more likely to express willingness to take punitive actions in the form of boycotting during a trade conflict when they learn that Americans are taking such actions (retaliation), when many fellow citizens are taking such actions (peer pressure), and when they are rallied by their government (elite cue). Among the three conditions, peer pressure has the largest effect. These findings contribute to our understanding of the microfoundations of consumer activism during international trade disputes. They also have important policy implications in a world where both protectionism and populism are rising.
    Language English
    Publishing date 2020-11-12
    Publishing country Canada
    Document type Journal Article
    ZDB-ID 2254714-9
    ISSN 2052-465X ; 0020-7020
    ISSN (online) 2052-465X
    ISSN 0020-7020
    DOI 10.1177/0020702020968942
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article: The impact of bereavement support on psychological distress in family members: a systematic review and meta-analysis.

    Rait, Louise I / Yeo, Nikki Y / Abdelhamid, Yasmine Ali / Showler, Laurie / Finnis, Mark E / Deane, Adam M

    Critical care and resuscitation : journal of the Australasian Academy of Critical Care Medicine

    2023  Volume 23, Issue 2, Page(s) 225–233

    Abstract: Background: ...

    Abstract Background:
    Language English
    Publishing date 2023-10-18
    Publishing country Netherlands
    Document type Journal Article ; Review
    ZDB-ID 2401976-8
    ISSN 1441-2772
    ISSN 1441-2772
    DOI 10.51893/2021.2.sr1
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  5. Article ; Online: Latent Representation of the Human Pan-Celltype Epigenome Through a Deep Recurrent Neural Network.

    Dsouza, Kevin B / Li, Adam Y / Bhargava, Vijay K / Libbrecht, Maxwell W

    IEEE/ACM transactions on computational biology and bioinformatics

    2022  Volume 19, Issue 4, Page(s) 2313–2323

    Abstract: The availability of thousands of assays of epigenetic activity necessitates compressed representations of these data sets that summarize the epigenetic landscape of the genome. Until recently, most such representations were cell type-specific, applying ... ...

    Abstract The availability of thousands of assays of epigenetic activity necessitates compressed representations of these data sets that summarize the epigenetic landscape of the genome. Until recently, most such representations were cell type-specific, applying to a single tissue or cell state. Recently, neural networks have made it possible to summarize data across tissues to produce a pan-cell type representation. In this work, we propose Epi-LSTM, a deep long short-term memory (LSTM) recurrent neural network autoencoder to capture the long-term dependencies in the epigenomic data. The latent representations from Epi-LSTM capture a variety of genomic phenomena, including gene-expression, promoter-enhancer interactions, replication timing, frequently interacting regions, and evolutionary conservation. These representations outperform existing methods in a majority of cell types while yielding smoother representations along the genomic axis due to their sequential nature.
    MeSH term(s) Epigenome ; Humans ; Neural Networks, Computer
    Language English
    Publishing date 2022-08-08
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ISSN 1557-9964
    ISSN (online) 1557-9964
    DOI 10.1109/TCBB.2021.3084147
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  6. Article ; Online: Controlled fabrication of functional liver spheroids with microfluidic flow cytometric printing.

    Zhang, Pengfei / Li, Xiangpeng / Chen, Jennifer Y / Abate, Adam R

    Biofabrication

    2022  Volume 14, Issue 4

    Abstract: Multicellular liver spheroids are 3D culture models useful in the development of therapies for liver fibrosis. While these models can recapitulate fibrotic disease, current methods for generating them via random aggregation are uncontrolled, yielding ... ...

    Abstract Multicellular liver spheroids are 3D culture models useful in the development of therapies for liver fibrosis. While these models can recapitulate fibrotic disease, current methods for generating them via random aggregation are uncontrolled, yielding spheroids of variable size, function, and utility. Here, we report fabrication of precision liver spheroids with microfluidic flow cytometric printing. Our approach fabricates spheroids cell-by-cell, yielding structures with exact numbers of different cell types. Because spheroid function depends on composition, our precision spheroids have superior functional uniformity, allowing more accurate and statistically significant screens compared to randomly generated spheroids. The approach produces thousands of spheroids per hour, and thus affords a scalable platform by which to manufacture single-cell precision spheroids for disease modeling and high throughput drug testing.
    MeSH term(s) Cell Culture Techniques/methods ; Cell Survival ; Liver ; Microfluidics/methods ; Printing, Three-Dimensional ; Spheroids, Cellular
    Language English
    Publishing date 2022-08-23
    Publishing country England
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
    ZDB-ID 2500944-8
    ISSN 1758-5090 ; 1758-5082
    ISSN (online) 1758-5090
    ISSN 1758-5082
    DOI 10.1088/1758-5090/ac8622
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  7. Article ; Online: NSD1 deposits histone H3 lysine 36 dimethylation to pattern non-CG DNA methylation in neurons.

    Hamagami, Nicole / Wu, Dennis Y / Clemens, Adam W / Nettles, Sabin A / Li, Aidan / Gabel, Harrison W

    Molecular cell

    2023  Volume 83, Issue 9, Page(s) 1412–1428.e7

    Abstract: During postnatal development, the DNA methyltransferase DNMT3A deposits high levels of non-CG cytosine methylation in neurons. This methylation is critical for transcriptional regulation, and loss of this mark is implicated in DNMT3A-associated ... ...

    Abstract During postnatal development, the DNA methyltransferase DNMT3A deposits high levels of non-CG cytosine methylation in neurons. This methylation is critical for transcriptional regulation, and loss of this mark is implicated in DNMT3A-associated neurodevelopmental disorders (NDDs). Here, we show in mice that genome topology and gene expression converge to shape histone H3 lysine 36 dimethylation (H3K36me2) profiles, which in turn recruit DNMT3A and pattern neuronal non-CG methylation. We show that NSD1, an H3K36 methyltransferase mutated in NDD, is required for the patterning of megabase-scale H3K36me2 and non-CG methylation in neurons. We find that brain-specific deletion of NSD1 causes altered DNA methylation that overlaps with DNMT3A disorder models to drive convergent dysregulation of key neuronal genes that may underlie shared phenotypes in NSD1- and DNMT3A-associated NDDs. Our findings indicate that H3K36me2 deposited by NSD1 is important for neuronal non-CG DNA methylation and suggest that the H3K36me2-DNMT3A-non-CG-methylation pathway is likely disrupted in NSD1-associated NDDs.
    MeSH term(s) Animals ; Mice ; Histones/genetics ; Histones/metabolism ; DNA Methylation ; Lysine/metabolism ; Histone-Lysine N-Methyltransferase/genetics ; Histone-Lysine N-Methyltransferase/metabolism ; Neurons/metabolism
    Chemical Substances Histones ; Lysine (K3Z4F929H6) ; Histone-Lysine N-Methyltransferase (EC 2.1.1.43) ; Nsd1 protein, mouse (EC 2.1.1.43)
    Language English
    Publishing date 2023-04-24
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
    ZDB-ID 1415236-8
    ISSN 1097-4164 ; 1097-2765
    ISSN (online) 1097-4164
    ISSN 1097-2765
    DOI 10.1016/j.molcel.2023.04.001
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  8. Article ; Online: Lactate Dehydrogenase Inhibitors Suppress Borrelia burgdorferi Growth In Vitro

    Lynch, Adam / Pearson, Patrick / Savinov, Sergey N. / Li, Andrew Y. / Rich, Stephen M.

    Pathogens. 2023 July 22, v. 12, no. 7 p.962-

    2023  

    Abstract: Borrelia burgdorferi, the causative agent of Lyme disease, has a highly reduced genome and relies heavily on glycolysis for carbon metabolism. As such, established inhibitors of lactate dehydrogenase (LDH) were evaluated in cultures to determine the ... ...

    Abstract Borrelia burgdorferi, the causative agent of Lyme disease, has a highly reduced genome and relies heavily on glycolysis for carbon metabolism. As such, established inhibitors of lactate dehydrogenase (LDH) were evaluated in cultures to determine the extent of their impacts on B. burgdorferi growth. Both racemic and enantiopure (AT-101) gossypol, as well as oxamate, galloflavin, and stiripentol, caused the dose-dependent suppression of B. burgdorferi growth in vitro. Racemic gossypol and AT-101 were shown to fully inhibit spirochetal growth at concentrations of 70.5 and 187.5 μM, respectively. Differences between racemic gossypol and AT-101 efficacy may indicate that the dextrorotatory enantiomer of gossypol is a more effective inhibitor of B. burgdorferi growth than the levorotatory enantiomer. As a whole, LDH inhibition appears to be a promising mechanism for suppressing Borrelia growth, part
    Keywords Borrelia burgdorferi ; Lyme disease ; carbon metabolism ; dose response ; enantiomers ; etiological agents ; genome ; glycolysis ; gossypol ; lactate dehydrogenase
    Language English
    Dates of publication 2023-0722
    Publishing place MDPI AG
    Document type Article ; Online
    Note Resource is Open Access
    ZDB-ID 2695572-6
    ISSN 2076-0817
    ISSN 2076-0817
    DOI 10.3390/pathogens12070962
    Database NAL-Catalogue (AGRICOLA)

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  9. Article ; Online: Expansive discovery of chemically diverse structured macrocyclic oligoamides.

    Salveson, Patrick J / Moyer, Adam P / Said, Meerit Y / Gӧkçe, Gizem / Li, Xinting / Kang, Alex / Nguyen, Hannah / Bera, Asim K / Levine, Paul M / Bhardwaj, Gaurav / Baker, David

    Science (New York, N.Y.)

    2024  Volume 384, Issue 6694, Page(s) 420–428

    Abstract: Small macrocycles with four or fewer amino acids are among the most potent natural products known, but there is currently no way to systematically generate such compounds. We describe a computational method for identifying ordered macrocycles composed of ...

    Abstract Small macrocycles with four or fewer amino acids are among the most potent natural products known, but there is currently no way to systematically generate such compounds. We describe a computational method for identifying ordered macrocycles composed of alpha, beta, gamma, and 17 other amino acid backbone chemistries, which we used to predict 14.9 million closed cycles composed of >42,000 monomer combinations. We chemically synthesized 18 macrocycles predicted to adopt single low-energy states and determined their x-ray or nuclear magnetic resonance structures; 15 of these were very close to the design models. We illustrate the therapeutic potential of these macrocycle designs by developing selective inhibitors of three protein targets of current interest. By opening up a vast space of readily synthesizable drug-like macrocycles, our results should considerably enhance structure-based drug design.
    MeSH term(s) Amides/chemistry ; Amino Acids/chemistry ; Biological Products/chemical synthesis ; Biological Products/chemistry ; Biological Products/pharmacology ; Crystallography, X-Ray ; Drug Design ; Magnetic Resonance Spectroscopy ; Models, Molecular ; Molecular Conformation ; Peptides, Cyclic/chemical synthesis ; Peptides, Cyclic/chemistry ; Peptides, Cyclic/pharmacology
    Chemical Substances Amides ; Amino Acids ; Biological Products ; Peptides, Cyclic
    Language English
    Publishing date 2024-04-25
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't ; Research Support, N.I.H., Extramural ; Research Support, U.S. Gov't, Non-P.H.S.
    ZDB-ID 128410-1
    ISSN 1095-9203 ; 0036-8075
    ISSN (online) 1095-9203
    ISSN 0036-8075
    DOI 10.1126/science.adk1687
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  10. Article ; Online: Investigating cerebral perfusion with high resolution hyperpolarized [1-

    Hu, Jasmine Y / Vaziri, Sana / Bøgh, Nikolaj / Kim, Yaewon / Autry, Adam W / Bok, Robert A / Li, Yan / Laustsen, Christoffer / Xu, Duan / Larson, Peder E Z / Chang, Susan / Vigneron, Daniel B / Gordon, Jeremy W

    Magnetic resonance in medicine

    2023  Volume 90, Issue 6, Page(s) 2233–2241

    Abstract: Purpose: To investigate high-resolution hyperpolarized (HP) : Methods: HP [1-: Results: High resolution 7.5 × 7.5 mm: Conclusion: Acquiring ... ...

    Abstract Purpose: To investigate high-resolution hyperpolarized (HP)
    Methods: HP [1-
    Results: High resolution 7.5 × 7.5 mm
    Conclusion: Acquiring HP
    MeSH term(s) Humans ; Pyruvic Acid ; Magnetic Resonance Imaging/methods ; Brain/diagnostic imaging ; Brain/blood supply ; Perfusion ; Spin Labels ; Cerebrovascular Circulation
    Chemical Substances Pyruvic Acid (8558G7RUTR) ; Spin Labels
    Language English
    Publishing date 2023-09-04
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
    ZDB-ID 605774-3
    ISSN 1522-2594 ; 0740-3194
    ISSN (online) 1522-2594
    ISSN 0740-3194
    DOI 10.1002/mrm.29844
    Database MEDical Literature Analysis and Retrieval System OnLINE

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