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  1. Article: An integrated system for field studies on honey bees

    Allan, Matthew J. / Dean, Robin R.

    Journal of apicultural research

    2022  Volume 61, Issue 3, Page(s) 317

    Language English
    Document type Article
    ZDB-ID 281228-9
    ISSN 0021-8839
    Database Current Contents Nutrition, Environment, Agriculture

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    Z 2023: Show issues

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  2. Article: An enhancer RNA recruits MLL1 to regulate transcription of

    Kim, Juhyun / Diaz, Luis F / Miller, Matthew J / Leadem, Benjamin / Krivega, Ivan / Dean, Ann

    bioRxiv : the preprint server for biology

    2023  

    Abstract: ... ...

    Abstract The
    Language English
    Publishing date 2023-10-12
    Publishing country United States
    Document type Preprint
    DOI 10.1101/2023.09.26.559528
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article ; Online: Use of remote sensing to assess vegetative stress as a proxy for soil contamination.

    Dean, John R / Ahmed, Shara / Cheung, William / Salaudeen, Ibrahim / Reynolds, Matthew / Bowerbank, Samantha L / Nicholson, Catherine E / Perry, Justin J

    Environmental science. Processes & impacts

    2024  Volume 26, Issue 1, Page(s) 161–176

    Abstract: We report, for the first time, a multimodal investigation of current crude oil reprocessing and storage sites to assess their impact on the environment after 50 years of continuous operation. We have adopted a dual approach to investigate potential soil ... ...

    Abstract We report, for the first time, a multimodal investigation of current crude oil reprocessing and storage sites to assess their impact on the environment after 50 years of continuous operation. We have adopted a dual approach to investigate potential soil contamination. The first approach uses conventional analytical techniques
    MeSH term(s) Remote Sensing Technology ; Soil ; Petroleum
    Chemical Substances Soil ; Petroleum
    Language English
    Publishing date 2024-01-24
    Publishing country England
    Document type Journal Article
    ZDB-ID 2703814-2
    ISSN 2050-7895 ; 2050-7887
    ISSN (online) 2050-7895
    ISSN 2050-7887
    DOI 10.1039/d3em00480e
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article ; Online: Electrochemical Wastewater Refining: A Vision for Circular Chemical Manufacturing.

    Miller, Dean M / Abels, Kristen / Guo, Jinyu / Williams, Kindle S / Liu, Matthew J / Tarpeh, William A

    Journal of the American Chemical Society

    2023  Volume 145, Issue 36, Page(s) 19422–19439

    Abstract: Wastewater is an underleveraged resource; it contains pollutants that can be transformed into valuable high-purity products. Innovations in chemistry and chemical engineering will play critical roles in valorizing wastewater to remediate environmental ... ...

    Abstract Wastewater is an underleveraged resource; it contains pollutants that can be transformed into valuable high-purity products. Innovations in chemistry and chemical engineering will play critical roles in valorizing wastewater to remediate environmental pollution, provide equitable access to chemical resources and services, and secure critical materials from diminishing feedstock availability. This perspective envisions
    Language English
    Publishing date 2023-08-29
    Publishing country United States
    Document type Journal Article ; Review
    ZDB-ID 3155-0
    ISSN 1520-5126 ; 0002-7863
    ISSN (online) 1520-5126
    ISSN 0002-7863
    DOI 10.1021/jacs.3c01142
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  5. Article ; Online: Mapping periplasmic binding protein oligosaccharide recognition with neutron crystallography.

    Shukla, Shantanu / Myles, Dean A / Cuneo, Matthew J

    Scientific reports

    2022  Volume 12, Issue 1, Page(s) 17647

    Abstract: Numerous studies have shown how periplasmic binding proteins (PBPs) bind substrates with exquisite specificity, even distinguishing between sugar epimers and anomers, or structurally similar ions. Yet, marked substrate promiscuity is also a feature ... ...

    Abstract Numerous studies have shown how periplasmic binding proteins (PBPs) bind substrates with exquisite specificity, even distinguishing between sugar epimers and anomers, or structurally similar ions. Yet, marked substrate promiscuity is also a feature encoded in some PBPs. Except for three sub-Ångström crystal structures, there are no reports of hydrogen atom positions in the remaining (> 1000) PBP structures. The previous X-ray crystal structure of the maltodextrin periplasmic-binding protein from Thermotoga maritima (tmMBP) complexed with oligosaccharide showed a large network of interconnected water molecules stretching from one end of the substrate binding pocket to the other. These water molecules are positioned to form multiple hydrogen bonds, as well as forming interactions between the protein and substrate. Here we present the neutron crystal structure of tmMBP to a resolution of 2.1 Å. This is the first neutron crystal structure from the PBP superfamily and here we unambiguously identify the nature and orientation of the hydrogen bonding and water-mediated interactions involved in stabilizing a tetrasaccharide in the binding site. More broadly, these results demonstrate the conserved intricate mechanisms that underlie substrate-specificity and affinity in PBPs.
    MeSH term(s) Periplasmic Binding Proteins/metabolism ; Protein Conformation ; Crystallography, X-Ray ; Models, Molecular ; Binding Sites ; Hydrogen Bonding ; Oligosaccharides/chemistry ; Neutrons ; Sugars ; Water/metabolism ; Hydrogen/metabolism ; Protein Binding
    Chemical Substances Periplasmic Binding Proteins ; Oligosaccharides ; Sugars ; Water (059QF0KO0R) ; Hydrogen (7YNJ3PO35Z)
    Language English
    Publishing date 2022-10-21
    Publishing country England
    Document type Journal Article
    ZDB-ID 2615211-3
    ISSN 2045-2322 ; 2045-2322
    ISSN (online) 2045-2322
    ISSN 2045-2322
    DOI 10.1038/s41598-022-20542-8
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  6. Article: An integrated system for field studies on honey bees

    Allan, Matthew J. / Dean, Robin R.

    Journal of apicultural research. 2022 May 5, v. 61, no. 3

    2022  

    Abstract: Semi-field and field studies on honey bees using colonies are necessary to obtain more biologically relevant data, but are often hampered by logistic constraints. The use of small colonies in miniature hives is regarded as an acceptable approach to such ... ...

    Abstract Semi-field and field studies on honey bees using colonies are necessary to obtain more biologically relevant data, but are often hampered by logistic constraints. The use of small colonies in miniature hives is regarded as an acceptable approach to such studies, but the equipment designed for commercial and hobby beekeepers may not be appropriate or effective for research purposes. Here, we propose a novel integrated system of research equipment in which each item is designed and built in a coordinated fashion to improve speed, ease, reliability, and accuracy. The system is built around the Study Frame and includes a converter hive, photographic equipment, and combined floor, stand, varroa tray, dead bee trap, and pollen trap, thereby allowing for a wide range of scientific purposes.
    Keywords apiculture ; honey ; photographic equipment ; research equipment ; spore traps
    Language English
    Dates of publication 2022-0505
    Size p. 317-319.
    Publishing place Taylor & Francis
    Document type Article
    ZDB-ID 281228-9
    ISSN 2078-6913 ; 0021-8839
    ISSN (online) 2078-6913
    ISSN 0021-8839
    DOI 10.1080/00218839.2021.2018107
    Database NAL-Catalogue (AGRICOLA)

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    In stock of ZB MED Bonn / Germany

    Z 2023: Show issues

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  7. Article ; Online: Molecular Pharmacology of Selective Na

    Goodchild, Samuel J / Shuart, Noah Gregory / Williams, Aaron D / Ye, Wenlei / Parrish, R Ryley / Soriano, Maegan / Thouta, Samrat / Mezeyova, Janette / Waldbrook, Matthew / Dean, Richard / Focken, Thilo / Ghovanloo, Mohammad-Reza / Ruben, Peter C / Scott, Fiona / Cohen, Charles J / Empfield, James / Johnson, J P

    ACS chemical neuroscience

    2024  Volume 15, Issue 6, Page(s) 1169–1184

    Abstract: Voltage-gated sodium channel ( ... ...

    Abstract Voltage-gated sodium channel (Na
    MeSH term(s) Humans ; Neurons/metabolism ; Voltage-Gated Sodium Channels/metabolism ; Epilepsy/metabolism ; Brain/metabolism ; Seizures/drug therapy ; Seizures/metabolism ; Action Potentials/physiology
    Chemical Substances Voltage-Gated Sodium Channels
    Language English
    Publishing date 2024-02-15
    Publishing country United States
    Document type Journal Article
    ISSN 1948-7193
    ISSN (online) 1948-7193
    DOI 10.1021/acschemneuro.3c00757
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  8. Article ; Online: Ex Vivo Ovarian Culture to Model the Initial Metastasis in Ovarian Cancer.

    Dean, Matthew

    Methods in molecular biology (Clifton, N.J.)

    2021  Volume 2424, Page(s) 189–198

    Abstract: Being able to accurately model metastasis is an important tool in cancer research. Several in vitro and ex vivo models have been developed to model metastasis from the ovary to the omentum, the most frequent metastatic site after leaving the ovary. ... ...

    Abstract Being able to accurately model metastasis is an important tool in cancer research. Several in vitro and ex vivo models have been developed to model metastasis from the ovary to the omentum, the most frequent metastatic site after leaving the ovary. However, the recent discovery that high-grade serous ovarian cancer (HGSOC) can originate in the fallopian tube and then metastasize to the ovary has necessitated the development of assays that can quantify the adhesion of tumor cells to the ovary. Here we describe a protocol for accessing the adhesion of fluorescent cells to mouse ovaries. This assay can be used to investigate the role of ovarian function, hormones, and adhesion molecules in metastasis of cancer cells originating in the fallopian tube to the ovary, an important step in the progression of HGSOC.
    MeSH term(s) Animals ; Carcinoma, Ovarian Epithelial ; Fallopian Tube Neoplasms ; Fallopian Tubes ; Female ; Humans ; Mice ; Ovarian Neoplasms ; Tissue Culture Techniques
    Language English
    Publishing date 2021-12-13
    Publishing country United States
    Document type Journal Article
    ISSN 1940-6029
    ISSN (online) 1940-6029
    DOI 10.1007/978-1-0716-1956-8_13
    Database MEDical Literature Analysis and Retrieval System OnLINE

    Full text online

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  9. Article ; Online: The distinct roles of reinforcement learning between pre-procedure and intra-procedure planning for prostate biopsy.

    Gayo, Iani J M B / Saeed, Shaheer U / Bonmati, Ester / Barratt, Dean C / Clarkson, Matthew J / Hu, Yipeng

    International journal of computer assisted radiology and surgery

    2024  

    Abstract: Purpose: Magnetic resonance (MR) imaging targeted prostate cancer (PCa) biopsy enables precise sampling of MR-detected lesions, establishing its importance in recommended clinical practice. Planning for the ultrasound-guided procedure involves pre- ... ...

    Abstract Purpose: Magnetic resonance (MR) imaging targeted prostate cancer (PCa) biopsy enables precise sampling of MR-detected lesions, establishing its importance in recommended clinical practice. Planning for the ultrasound-guided procedure involves pre-selecting needle sampling positions. However, performing this procedure is subject to a number of factors, including MR-to-ultrasound registration, intra-procedure patient movement and soft tissue motions. When a fixed pre-procedure planning is carried out without intra-procedure adaptation, these factors will lead to sampling errors which could cause false positives and false negatives. Reinforcement learning (RL) has been proposed for procedure plannings on similar applications such as this one, because intelligent agents can be trained for both pre-procedure and intra-procedure planning. However, it is not clear if RL is beneficial when it comes to addressing these intra-procedure errors.
    Methods: In this work, we develop and compare imitation learning (IL), supervised by demonstrations of predefined sampling strategy, and RL approaches, under varying degrees of intra-procedure motion and registration error, to represent sources of targeting errors likely to occur in an intra-operative procedure.
    Results: Based on results using imaging data from 567 PCa patients, we demonstrate the efficacy and value in adopting RL algorithms to provide intelligent intra-procedure action suggestions, compared to IL-based planning supervised by commonly adopted policies.
    Conclusions: The improvement in biopsy sampling performance for intra-procedure planning has not been observed in experiments with only pre-procedure planning. These findings suggest a strong role for RL in future prospective studies which adopt intra-procedure planning. Our open source code implementation is available here .
    Language English
    Publishing date 2024-03-07
    Publishing country Germany
    Document type Journal Article
    ZDB-ID 2365628-1
    ISSN 1861-6429 ; 1861-6410
    ISSN (online) 1861-6429
    ISSN 1861-6410
    DOI 10.1007/s11548-024-03084-4
    Database MEDical Literature Analysis and Retrieval System OnLINE

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    Zs.A 6615: Show issues Location:
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  10. Article ; Online: Association of apolipoproteins C-I and C-II truncations with coronary heart disease and progression of coronary artery calcium: Multi-Ethnic Study of Atherosclerosis.

    Koska, Juraj / Hu, Yueming / Furtado, Jeremy / Billheimer, Dean / Nedelkov, Dobrin / Allison, Matthew / Budoff, Matthew J / McClelland, Robyn L / Reaven, Peter

    Atherosclerosis

    2023  Volume 380, Page(s) 117214

    Abstract: Background and aims: Higher truncated-to-native proteoform ratios of apolipoproteins (apo) C-I (C-I'/C-I) and C-II (C-II'/C-II) are associated with less atherogenic lipid profiles. We examined prospective relationships of C-I'/C-II and C-II'/C-II with ... ...

    Abstract Background and aims: Higher truncated-to-native proteoform ratios of apolipoproteins (apo) C-I (C-I'/C-I) and C-II (C-II'/C-II) are associated with less atherogenic lipid profiles. We examined prospective relationships of C-I'/C-II and C-II'/C-II with coronary heart disease (CHD) and coronary artery calcium (CAC).
    Methods: ApoC-I and apoC-II proteoforms were measured by mass spectrometry immunoassay in 5790 MESA baseline plasma samples. CHD events (myocardial infarction, resuscitated cardiac arrest, fatal CHD, n = 434) were evaluated for up to 17 years. CAC was measured 1-4 times over 10 years for incident CAC (if baseline CAC = 0), and changes (follow-up adjusted for baseline) in CAC score and density (if baseline CAC>0).
    Results: C-II'/C-II was inversely associated with CHD (n = 434 events) after adjusting for non-lipid cardiovascular risk factors (Hazard ratio: 0.89 [95% CI: 0.81-0.98] per SD), however, the association was attenuated after further adjustment for HDL levels (0.93 [0.83-1.03]). There was no association between C-I'/C-I and CHD (0.98 [0.88-1.08]). C-II'/C-II was positively associated with changes in CAC score (3.4% [95%CI: 0.6, 6.3]) and density (6.3% [0.3, 4.2]), while C-I'/C-I was inversely associated with incident CAC (Risk ratio: 0.89 [95% CI: 0.81, 0.98]) in fully adjusted models that included plasma lipids. Total apoC-I and apoC-II concentrations were not associated with CHD, incident CAC or change in CAC score.
    Conclusions: Increased apoC-II truncation was associated with reduced CHD, possibly explained by differences in lipid metabolism. Increased apoC-I and apoC-II truncations were also associated with less CAC progression and/or development of denser coronary plaques.
    MeSH term(s) Humans ; Coronary Artery Disease/complications ; Calcium/metabolism ; Prospective Studies ; Coronary Vessels/diagnostic imaging ; Coronary Vessels/metabolism ; Atherosclerosis/metabolism ; Calcium, Dietary ; Apolipoproteins C/metabolism ; Risk Factors ; Risk Assessment
    Chemical Substances Calcium (SY7Q814VUP) ; Calcium, Dietary ; Apolipoproteins C
    Language English
    Publishing date 2023-08-07
    Publishing country Ireland
    Document type Journal Article ; Research Support, N.I.H., Extramural
    ZDB-ID 80061-2
    ISSN 1879-1484 ; 0021-9150
    ISSN (online) 1879-1484
    ISSN 0021-9150
    DOI 10.1016/j.atherosclerosis.2023.117214
    Database MEDical Literature Analysis and Retrieval System OnLINE

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    Zs.A 226: Show issues Location:
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    bis Jg. 1994: Bestellungen von Artikeln über das Online-Bestellformular
    Jg. 1995 - 2021: Lesesall (1.OG)
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