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Article ; Online: Alcohol consumption and the risk of renal cancers in the European Prospective Investigation into Cancer and Nutrition (EPIC). Wozniak MB, Brennan P, Brenner DR, Overvad K, Olsen A, Tjønneland A, Boutron-Ruault MC, Clavel-Chapelon F, Fagherazzi G, Katzke V, Kühn T, Boeing H, Bergmann MM, Steffen A, Naska A, Trichopoulou A, Trichopoulos D, Saieva C, Grioni S, Panico S, Tumino R, Vineis P, Bueno-de-Mesquita HB, Peeters PH, Hjartåker A, Weiderpass E, Arriola L, Molina-Montes E, Duell EJ, Santiuste C, Alonso de la Torre R, Barricarte Gurrea A, Stocks T, Johansson M, Ljungberg B, Wareham N, Khaw KT, Travis RC, Cross AJ, Murphy N, Riboli E, Scelo G.Int J Cancer. 2015 Oct 15;137(8):1953-66. [Epub 2015 Apr 28]. doi: 10.1002/ijc.29559.

Jay, Raman / Brennan, P / Brenner / Overvad, K / Olsen, A / Tjønneland, A / Boutron-Ruault, M C / Clavel-Chapelon, F / Fagherazzi / Katzke, V / Kühn, T / Boeing, H / Bergmann, M M / Steffen, A / Naska, A / Trichopoulou, A / Trichopoulos, D / Saieva, C / Grioni, S /

Urologic oncology

2017 Volume 35, Issue 3, Page(s) 117

Abstract: Epidemiologic studies have reported that moderate alcohol consumption is inversely associated with the risk of renal cancer. However, there is no information available on the associations in renal cancer subsites. From 1992 to 2010, 477,325 men and women ...

Abstract	Epidemiologic studies have reported that moderate alcohol consumption is inversely associated with the risk of renal cancer. However, there is no information available on the associations in renal cancer subsites. From 1992 to 2010, 477,325 men and women in the European Prospective Investigation into Cancer and Nutrition cohort were followed for incident renal cancers (n = 931). Baseline and lifetime alcohol consumption was assessed by country-specific, validated dietary questionnaires. Information on past alcohol consumption was collected by lifestyle questionnaires. Hazard ratios (HRs) and 95% confidence intervals (CIs) were estimated from Cox proportional hazard models. In multivariate analysis, total alcohol consumption at baseline was inversely associated with renal cancer; the HR and 95% CI for the increasing categories of total alcohol consumption at recruitment vs. the light drinkers category were 0.78 (0.62-0.99), 0.82 (0.64-1.04), 0.70 (0.55-0.90), and 0.91 (0.63-1.30), respectively, (ptrend = 0.001). A similar relationship was observed for average lifetime alcohol consumption and for all renal cancer subsites combined or for renal parenchyma subsite. The trend was not observed in hypertensive individuals and not significant in smokers. In conclusion, moderate alcohol consumption was associated with a decreased risk of renal cancer.
MeSH term(s)	Alcohol Drinking ; Female ; Humans ; Kidney Neoplasms ; Male ; Nutritional Status ; Proportional Hazards Models ; Prospective Studies ; Risk Factors
Language	English
Publishing date	2017-02-01
Publishing country	United States
Document type	Journal Article ; Comment
ZDB-ID	1336505-8
ISSN	1873-2496 ; 1078-1439
ISSN (online)	1873-2496
ISSN	1078-1439
DOI	10.1016/j.urolonc.2016.12.022
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Article: Reactions of a gallium(II)-diazabutadiene dimer, [{{[(H)C(Bu(t))N]2}GaI}2], with [ME(SiMe3)2] (M = Li or Na; E = N, P, or As): structural, EPR, and ENDOR characterization of paramagnetic gallium(III) pnictide complexes.

Antcliff, Karen L / Baker, Robert J / Jones, Cameron / Murphy, Damien M / Rose, Richard P

Inorganic chemistry

2005 Volume 44, Issue 6, Page(s) 2098–2105

Abstract: ... 2) with the alkali metal pnictides [ME(SiMe3)2] (M = Li or Na; E = N, P, or As) have been carried ... III)-pnictide complexes, [(Bu(t)-DAB)Ga{E(SiMe3)2}I] (E = N, P, or As), while two of the 1:4 reactions ... afforded [(Bu(t)-DAB)Ga{E(SiMe3)2}2] (E = P or As). In contrast, treatment of [{(Bu(t)-DAB)GaI}2] with 4 ...

Abstract	The reactions of the paramagnetic gallium(II) complex [{(Bu(t)-DAB)GaI}2] (Bu(t)-DAB = {(Bu(t))NC(H)}2) with the alkali metal pnictides [ME(SiMe3)2] (M = Li or Na; E = N, P, or As) have been carried out under a range of stoichiometries. The 1:2 reactions have led to a series of paramagnetic gallium(III)-pnictide complexes, [(Bu(t)-DAB)Ga{E(SiMe3)2}I] (E = N, P, or As), while two of the 1:4 reactions afforded [(Bu(t)-DAB)Ga{E(SiMe3)2}2] (E = P or As). In contrast, treatment of [{(Bu(t)-DAB)GaI}2] with 4 equiv of [NaN(SiMe3)2] resulted in a novel gallium heterocycle coupling reaction and the formation of the diradical species [(Bu(t)-DAB)Ga{N(SiMe3)2}{[CC(H)N2(Bu(t))2]Ga[N(SiMe3)2]CH3}]. The mechanism of this unusual reaction has been explored, and evidence suggests it involves an intramolecular transmethylation reaction. The X-ray crystal structures of all prepared complexes are reported, and all have been characterized by EPR and ENDOR spectroscopies. The observed spin Hamiltonian parameters provide a detailed picture of the distribution of the unpaired spin density over the molecular frameworks of the complexes.
Language	English
Publishing date	2005-03-21
Publishing country	United States
Document type	Journal Article
ZDB-ID	1484438-2
ISSN	1520-510X ; 0020-1669
ISSN (online)	1520-510X
ISSN	0020-1669
DOI	10.1021/ic0486825
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Article: Creating competent and confident volunteers for inclusive water sports.

Warraitch, A / Killalea, M / Murphy, J / Barrett, E

Irish medical journal

2024 Volume 117, Issue 4, Page(s) 943

MeSH term(s)	Humans ; Water Sports/physiology ; Volunteers
Language	English
Publishing date	2024-04-25
Publishing country	Ireland
Document type	Letter ; Journal Article
ZDB-ID	193134-9
ISSN	0332-3102 ; 0021-129X
ISSN	0332-3102 ; 0021-129X
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Book ; Online: Age determination of the lower oceanic crust at ODP Hole 176-735B, supplementary data to: John, Barbara E; Foster, David A; Murphy, John M; Cheadle, Michael J; Baines, A Graham; Fanning, C Mark; Copeland, Peter (2004): Determining the cooling history of in situ lower oceanic crust-Atlantis Bank, SW Indian Ridge. Earth and Planetary Science Letters, 222(1), 145-160

John, Barbara E / Baines, A Graham / Cheadle, Michael J / Copeland, Peter / Fanning, C Mark / Foster, David A / Murphy, John M

2004

Abstract: ... high temperatures for crust >700 m below sea floor at 8-10 Ma (i.e. 2-4 m.y. off axis). We offer two ... 21 Ma), implying cooling rates of >800?C/m.y. over the first 500,00 years to temperatures below ~330 ... to <110?C by ~7 Ma, some 4-5 m.y. off axis.
Comprehensive thermochronometric data from the structurally ...

Abstract	The cooling history and therefore thermal structure of oceanic lithosphere in slow-spreading environments is, to date, poorly constrained. Application of thermochronometric techniques to rocks from the very slow spreading SW Indian Ridge provide for the first time a direct measure of the age and thermal history of in situ lower oceanic crust. Crystallization of felsic veins (~850?C) drilled in Hole 735B is estimated at 11.93F0.14 Ma, based on U-Pb analyses of zircon by ion probe. This crystallization age is older than the 'crustal age' from remanence inferred from both sea surface and near-bottom magnetic anomaly data gathered over Hole 735B which indicate magnetization between major normal polarity chrons C5n.2n and C5An.1n (10.949-11.935 Ma). 40Ar/39Ar analyses of biotite give plateau ages between 11 and 12 Ma (mean 11.42 +/- 0.21 Ma), implying cooling rates of >800?C/m.y. over the first 500,00 years to temperatures below ~330-400?C. Fission-track ages on zircon (mean 9.35 +/- 1.2 Ma) and apatite reveal less rapid cooling to <110?C by ~7 Ma, some 4-5 m.y. off axis. Comprehensive thermochronometric data from the structurally intact block of gabbro between ~700 and 1100 m below sea floor suggest that crust traversed by ODP Hole 735B mimics conductive cooling over the temperature range ~?900-330?C, characteristic of a 2-D plate-cooling model for oceanic lithosphere. In contrast, lower temperature chronometers (fission track on zircon, titanite, and apatite; T<=280?C) are not consistent with these predictions and record anomalously high temperatures for crust >700 m below sea floor at 8-10 Ma (i.e. 2-4 m.y. off axis). We offer two hypotheses for this thermal anomaly: (i) Off-axis (or asymmetric) magmatism that caused anomalous reheating of the crust preserved in Hole 735B. This postulated magmatic event might be a consequence of the transtension, which affected the Atlantis II transform from ~19.5 to 7.5 Ma. (ii) Late detachment faulting, which led to significant crustal denudation (2.5-3 km removed), further from the ridge axis than conventionally thought.
Language	English
Dates of publication	2004-9999
Size	Online-Ressource
Publisher	PANGAEA - Data Publisher for Earth & Environmental Science
Publishing place	Bremen/Bremerhaven
Document type	Book ; Online
Note	This dataset is supplement to doi:10.1016/j.epsl.2004.02.014
DOI	10.1594/PANGAEA.714870
Database	Library catalogue of the German National Library of Science and Technology (TIB), Hannover

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Article ; Online: Gasdermin and MLKL necrotic cell death effectors: Signaling and diseases.

Lawlor, Kate E / Murphy, James M / Vince, James E

Immunity

2024 Volume 57, Issue 3, Page(s) 429–445

Abstract: Diverse inflammatory conditions, from infections to autoimmune disease, are often associated with cellular damage and death. Apoptotic cell death has evolved to minimize its inflammatory potential. By contrast, necrotic cell death via necroptosis and ... ...

Abstract	Diverse inflammatory conditions, from infections to autoimmune disease, are often associated with cellular damage and death. Apoptotic cell death has evolved to minimize its inflammatory potential. By contrast, necrotic cell death via necroptosis and pyroptosis-driven by membrane-damaging MLKL and gasdermins, respectively-can both initiate and propagate inflammatory responses. In this review, we provide insights into the function and regulation of MLKL and gasdermin necrotic effector proteins and drivers of plasma membrane rupture. We evaluate genetic evidence that MLKL- and gasdermin-driven necrosis may either provide protection against, or contribute to, disease states in a context-dependent manner. These cumulative insights using gene-targeted mice underscore the necessity for future research examining pyroptotic and necroptotic cell death in human tissue, as a basis for developing specific necrotic inhibitors with the potential to benefit a spectrum of pathological conditions.
MeSH term(s)	Humans ; Animals ; Mice ; Gasdermins ; Necrosis/metabolism ; Apoptosis/physiology ; Pyroptosis/physiology ; Cell Death ; Inflammasomes/metabolism ; Protein Kinases/metabolism
Chemical Substances	Gasdermins ; Inflammasomes ; MLKL protein, human (EC 2.7.-) ; Protein Kinases (EC 2.7.-) ; MLKL protein, mouse (EC 2.7.-)
Language	English
Publishing date	2024-03-13
Publishing country	United States
Document type	Journal Article ; Review
ZDB-ID	1217235-2
ISSN	1097-4180 ; 1074-7613
ISSN (online)	1097-4180
ISSN	1074-7613
DOI	10.1016/j.immuni.2024.02.011
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Article ; Online: Bottom-up and top-down pressures mediate competition between two generalist insects.

Barnes, Elizabeth E / Murphy, Shannon M

Ecology

2023 Volume 104, Issue 3, Page(s) e3957

Abstract: The effects of competition can have far-reaching consequences for individuals, populations, and communities and therefore we should strive toward a deeper understanding of competitive interactions. In some cases, dietary generalists may be predicted to ... ...

Abstract	The effects of competition can have far-reaching consequences for individuals, populations, and communities and therefore we should strive toward a deeper understanding of competitive interactions. In some cases, dietary generalists may be predicted to experience weak competition effects because of their ability to use a wide range of host plants. However, competition between insects frequently occurs indirectly, which can hinder insects' abilities to avoid competitive interactions. Therefore, competition may be as strong among dietary generalists as among dietary specialists. Yet competition between insects that are dietary generalists is infrequently studied. We tested for evidence of competitive interactions between two common, temporally separated, generalist insects: the western tent caterpillar (Malacosoma californicum), which feeds early in the season, and the fall webworm (Hyphantria cunea), which feeds later in the season. Both species frequently use a common host plant species (chokecherry) as a preferred host at our field sites. We tested the relative strength of bottom-up effects resulting from competitive interactions between these two generalists with laboratory-rearing trials at the relevant time of year for each insect. We recorded three common fitness measures (development time, pupal mass, and survival) for caterpillars reared on chokecherry with no damage from either of our focal species, with tent caterpillar damage, and with fall webworm damage. To test the strength of top-down pressures on fall webworm larval fitness and any potential interactions with bottom-up effects, we reared larvae in the field either exposed to or protected from predators on host plants that either did or did not have tent caterpillars feeding on them earlier in the season. We found evidence of bottom-up fitness effects on tent caterpillars and top-down and bottom-up fitness effects on fall webworms confirming that tent caterpillars and fall webworms compete indirectly. Tent caterpillars had lower pupal mass when reared on leaves from shrubs damaged by fall webworms. Fall webworms had lower pupal mass and longer development time when reared on leaves from shrubs damaged by tent caterpillars. In field trials, fall webworms reared on shrubs damaged by tent caterpillars had a lower survival and pupal mass. We show evidence of indirect competition in temporally separated generalists through leaf quality (bottom-up effects) and natural enemies (top-down effects).
MeSH term(s)	Humans ; Animals ; Insecta ; Moths ; Larva ; Seasons ; Plants
Language	English
Publishing date	2023-01-16
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2010140-5
ISSN	1939-9170 ; 0012-9658
ISSN (online)	1939-9170
ISSN	0012-9658
DOI	10.1002/ecy.3957
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Article ; Online: rworkflows: automating reproducible practices for the R community.

Schilder, Brian M / Murphy, Alan E / Skene, Nathan G

Nature communications

2024 Volume 15, Issue 1, Page(s) 149

Abstract: Despite calls to improve reproducibility in research, achieving this goal remains elusive even within computational fields. Currently, >50% of R packages are distributed exclusively through GitHub. While the trend towards sharing open-source software has ...

Abstract	Despite calls to improve reproducibility in research, achieving this goal remains elusive even within computational fields. Currently, >50% of R packages are distributed exclusively through GitHub. While the trend towards sharing open-source software has been revolutionary, GitHub does not have any default built-in checks for minimal coding standards or software usability. This makes it difficult to assess the current quality R packages, or to consistently use them over time and across platforms. While GitHub-native solutions are technically possible, they require considerable time and expertise for each developer to write, implement, and maintain. To address this, we develop rworkflows; a suite of tools to make robust continuous integration and deployment ( https://github.com/neurogenomics/rworkflows ). rworkflows can be implemented by developers of all skill levels using a one-time R function call which has both sensible defaults and extensive options for customisation. Once implemented, any updates to the GitHub repository automatically trigger parallel workflows that install all software dependencies, run code checks, generate a dedicated documentation website, and deploy a publicly accessible containerised environment. By making the rworkflows suite free, automated, and simple to use, we aim to promote widespread adoption of reproducible practices across a continually growing R community.
Language	English
Publishing date	2024-01-02
Publishing country	England
Document type	Journal Article
ZDB-ID	2553671-0
ISSN	2041-1723 ; 2041-1723
ISSN (online)	2041-1723
ISSN	2041-1723
DOI	10.1038/s41467-023-44484-5
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Article ; Online: The aging lung microenvironment awakens melanoma metastases.

Murphy, Brandon M / Burd, Christin E

Cancer cell

2022 Volume 40, Issue 8, Page(s) 815–817

Abstract: In a recent publication in Nature, Fane et al. establish WNT5A as a central, age-sensitive regulator of the dormancy-to-reactivation axis of melanoma. They show that aged fibroblasts in the lungs suppress WNT5A signaling induced at the primary tumor site ...

Abstract	In a recent publication in Nature, Fane et al. establish WNT5A as a central, age-sensitive regulator of the dormancy-to-reactivation axis of melanoma. They show that aged fibroblasts in the lungs suppress WNT5A signaling induced at the primary tumor site to awaken dormant melanoma cells and promote the outgrowth of metastases.
MeSH term(s)	Aging/metabolism ; Fibroblasts/metabolism ; Humans ; Lung/metabolism ; Lung Neoplasms/pathology ; Melanoma/pathology ; Neoplasm Metastasis ; Signal Transduction ; Tumor Microenvironment ; Wnt-5a Protein/metabolism
Chemical Substances	WNT5A protein, human ; Wnt-5a Protein
Language	English
Publishing date	2022-07-21
Publishing country	United States
Document type	Journal Article ; Comment
ZDB-ID	2078448-X
ISSN	1878-3686 ; 1535-6108
ISSN (online)	1878-3686
ISSN	1535-6108
DOI	10.1016/j.ccell.2022.06.013
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Zs.A 5650: Show issues			Location: Je nach Verfügbarkeit (siehe Angabe bei Bestand) bis Jg. 1994: Bestellungen von Artikeln über das Online-Bestellformular Jg. 1995 - 2021: Lesesall (2.OG) ab Jg. 2022: Lesesaal (EG)
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Article ; Online: Attitudes and advice-giving behaviours of pharmacists in relation to topical corticosteroid use for patients with lichen sclerosus.

Nic Dhonncha, E / Murphy, M

Clinical and experimental dermatology

2021 Volume 47, Issue 1, Page(s) 190–192

MeSH term(s)	Administration, Topical ; Attitude of Health Personnel ; Humans ; Lichen Sclerosus et Atrophicus/drug therapy ; Pharmacists/psychology
Language	English
Publishing date	2021-09-10
Publishing country	England
Document type	Letter
ZDB-ID	195504-4
ISSN	1365-2230 ; 0307-6938
ISSN (online)	1365-2230
ISSN	0307-6938
DOI	10.1111/ced.14888
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Article ; Online: Time-Varying Effect Models for Examining Age-Dynamic Associations in Gerontological Research.

Costello, Darcé M / Murphy, Terrence E

Experimental aging research

2022 Volume 49, Issue 3, Page(s) 289–305

Abstract: Objectives: Dynamic processes unfolding over later adulthood are of prime interest to gerontological researchers. Time-varying effect modeling (TVEM) accommodates dynamic change trajectories, but its use in gerontological research is limited. We ... ...

Abstract	Objectives: Dynamic processes unfolding over later adulthood are of prime interest to gerontological researchers. Time-varying effect modeling (TVEM) accommodates dynamic change trajectories, but its use in gerontological research is limited. We introduce and demonstrate TVEM with an empirical example based on the National Health and Aging Trends Study (NHATS). Methods: We examined (a) age-varying prevalence of past month elevated symptoms of depression and anxiety and (b) age-varying associations between older adults' elevated symptoms of depression and anxiety and needing help with basic activities of daily living and educational attainment. Results: The proportion of participants reporting elevated symptoms of depression and anxiety in the past month increased gradually from 23-29% across the ages 70-92. Individuals needing help with ADLs had higher odds of reporting elevated symptoms of depression and anxiety, however the association was strongest for those in their 60s versus 80s. Across all ages, adults with lower education levels had higher odds of reporting elevated symptoms of depression and anxiety, an association that also varied by age. Conclusion: We demonstrated TVEM's value for studying dynamic associations that vary across chronological age. With the recent availability of free, user-friendly software for implementing TVEM, gerontological researchers have a new tool for exploring complex change processes that characterize older adults' development.
MeSH term(s)	Humans ; Aged ; Adult ; Aging ; Activities of Daily Living ; Anxiety/epidemiology ; Depression/epidemiology
Language	English
Publishing date	2022-07-03
Publishing country	United States
Document type	Journal Article ; Research Support, N.I.H., Extramural
ZDB-ID	753202-7
ISSN	1096-4657 ; 0361-073X
ISSN (online)	1096-4657
ISSN	0361-073X
DOI	10.1080/0361073X.2022.2095606
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