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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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Zs.A 4817: Show issues

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Article: Hemagglutinin-specific antibody responses in immunoglobulin G, A, and M isotypes as measured by enzyme-linked immunosorbent assay after primary or secondary infection of humans with influenza A virus.

Burlington, D B / Clements, M L / Meiklejohn, G / Phelan, M / Murphy, B R

Infection and immunity

1983 Volume 41, Issue 2, Page(s) 540–545

Abstract: ... had serum antibody rises in the immunoglobulin M (IgM) (86%), IgG (100%), and IgA (96%) isotypes ...

Abstract	The isotype-specific antibody responses to purified hemagglutinin of adults undergoing either primary or secondary infection with an influenza A virus were characterized by using an enzyme-linked immunosorbent assay. Twenty-eight military recruits undergoing primary infection with A/USSR/92/77 (H1N1)-like virus had serum antibody rises in the immunoglobulin M (IgM) (86%), IgG (100%), and IgA (96%) isotypes. In contrast, 19 adult volunteers undergoing secondary infection with A/Peking/2/79 (H3N2) wild-type virus had serum antibody titer rises largely restricted to the IgG (68%) and IgA (74%) classes, with only 1 volunteer having a serum IgM antibody titer rise. Nasal wash hemagglutinin-specific antibody responses in the adults undergoing secondary infection were predominantly in the IgA class (74%). There was a correlation between the presence of and the magnitude of nasal wash and serum hemagglutinin-specific IgA antibody responses in these adults. This suggested that there was a common source for the hemagglutinin-specific local IgA antibody and serum IgA antibody produced after infection. The recruits undergoing primary H1N1 influenza virus infection had H1 hemagglutinin-specific enzyme-linked immunosorbent assay antibody in each of the IgA, IgG, and IgM isotypes in their acute-phase serum. However, no role for this cross-reactive antibody in modifying the severity of illness experienced by the recruits could be demonstrated.
MeSH term(s)	Adult ; Antibody Specificity ; Cross Reactions ; Enzyme-Linked Immunosorbent Assay ; Hemagglutinins, Viral/analysis ; Humans ; Immunoglobulin A/analysis ; Immunoglobulin Allotypes/analysis ; Immunoglobulin G/analysis ; Immunoglobulin M/analysis ; Influenza A virus/immunology ; Influenza, Human/immunology ; Male ; Nose/immunology
Chemical Substances	Hemagglutinins, Viral ; Immunoglobulin A ; Immunoglobulin Allotypes ; Immunoglobulin G ; Immunoglobulin M
Language	English
Publishing date	1983-08
Publishing country	United States
Document type	Comparative Study ; Journal Article ; Research Support, U.S. Gov't, P.H.S.
ZDB-ID	218698-6
ISSN	1098-5522 ; 0019-9567
ISSN (online)	1098-5522
ISSN	0019-9567
DOI	10.1128/iai.41.2.540-545.1983
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Zs.A 684: Show issues

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Article: Differential identification of mouse granulocyte (CFU-g) and macrophage (CFU-m) precursors in plasma clots.

Iizuka, Y / Murphy, M J

International journal of cell cloning

1985 Volume 3, Issue 3, Page(s) 176–184

Abstract: ... culture were classified as granulocyte (CFU-g) or macrophage (CFU-m) precursors by peroxidase and naphthol ...

Abstract	Because benzidine and its derivatives have possible carcinogenic activity, a safe method is needed to demonstrate endogenous peroxidase activity. Colonies derived from mouse bone marrow cells in plasma clot culture were classified as granulocyte (CFU-g) or macrophage (CFU-m) precursors by peroxidase and naphthol AS acetate (NASA) esterase staining, respectively. Endogenous peroxidase activity was measured using benzidine or p-phenylenediazine-pyrocatechol (PPD-PC). The effectiveness of peroxidase staining with both reagents was evaluated under several conditions, and the enzyme property was confirmed by inactivation with a variety of inhibitors. The level of peroxidase activity did not differ significantly between PPD-PC and benzidine. Colony number and number of cultured cells were strongly correlated (P greater than 0.983). We conclude that PPD-PC safely demonstrates peroxidase activity in cultured cells and is as accurate, reliable, and efficient as benzidine.
MeSH term(s)	Animals ; Benzidines/metabolism ; Catechols/metabolism ; Granulocytes/enzymology ; Granulocytes/physiology ; Hematopoietic Stem Cells/classification ; Hematopoietic Stem Cells/enzymology ; Macrophages/enzymology ; Macrophages/physiology ; Male ; Mice ; Naphthol AS D Esterase/metabolism ; Peroxidases/metabolism ; Phenylenediamines/metabolism ; Plasma ; Staining and Labeling
Chemical Substances	Benzidines ; Catechols ; Phenylenediamines ; benzidine (2X02101HVF) ; Peroxidases (EC 1.11.1.-) ; Naphthol AS D Esterase (EC 3.1.-) ; catechol (LF3AJ089DQ) ; 4-phenylenediamine (U770QIT64J)
Language	English
Publishing date	1985-05
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't ; Research Support, U.S. Gov't, P.H.S.
ZDB-ID	605570-9
ISSN	0737-1454
ISSN	0737-1454
DOI	10.1002/stem.5530030306
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Zs.A 1894: Show issues

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Article: A quantitative assay for mouse granulocyte (CFU-g) and macrophage (CFU-m) precursors using plasma clots.

Iizuka, Y / Noguchi, K / Schuebel, K E / Miyake, T / Murphy, M J

The journal of histochemistry and cytochemistry : official journal of the Histochemistry Society

1985 Volume 33, Issue 7, Page(s) 617–623

Abstract: ... placental or L-cell-conditioned medium, 70 to 110 colonies were produced. Both pure granulocyte (CFU-g) and ... pure macrophage colonies (CFU-m) were observed, but approximately 5% of the total colony number was ...

Abstract	Cytochemical procedures were used to identify and quantitate granulocyte and macrophage precursors from mouse bone marrow cells in plasma clot cultures. Excellent clonal morphology and cellular enzyme activity were obtained when using plasma clots as the support matrix and buffered formalin acetone as the fixative. For cytochemical identification, naphthol AS acetate esterase staining was used for macrophages and peroxidase for granulocytes. These enzyme properties were confirmed by inactivation studies with a variety of inhibitors, group specific chemical modifications, and pinocytotic affinity for horseradish peroxidase. When mouse bone marrow cells (3 X 10(4) cells/dish) were cultured in plasma clots with human placental or L-cell-conditioned medium, 70 to 110 colonies were produced. Both pure granulocyte (CFU-g) and pure macrophage colonies (CFU-m) were observed, but approximately 5% of the total colony number was composed of mixed granulocyte/macrophage colonies (CFU-gm). The number of plated cells correlated strongly with the colony number (0.990 less than r less than 0.999).
MeSH term(s)	Animals ; Blood Coagulation ; Bone Marrow Cells ; Colony-Forming Units Assay ; Esterases/metabolism ; Granulocytes/cytology ; Granulocytes/enzymology ; Hematopoietic Stem Cells/analysis ; Histocytochemistry ; Macrophages/cytology ; Macrophages/enzymology ; Male ; Methods ; Mice ; Peroxidases/metabolism ; Pinocytosis ; Substrate Specificity
Chemical Substances	Peroxidases (EC 1.11.1.-) ; Esterases (EC 3.1.-)
Language	English
Publishing date	1985-07
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't ; Research Support, U.S. Gov't, P.H.S.
ZDB-ID	218208-7
ISSN	1551-5044 ; 0022-1554
ISSN (online)	1551-5044
ISSN	0022-1554
DOI	10.1177/33.7.4008915
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Uc I Zs.321: Show issues

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Article: Colony formation of granulocyte (CFU-g) and macrophage (CFU-m) precursors in serum- and albumin-free culture: effect of transferrin on clonal growth.

Iizuka, Y / Murphy, M J

Experimental cell biology

1986 Volume 54, Issue 5-6, Page(s) 275–280

Abstract: Clonal growth of mouse granulocyte and macrophage precursors were assayed in serum-free cultures without albumin. The number of granulocyte/macrophage colonies and clusters increased as transferrin (Trf) concentrations were increased in cultures ... ...

Abstract	Clonal growth of mouse granulocyte and macrophage precursors were assayed in serum-free cultures without albumin. The number of granulocyte/macrophage colonies and clusters increased as transferrin (Trf) concentrations were increased in cultures containing serum-free L-cell-conditioned medium (LCM). On the other hand, cultures with LCM but without Trf produced relatively fewer colonies and clusters. These results indicate that Trf is one of the factors promoting the clonal growth of granulocyte and macrophage precursors in vitro. Although the presence of linoleic acid, alpha-thioglycerol, and dextran in the culture medium increased the number of granulocyte/macrophage colonies and clusters, these factors were not essential. Serum-free culture of mouse granulocyte and macrophage precursors provides a very useful system with which the activity and function of biological regulators of hematopoietic progenitors may be studied.
MeSH term(s)	Animals ; Blood Physiological Phenomena ; Clone Cells ; Culture Media ; Dextrans/pharmacology ; Glycerol/analogs & derivatives ; Glycerol/pharmacology ; Granulocytes/drug effects ; Hematopoietic Stem Cells/cytology ; Hematopoietic Stem Cells/drug effects ; Linoleic Acid ; Linoleic Acids/pharmacology ; Macrophages/drug effects ; Male ; Mice ; Mice, Inbred Strains ; Serum Albumin/pharmacology ; Transferrin/pharmacology
Chemical Substances	Culture Media ; Dextrans ; Linoleic Acids ; Serum Albumin ; Transferrin ; Linoleic Acid (9KJL21T0QJ) ; thioglycerol (AAO1P0WSXJ) ; Glycerol (PDC6A3C0OX)
Language	English
Publishing date	1986
Publishing country	Switzerland
Document type	Journal Article ; Research Support, Non-U.S. Gov't ; Research Support, U.S. Gov't, P.H.S.
ZDB-ID	131147-5
ISSN	0304-3568
ISSN	0304-3568
DOI	10.1159/000163366
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Ud II Zs.101: Show issues

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Article: Detection of specific anti-leptospiral immunoglobulins M and G in human serum by solid-phase enzyme-linked immunosorbent assay.

Adler, B / Murphy, A M / Locarnini, S A / Faine, S

Journal of clinical microbiology

1980 Volume 11, Issue 5, Page(s) 452–457

Abstract: ... M (IgM) and IgG in the sera of patients infected with leptospiral serovars hardjo, pomona, or ...

Abstract	The enzyme-linked immunosorbent assay (ELISA) was used to detect leptospire-specific immunoglobulin M (IgM) and IgG in the sera of patients infected with leptospiral serovars hardjo, pomona, or copenhageni. All patients produced specific IgM and IgG detectable by ELISA. In contrast, only a few patients produced IgG agglutinins whereas all produced IgM agglutinins. The specificity and sensitivity of the test suggest that the ELISA anti-IgM technique is a suitable method for detecting leptospiral antibodies in human sera for diagnostic and epidemiological purposes.
MeSH term(s)	Agglutination Tests ; Antibodies, Bacterial/analysis ; Cross Reactions ; Enzyme-Linked Immunosorbent Assay ; Humans ; Immunoglobulin G/analysis ; Immunoglobulin M/analysis ; Leptospira/immunology ; Leptospirosis/diagnosis ; Leptospirosis/immunology ; Spectrophotometry
Chemical Substances	Antibodies, Bacterial ; Immunoglobulin G ; Immunoglobulin M
Language	English
Publishing date	1980-05
Publishing country	United States
Document type	Journal Article
ZDB-ID	390499-4
ISSN	1098-660X ; 0095-1137
ISSN (online)	1098-660X
ISSN	0095-1137
DOI	10.1128/jcm.11.5.452-457.1980
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Zs.A 1188: Show issues

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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: Handling injectable medications: mixing drugs.

Murphy, T / Stewart, P / Nestor, C C / Irwin, M G

Anaesthesia

2024 Volume 79, Issue 4, Page(s) 436–437

Language	English
Publishing date	2024-02-02
Publishing country	England
Document type	Letter
ZDB-ID	80033-8
ISSN	1365-2044 ; 0003-2409
ISSN (online)	1365-2044
ISSN	0003-2409
DOI	10.1111/anae.16240
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Zs.A 388: Show issues

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Article ; Online: Just the facts: whole bowel irrigation.

Murphy, Nancy G / Durr, Kevin M / Wolfe, Caitlin

CJEM

2023 Volume 25, Issue 10, Page(s) 796–798

Language	English
Publishing date	2023-09-22
Publishing country	England
Document type	Journal Article
ISSN	1481-8043
ISSN (online)	1481-8043
DOI	10.1007/s43678-023-00569-0
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Article ; Online: Behavioral Phenotypes and Comorbidity in 3q29 Deletion Syndrome: Results from the 3q29 Registry.

Pollak, Rebecca M / Mortillo, Michael / Murphy, Melissa M / Mulle, Jennifer G

Journal of autism and developmental disorders

2024

Abstract: 3q29 deletion syndrome (3q29del) is associated with a significantly increased risk for neurodevelopmental and neuropsychiatric disorders. However, the full spectrum of behavioral phenotypes associated with 3q29del is still evolving. Individuals with ... ...

Abstract	3q29 deletion syndrome (3q29del) is associated with a significantly increased risk for neurodevelopmental and neuropsychiatric disorders. However, the full spectrum of behavioral phenotypes associated with 3q29del is still evolving. Individuals with 3q29del (n = 96, 60.42% male) or their guardian completed the Achenbach Child or Adult Behavior Checklist (CBCL/ABCL) via the online 3q29 registry (3q29deletion.org). Typically developing controls (n = 57, 49.12% male) were ascertained as a comparison group. We analyzed mean performance on the CBCL/ABCL for individuals with 3q29del and controls across composite, DSM-keyed, and developmental scales; and the relationship between CBCL/ABCL performance and clinical and developmental phenotypes for individuals with 3q29del. Individuals with 3q29del showed significantly elevated behavioral and developmental impairment relative to controls across CBCL/ABCL domains. A substantial proportion of study participants with 3q29del scored in the Borderline or Clinical range for composite and DSM-keyed scales, indicating significant behavioral problems that may require clinical evaluation. We found that the preschool CBCL DSM-keyed autism spectrum problems scale is a potential screening tool for autism spectrum disorder (ASD) for individuals with 3q29del; CBCL/ABCL DSM-keyed scales were not accurate screeners for anxiety disorders or attention-deficit/hyperactivity disorder (ADHD) in our study sample. We identified a high degree of psychiatric comorbidity in individuals with 3q29del, with 60.42% (n = 58) of individuals with 3q29del scoring in the Borderline or Clinical range on two or more DSM-keyed CBCL/ABCL scales. Finally, we found that the degree of developmental delay in participants with 3q29del does not explain the increased behavioral problems observed on the CBCL/ABCL. The CBCL/ABCL can be used as screening tools in populations such as 3q29del, even in the presence of substantial psychiatric comorbidity. These results expand our understanding of the phenotypic spectrum of 3q29del and demonstrate an effective method for recruiting and phenotyping a large sample of individuals with a rare genetic disorder.
Language	English
Publishing date	2024-01-12
Publishing country	United States
Document type	Journal Article
ZDB-ID	391999-7
ISSN	1573-3432 ; 0162-3257
ISSN (online)	1573-3432
ISSN	0162-3257
DOI	10.1007/s10803-023-06218-w
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