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Article: USDA Nutrition Evidence Systematic Review's collaborative approach for conducting systematic reviews: Promoting diversity of expertise while managing potential conflicts of interest.

Obbagy, Julie / Raghavan, Ramkripa / Cole, Natasha Chong / English, Laural K / Higgins, Molly / Spahn, Joanne M / Bahnfleth, Charlotte L / Callahan, Emily / Fultz, Amanda / Kim, Julia H / Kingshipp, Brittany J / Nevins, Julie E H / Scinto-Madonich, Sara R / Webster, Allison / Stoody, Eve

Frontiers in nutrition

2023 Volume 10, Page(s) 1112868

Abstract: U.S. Department of Agriculture's (USDA) Nutrition Evidence Systematic Review (NESR) Branch develops food-and nutrition-related systematic reviews and other evidence synthesis products. NESR has established itself as a key resource for the Federal ... ...

Abstract	U.S. Department of Agriculture's (USDA) Nutrition Evidence Systematic Review (NESR) Branch develops food-and nutrition-related systematic reviews and other evidence synthesis products. NESR has established itself as a key resource for the Federal government when making evidence-informed decisions related to public health nutrition, such as the development of the
Language	English
Publishing date	2023-02-23
Publishing country	Switzerland
Document type	Journal Article ; Review
ZDB-ID	2776676-7
ISSN	2296-861X
ISSN	2296-861X
DOI	10.3389/fnut.2023.1112868
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Article ; Online: A role for Mediator complex subunit MED13L in Rb/E2F-induced growth arrest.

Angus, S P / Nevins, J R

Oncogene

2012 Volume 31, Issue 44, Page(s) 4709–4717

Abstract: The Rb/E2F pathway is deregulated in virtually all human tumors. It is clear that, in addition to Rb itself, essential cofactors required for transcriptional repression and silencing of E2F target genes are mutated or lost in cancer. To identify novel ... ...

Abstract	The Rb/E2F pathway is deregulated in virtually all human tumors. It is clear that, in addition to Rb itself, essential cofactors required for transcriptional repression and silencing of E2F target genes are mutated or lost in cancer. To identify novel cofactors required for Rb/E2F-mediated inhibition of cell proliferation, we performed a genome-wide short hairpin RNA screen. In addition to several known Rb cofactors, the screen identified components of the Mediator complex, a large multiprotein coactivator required for RNA polymerase II transcription. We show that the Mediator complex subunit MED13L is required for Rb/E2F control of cell growth, the complete repression of cell cycle target genes, and cell cycle inhibition.
MeSH term(s)	Animals ; Cell Cycle Checkpoints/genetics ; Cell Line ; Cellular Senescence/genetics ; E2F Transcription Factors/genetics ; E2F Transcription Factors/metabolism ; E2F5 Transcription Factor/genetics ; E2F5 Transcription Factor/metabolism ; Gene Expression Regulation ; Humans ; Mediator Complex/metabolism ; Mice ; Protein Binding ; Protein Interaction Mapping/methods ; RNA, Small Interfering/metabolism ; Retinoblastoma Protein/genetics ; Retinoblastoma Protein/metabolism
Chemical Substances	E2F Transcription Factors ; E2F5 Transcription Factor ; MED13L protein, human ; Mediator Complex ; RNA, Small Interfering ; Retinoblastoma Protein
Language	English
Publishing date	2012-01-16
Publishing country	England
Document type	Journal Article ; Research Support, N.I.H., Extramural
ZDB-ID	639046-8
ISSN	1476-5594 ; 0950-9232
ISSN (online)	1476-5594
ISSN	0950-9232
DOI	10.1038/onc.2011.622
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Article ; Online: Demystifying idiopathic interstitial pneumonia: time for more etiology-focused nomenclature in interstitial lung disease.

Todd, Nevins W / Atamas, Sergei P / Hines, Stella E / Luzina, Irina G / Shah, Nirav G / Britt, Edward J / Ghio, Andrew J / Galvin, Jeffrey R

Expert review of respiratory medicine

2022 Volume 16, Issue 2, Page(s) 235–245

Abstract: Introduction: A major focus of interstitial lung disease (ILD) has centered on disorders termed idiopathic interstitial pneumonias (IIPs) which include, among others, idiopathic pulmonary fibrosis, idiopathic nonspecific interstitial pneumonia, ... ...

Abstract	Introduction: A major focus of interstitial lung disease (ILD) has centered on disorders termed idiopathic interstitial pneumonias (IIPs) which include, among others, idiopathic pulmonary fibrosis, idiopathic nonspecific interstitial pneumonia, cryptogenic organizing pneumonia, and respiratory bronchiolitis-interstitial lung disease. Areas covered: We review the radiologic and histologic patterns for the nine disorders classified by multidisciplinary approach as IIP, and describe the remarkable amount of published epidemiologic, translational, and molecular studies demonstrating their associations with numerous yet definitive environmental exposures, occupational exposures, pulmonary diseases, systemic diseases, medication toxicities, and genetic variants. Expert opinion: In the 21st century, these disorders termed IIPs are rarely idiopathic, but rather are well-described radiologic and histologic patterns of lung injury that are associated with a wide array of diverse etiologies. Accordingly, the idiopathic nomenclature is misleading and confusing, and may also promote a lack of inquisitiveness, suggesting the end rather than the beginning of a thorough diagnostic process to identify ILD etiology and initiate patient-centered management. A shift toward more etiology-focused nomenclature will be beneficial to all, including patients hoping for better life quality and disease outcome, general medicine and pulmonary physicians furthering their ILD knowledge, and expert ILD clinicians and researchers who are advancing the ILD field.
MeSH term(s)	Humans ; Idiopathic Interstitial Pneumonias/diagnosis ; Idiopathic Interstitial Pneumonias/pathology ; Idiopathic Pulmonary Fibrosis ; Lung/pathology ; Lung Diseases, Interstitial/diagnosis ; Lung Diseases, Interstitial/etiology ; Lung Diseases, Interstitial/pathology ; Radiology
Language	English
Publishing date	2022-01-31
Publishing country	England
Document type	Journal Article ; Review ; Research Support, N.I.H., Extramural ; Research Support, U.S. Gov't, Non-P.H.S.
ZDB-ID	2479146-5
ISSN	1747-6356 ; 1747-6348
ISSN (online)	1747-6356
ISSN	1747-6348
DOI	10.1080/17476348.2022.2030710
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Article ; Online: Single-cell analyses define a continuum of cell state and composition changes in the malignant transformation of polyps to colorectal cancer.

Becker, Winston R / Nevins, Stephanie A / Chen, Derek C / Chiu, Roxanne / Horning, Aaron M / Guha, Tuhin K / Laquindanum, Rozelle / Mills, Meredith / Chaib, Hassan / Ladabaum, Uri / Longacre, Teri / Shen, Jeanne / Esplin, Edward D / Kundaje, Anshul / Ford, James M / Curtis, Christina / Snyder, Michael P / Greenleaf, William J

Nature genetics

2022 Volume 54, Issue 7, Page(s) 985–995

Abstract: To chart cell composition and cell state changes that occur during the transformation of healthy colon to precancerous adenomas to colorectal cancer (CRC), we generated single-cell chromatin accessibility profiles and single-cell transcriptomes from 1, ... ...

Abstract	To chart cell composition and cell state changes that occur during the transformation of healthy colon to precancerous adenomas to colorectal cancer (CRC), we generated single-cell chromatin accessibility profiles and single-cell transcriptomes from 1,000 to 10,000 cells per sample for 48 polyps, 27 normal tissues and 6 CRCs collected from patients with or without germline APC mutations. A large fraction of polyp and CRC cells exhibit a stem-like phenotype, and we define a continuum of epigenetic and transcriptional changes occurring in these stem-like cells as they progress from homeostasis to CRC. Advanced polyps contain increasing numbers of stem-like cells, regulatory T cells and a subtype of pre-cancer-associated fibroblasts. In the cancerous state, we observe T cell exhaustion, RUNX1-regulated cancer-associated fibroblasts and increasing accessibility associated with HNF4A motifs in epithelia. DNA methylation changes in sporadic CRC are strongly anti-correlated with accessibility changes along this continuum, further identifying regulatory markers for molecular staging of polyps.
MeSH term(s)	Adenoma/genetics ; Adenoma/pathology ; Cell Transformation, Neoplastic/genetics ; Colorectal Neoplasms/genetics ; Colorectal Neoplasms/pathology ; DNA Methylation/genetics ; Humans ; Single-Cell Analysis
Language	English
Publishing date	2022-06-20
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't ; Research Support, N.I.H., Extramural
ZDB-ID	1108734-1
ISSN	1546-1718 ; 1061-4036
ISSN (online)	1546-1718
ISSN	1061-4036
DOI	10.1038/s41588-022-01088-x
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Zs.A 3613: 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: Strengthening Research that Answers Nutrition Questions of Public Health Importance: Leveraging the Experience of the USDA Nutrition Evidence Systematic Review Team.

Obbagy, Julie / Raghavan, Ramkripa / English, Laural K / Spill, Maureen K / Bahnfleth, Charlotte L / Bates, Marlana / Callahan, Emily / Cole, Natasha Chong / Güngör, Darcy / Kim, Julia H / Kingshipp, Brittany J / Nevins, Julie E H / Scinto-Madonich, Sara R / Spahn, Joanne M / Venkatramanan, Sudha / Stoody, Eve

The Journal of nutrition

2022 Volume 152, Issue 8, Page(s) 1823–1830

Abstract: The Nutrition Evidence Systematic Review (NESR) team conducts nutrition- and public health-related systematic reviews and is within the USDA's Center for Nutrition Policy and Promotion. NESR has collaborated with scientific experts to conduct systematic ... ...

Abstract	The Nutrition Evidence Systematic Review (NESR) team conducts nutrition- and public health-related systematic reviews and is within the USDA's Center for Nutrition Policy and Promotion. NESR has collaborated with scientific experts to conduct systematic reviews on nutrition and public health topics for more than a decade and is uniquely positioned to share recommendations with the research community to strengthen research quality and impact, especially the evidence base that supports public health nutrition guidance, including future editions of the Dietary Guidelines for Americans. Leveraging the expertise of NESR and its systematic review process resulted in the following recommendations for the research community: a) use the strongest study design feasible with sufficient sample size(s); b) enroll study participants who reflect the diversity of the population of interest and report participant characteristics; c) use valid and reliable dietary assessment methods; d) describe the interventions or exposures of interest and use standard definitions to promote consistency; e) use valid and reliable health outcome measures; f) account for variables that may impact the relationship between nutrition-related interventions or exposures and health outcomes; g) carry out studies for a sufficient duration and include repeated measures, as appropriate; and h) report all relevant information to inform accurate interpretation and evaluation of study results. Implementing these recommendations can strengthen nutrition and public health evidence and increase its utility in future public health nutrition systematic reviews. However, implementation will require additional support from the entire research community, including scientific journals and funding agencies.
MeSH term(s)	Humans ; Diet ; Evidence-Based Medicine ; Nutrition Policy ; Public Health ; United States ; United States Department of Agriculture ; Systematic Reviews as Topic
Language	English
Publishing date	2022-06-15
Publishing country	United States
Document type	Journal Article ; Research Support, U.S. Gov't, Non-P.H.S.
ZDB-ID	218373-0
ISSN	1541-6100 ; 0022-3166
ISSN (online)	1541-6100
ISSN	0022-3166
DOI	10.1093/jn/nxac140
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Article ; Online: Endoscopic

Nevins, E J / Rao, R / Nicholson, J / Murphy, K D / Moore, A / Smart, H L / Stephens, N / Grocock, C / Kaul, A / Gunasekera, R T / Hartley, M N / Howes, N R

Annals of the Royal College of Surgeons of England

2020 Volume 102, Issue 9, Page(s) 693–696

Abstract: Introduction: The incidence of delayed gastric emptying (DGE) following oesophagogastrectomy with gastric conduit reconstruction is reported to be between 1.7% and 50%. This variation is due to differing practices of intraoperative pylorus drainage ... ...

Abstract	Introduction: The incidence of delayed gastric emptying (DGE) following oesophagogastrectomy with gastric conduit reconstruction is reported to be between 1.7% and 50%. This variation is due to differing practices of intraoperative pylorus drainage procedures, which increase the risk of postoperative biliary reflux and dumping syndrome, resulting in significant morbidity. The aim of our study was to establish rates of DGE in people undergoing oesophagogastrectomy without routine intraoperative drainage procedures, and to evaluate outcomes of postoperative endoscopically administered Methods: All patients undergoing oesophagogastrectomy between 1 January 2016 and 31 March 2018 at our unit were included. No intraoperative pyloric drainage procedures were performed, and DGE resistant to systemic pharmacotherapy was managed with EBP. Results: Ninety-seven patients were included. Postoperatively, 29 patients (30%) were diagnosed with DGE resistant to pharmacotherapy. Of these, 16 (16.5%) were diagnosed within 30 days of surgery. The median pre-procedure nasogastric tube aspirate was 780ml; following EBP, this fell to 125ml ( Conclusions: This is the largest series of patients without routine intraoperative drainage procedures. Only 30% of patients developed DGE resistant to pharmacotherapy, which was managed safely with EBP in the postoperative period, thus minimising the risk of biliary reflux in people who would otherwise be at risk following prophylactic pylorus drainage procedures.
MeSH term(s)	Botulinum Toxins, Type A/administration & dosage ; Botulinum Toxins, Type A/therapeutic use ; Esophageal Neoplasms/surgery ; Esophagectomy/adverse effects ; Esophagectomy/methods ; Female ; Gastrectomy/adverse effects ; Gastrectomy/methods ; Gastroparesis/drug therapy ; Gastroparesis/etiology ; Gastroscopy/methods ; Humans ; Male ; Pylorus/drug effects ; Pylorus/physiopathology ; Stomach Neoplasms/surgery
Chemical Substances	Botulinum Toxins, Type A (EC 3.4.24.69)
Language	English
Publishing date	2020-06-15
Publishing country	England
Document type	Journal Article
ZDB-ID	80044-2
ISSN	1478-7083 ; 0035-8843
ISSN (online)	1478-7083
ISSN	0035-8843
DOI	10.1308/rcsann.2020.0136
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article: The Rb/E2F pathway and cancer.

Nevins, J R

Human molecular genetics

2001 Volume 10, Issue 7, Page(s) 699–703

Abstract: Over the past decade, studies focusing on the mechanisms controlling cellular proliferation have converged with equally intensive efforts directed at the analysis of oncogenic pathways associated with human cancer. These convergent studies have revealed ... ...

Abstract	Over the past decade, studies focusing on the mechanisms controlling cellular proliferation have converged with equally intensive efforts directed at the analysis of oncogenic pathways associated with human cancer. These convergent studies have revealed the central role played by the pathway that controls the activity of the retinoblastoma tumor suppressor protein (Rb), which in turn regulates the E2F transcription factor. In particular, it is now clear that the Rb/E2F pathway is critical in regulating the initiation of DNA replication. It is also clear that the control of the pathway is disrupted in virtually all human cancers. Questions remain, however, as to the specific role played by individual activities within the pathway in the control of cell growth and their participation in the development of cancer.
MeSH term(s)	Animals ; Carrier Proteins ; Cell Cycle Proteins ; Cell Division ; Cell Lineage ; DNA Replication ; DNA-Binding Proteins ; E2F Transcription Factors ; Humans ; Models, Biological ; Neoplasms/genetics ; Neoplasms/metabolism ; Retinoblastoma Protein/physiology ; Retinoblastoma-Binding Protein 1 ; Transcription Factor DP1 ; Transcription Factors/physiology
Chemical Substances	Carrier Proteins ; Cell Cycle Proteins ; DNA-Binding Proteins ; E2F Transcription Factors ; Retinoblastoma Protein ; Retinoblastoma-Binding Protein 1 ; Transcription Factor DP1 ; Transcription Factors
Language	English
Publishing date	2001-04
Publishing country	England
Document type	Journal Article ; Review
ZDB-ID	1108742-0
ISSN	1460-2083 ; 0964-6906
ISSN (online)	1460-2083
ISSN	0964-6906
DOI	10.1093/hmg/10.7.699
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Article ; Online: Comparative genomics of the genus

Hillman, Ethan T / Kozik, Ariangela J / Hooker, Casey A / Burnett, John L / Heo, Yoojung / Kiesel, Violet A / Nevins, Clayton J / Oshiro, Jordan M K I / Robins, Melissa M / Thakkar, Riya D / Wu, Sophie Tongyu / Lindemann, Stephen R

Microbial genomics

2020 Volume 6, Issue 7

Abstract: ... ...

Abstract	Roseburia
MeSH term(s)	Amino Acids/biosynthesis ; Bacterial Proteins/genetics ; Biosynthetic Pathways ; Clostridiales/classification ; Clostridiales/genetics ; Clostridiales/metabolism ; Energy Metabolism ; Gastrointestinal Microbiome ; Genome, Bacterial ; Genomics/methods ; Humans ; Phylogeny ; Species Specificity ; Vitamin B Complex/biosynthesis
Chemical Substances	Amino Acids ; Bacterial Proteins ; Vitamin B Complex (12001-76-2)
Language	English
Publishing date	2020-06-25
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2835258-0
ISSN	2057-5858 ; 2057-5858
ISSN (online)	2057-5858
ISSN	2057-5858
DOI	10.1099/mgen.0.000399
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Article ; Online: Organization of the human intestine at single-cell resolution.

Hickey, John W / Becker, Winston R / Nevins, Stephanie A / Horning, Aaron / Perez, Almudena Espin / Zhu, Chenchen / Zhu, Bokai / Wei, Bei / Chiu, Roxanne / Chen, Derek C / Cotter, Daniel L / Esplin, Edward D / Weimer, Annika K / Caraccio, Chiara / Venkataraaman, Vishal / Schürch, Christian M / Black, Sarah / Brbić, Maria / Cao, Kaidi /

Chen, Shuxiao / Zhang, Weiruo / Monte, Emma / Zhang, Nancy R / Ma, Zongming / Leskovec, Jure / Zhang, Zhengyan / Lin, Shin / Longacre, Teri / Plevritis, Sylvia K / Lin, Yiing / Nolan, Garry P / Greenleaf, William J / Snyder, Michael

Nature

2023 Volume 619, Issue 7970, Page(s) 572–584

Abstract: The intestine is a complex organ that promotes digestion, extracts nutrients, participates in immune surveillance, maintains critical symbiotic relationships with microbiota and affects overall ... ...

Abstract	The intestine is a complex organ that promotes digestion, extracts nutrients, participates in immune surveillance, maintains critical symbiotic relationships with microbiota and affects overall health
MeSH term(s)	Humans ; Cell Differentiation/genetics ; Chromatin/genetics ; Epithelial Cells/cytology ; Epithelial Cells/metabolism ; Gene Expression Regulation ; Intestinal Mucosa/cytology ; Intestines/cytology ; Intestines/immunology ; Single-Cell Analysis ; Single-Cell Gene Expression Analysis
Chemical Substances	Chromatin
Language	English
Publishing date	2023-07-19
Publishing country	England
Document type	Journal Article
ZDB-ID	120714-3
ISSN	1476-4687 ; 0028-0836
ISSN (online)	1476-4687
ISSN	0028-0836
DOI	10.1038/s41586-023-05915-x
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Zs.A 26: Show issues			Location: Je nach Verfügbarkeit (siehe Angabe bei Bestand) bis Jg. 1994: Bestellungen von Artikeln über das Online-Bestellformular Jg. 1995 - 2021: Lesesall (1.OG) ab Jg. 2022: Lesesaal (EG)
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Article ; Online: Maternal choline supplementation during the third trimester of pregnancy improves infant information processing speed: a randomized, double-blind, controlled feeding study.

Caudill, Marie A / Strupp, Barbara J / Muscalu, Laura / Nevins, Julie E H / Canfield, Richard L

FASEB journal : official publication of the Federation of American Societies for Experimental Biology

2018 Volume 32, Issue 4, Page(s) 2172–2180

Abstract: ... A., Strupp, B. J., Muscalu, L., Nevins, J. E. H., Canfield, R. L. Maternal choline supplementation during ...

Abstract	Rodent studies demonstrate that supplementing the maternal diet with choline during pregnancy produces life-long cognitive benefits for the offspring. In contrast, the two experimental studies examining cognitive effects of maternal choline supplementation in humans produced inconsistent results, perhaps because of poor participant adherence and/or uncontrolled variation in intake of choline or other nutrients. We examined the effects of maternal choline supplementation during pregnancy on infant cognition, with intake of choline and other nutrients tightly controlled. Women entering their third trimester were randomized to consume, until delivery, either 480 mg choline/d ( n = 13) or 930 mg choline/d ( n = 13). Infant information processing speed and visuospatial memory were tested at 4, 7, 10, and 13 mo of age ( n = 24). Mean reaction time averaged across the four ages was significantly faster for infants born to mothers in the 930 ( vs. 480) mg choline/d group. This result indicates that maternal consumption of approximately twice the recommended amount of choline during the last trimester improves infant information processing speed. Furthermore, for the 480-mg choline/d group, there was a significant linear effect of exposure duration (infants exposed longer showed faster reaction times), suggesting that even modest increases in maternal choline intake during pregnancy may produce cognitive benefits for offspring.-Caudill, M. A., Strupp, B. J., Muscalu, L., Nevins, J. E. H., Canfield, R. L. Maternal choline supplementation during the third trimester of pregnancy improves infant information processing speed: a randomized, double-blind, controlled feeding study.
MeSH term(s)	Adult ; Child Development/drug effects ; Choline/administration & dosage ; Choline/pharmacology ; Dietary Supplements ; Double-Blind Method ; Female ; Humans ; Infant, Newborn ; Male ; Mental Processes/drug effects ; Pregnancy ; Pregnancy Trimester, Third ; Visual Perception
Chemical Substances	Choline (N91BDP6H0X)
Language	English
Publishing date	2018-01-05
Publishing country	United States
Document type	Journal Article ; Randomized Controlled Trial ; Research Support, Non-U.S. Gov't ; Research Support, U.S. Gov't, Non-P.H.S.
ZDB-ID	639186-2
ISSN	1530-6860 ; 0892-6638
ISSN (online)	1530-6860
ISSN	0892-6638
DOI	10.1096/fj.201700692RR
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