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Article ; Online: Lymphovascular Invasion in Cutaneous Squamous Cell Carcinoma.

Ryan, Michael P / Winsett, Frank T / Armenta, Andrew M / Goodwin, Brandon P / Wagner, Richard F

Dermatologic surgery : official publication for American Society for Dermatologic Surgery [et al.

2024

Abstract: Background: Although there is a large body of literature regarding risk stratification and outcomes for perineural invasion (PNI) in cutaneous squamous cell carcinoma (cSCC), there is a relative paucity of studies exploring the role of lymphovascular ... ...

Abstract	Background: Although there is a large body of literature regarding risk stratification and outcomes for perineural invasion (PNI) in cutaneous squamous cell carcinoma (cSCC), there is a relative paucity of studies exploring the role of lymphovascular invasion (LVI) in cSCC and a lack of clear evidence-based guidelines for how to manage patients with these tumors. Objective: This article is intended to review the available literature regarding LVI in cSCC and formulate evidence-based recommendations for clinical management. Methods and materials: A literature review was conducted using PubMed to find relevant articles relating to outcomes and management of primary cSCC with LVI. Results: The available literature suggests that LVI is a major risk factor for poor outcomes and increased morbidity and mortality in cSCC. Conclusion: Lymphovascular invasion is a very high-risk feature that should place these tumors in the highest-risk category, and management of these tumors should be similar to that of squamous cell carcinoma with PNI.
Language	English
Publishing date	2024-04-10
Publishing country	United States
Document type	Journal Article
ZDB-ID	1227586-4
ISSN	1524-4725 ; 1076-0512
ISSN (online)	1524-4725
ISSN	1076-0512
DOI	10.1097/DSS.0000000000004187
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Article ; Online: Draft Genome Sequence from a Putative New Genus and Species in the Family

Wagner, Nicole Yasmin / Andersen, Dale T / Hahn, Aria S / McLaughlin, Ryan / Johnson, Sarah Stewart

Microbiology resource announcements

2022 Volume 11, Issue 5, Page(s) e0119221

Abstract: Here, we report the draft genome sequence for a new putative genus and species in the ... ...

Abstract	Here, we report the draft genome sequence for a new putative genus and species in the family
Language	English
Publishing date	2022-04-20
Publishing country	United States
Document type	Journal Article
ISSN	2576-098X
ISSN (online)	2576-098X
DOI	10.1128/mra.01192-21
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Article ; Online: Do You See What Eye See? Measurement, Correlates, and Functional Associations of Objective and Self-Reported Vision Impairment in Aging South Africans.

Farrell, Meagan T / Jia, Yusheng / Berkman, Lisa F / Wagner, Ryan G

Journal of aging and health

2021 Volume 33, Issue 10, Page(s) 803–816

Abstract: Objectives: ...

Abstract	Objectives:
MeSH term(s)	Aged ; Aging ; Cognition ; Educational Status ; Female ; Humans ; Self Report ; Vision Disorders/epidemiology ; Vision Tests
Language	English
Publishing date	2021-05-24
Publishing country	United States
Document type	Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
ZDB-ID	1045392-1
ISSN	1552-6887 ; 0898-2643
ISSN (online)	1552-6887
ISSN	0898-2643
DOI	10.1177/08982643211012839
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Zs.A 3012: Show issues

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Article ; Online: SETD2 loss in renal epithelial cells drives epithelial-to-mesenchymal transition in a TGF-β-independent manner.

Wang, Tianchu / Wagner, Ryan T / Hlady, Ryan A / Pan, Xiaoyu / Zhao, Xia / Kim, Sungho / Wang, Liguo / Lee, Jeong-Heon / Luo, Huijun / Castle, Erik P / Lake, Douglas F / Ho, Thai H / Robertson, Keith D

Molecular oncology

2023 Volume 18, Issue 1, Page(s) 44–61

Abstract: Histone-lysine N-methyltransferase SETD2 (SETD2), the sole histone methyltransferase that catalyzes trimethylation of lysine 36 on histone H3 (H3K36me3), is often mutated in clear cell renal cell carcinoma (ccRCC). SETD2 mutation and/or loss of H3K36me3 ... ...

Abstract	Histone-lysine N-methyltransferase SETD2 (SETD2), the sole histone methyltransferase that catalyzes trimethylation of lysine 36 on histone H3 (H3K36me3), is often mutated in clear cell renal cell carcinoma (ccRCC). SETD2 mutation and/or loss of H3K36me3 is linked to metastasis and poor outcome in ccRCC patients. Epithelial-to-mesenchymal transition (EMT) is a major pathway that drives invasion and metastasis in various cancer types. Here, using novel kidney epithelial cell lines isogenic for SETD2, we discovered that SETD2 inactivation drives EMT and promotes migration, invasion, and stemness in a transforming growth factor-beta-independent manner. This newly identified EMT program is triggered in part through secreted factors, including cytokines and growth factors, and through transcriptional reprogramming. RNA-seq and assay for transposase-accessible chromatin sequencing uncovered key transcription factors upregulated upon SETD2 loss, including SOX2, POU2F2 (OCT2), and PRRX1, that could individually drive EMT and stemness phenotypes in SETD2 wild-type (WT) cells. Public expression data from SETD2 WT/mutant ccRCC support the EMT transcriptional signatures derived from cell line models. In summary, our studies reveal that SETD2 is a key regulator of EMT phenotypes through cell-intrinsic and cell-extrinsic mechanisms that help explain the association between SETD2 loss and ccRCC metastasis.
MeSH term(s)	Humans ; Carcinoma, Renal Cell/metabolism ; Kidney Neoplasms/pathology ; Transforming Growth Factor beta/metabolism ; Histones/metabolism ; Epithelial Cells/metabolism ; Homeodomain Proteins/metabolism
Chemical Substances	Transforming Growth Factor beta ; Histones ; PRRX1 protein, human ; Homeodomain Proteins
Language	English
Publishing date	2023-07-17
Publishing country	United States
Document type	Journal Article
ZDB-ID	2415106-3
ISSN	1878-0261 ; 1574-7891
ISSN (online)	1878-0261
ISSN	1574-7891
DOI	10.1002/1878-0261.13487
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Zs.A 6637: Show issues

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Article ; Online: Current indications for abdominal-based flaps in hand and forearm reconstruction.

Wagner, Ryan D / Carr, Logan / Netscher, David T

Injury

2020 Volume 51, Issue 12, Page(s) 2916–2921

Abstract: Extensive soft tissue loss or injury of the hand and upper extremity is a challenging reconstructive problem traditionally treated with abdominal-based pedicled flaps. Options for coverage included the groin flap based on the superficial circumflex iliac ...

Abstract	Extensive soft tissue loss or injury of the hand and upper extremity is a challenging reconstructive problem traditionally treated with abdominal-based pedicled flaps. Options for coverage included the groin flap based on the superficial circumflex iliac artery, the Scarpa's fascia flap based on the superficial inferior epigastric artery, and the paraumbilical perforator flap from the deep inferior epigastric artery perforators. Despite the ability to provide consistent and pliable soft tissue coverage with ease of elevation, these flaps have several disadvantages including restriction of mobility, requirement for multiple procedures, bulkiness and patient discomfort. With the advent of microsurgery, pedicled regional flaps, and off-the-shelf skin substitutes, the applications for these flaps have narrowed. However several indications still remain. These include: patient and facility factors which deter microsurgery, the absence of recipient vessels after injury, prior surgical use of recipient vessels, the need to preserve major vessels for future reconstruction, and large multi-surface wounds requiring coverage. In this review we detail these indications and provide case examples for each.
MeSH term(s)	Forearm ; Hand ; Humans ; Microsurgery ; Perforator Flap ; Reconstructive Surgical Procedures ; Soft Tissue Injuries/surgery
Language	English
Publishing date	2020-02-21
Publishing country	Netherlands
Document type	Journal Article ; Review
ZDB-ID	218778-4
ISSN	1879-0267 ; 0020-1383
ISSN (online)	1879-0267
ISSN	0020-1383
DOI	10.1016/j.injury.2020.02.105
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Zs.A 778: 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: Extensive intratumor regional epigenetic heterogeneity in clear cell renal cell carcinoma targets kidney enhancers and is associated with poor outcome.

El Khoury, Louis Y / Pan, Xiaoyu / Hlady, Ryan A / Wagner, Ryan T / Shaikh, Shafiq / Wang, Liguo / Humphreys, Mitchell R / Castle, Erik P / Stanton, Melissa L / Ho, Thai H / Robertson, Keith D

Clinical epigenetics

2023 Volume 15, Issue 1, Page(s) 71

Abstract: Background: Clear cell renal cell cancer (ccRCC), the 8th leading cause of cancer-related death in the US, is challenging to treat due to high level intratumoral heterogeneity (ITH) and the paucity of druggable driver mutations. CcRCC is unusual for its ...

Abstract	Background: Clear cell renal cell cancer (ccRCC), the 8th leading cause of cancer-related death in the US, is challenging to treat due to high level intratumoral heterogeneity (ITH) and the paucity of druggable driver mutations. CcRCC is unusual for its high frequency of epigenetic regulator mutations, such as the SETD2 histone H3 lysine 36 trimethylase (H3K36me3), and low frequency of traditional cancer driver mutations. In this work, we examined epigenetic level ITH and defined its relationships with pathologic features, aspects of tumor biology, and SETD2 mutations. Results: A multi-region sampling approach coupled with EPIC DNA methylation arrays was conducted on a cohort of normal kidney and ccRCC. ITH was assessed using DNA methylation (5mC) and CNV-based entropy and Euclidian distances. We found elevated 5mC heterogeneity and entropy in ccRCC relative to normal kidney. Variable CpGs are highly enriched in enhancer regions. Using intra-class correlation coefficient analysis, we identified CpGs that segregate tumor regions according to clinical phenotypes related to tumor aggressiveness. SETD2 wild-type tumors overall possess greater 5mC and copy number ITH than SETD2 mutant tumor regions, suggesting SETD2 loss contributes to a distinct epigenome. Finally, coupling our regional data with TCGA, we identified a 5mC signature that links regions within a primary tumor with metastatic potential. Conclusion: Taken together, our results reveal marked levels of epigenetic ITH in ccRCC that are linked to clinically relevant tumor phenotypes and could translate into novel epigenetic biomarkers.
MeSH term(s)	Humans ; Carcinoma, Renal Cell/metabolism ; Kidney Neoplasms/pathology ; DNA Methylation ; Kidney/metabolism ; Epigenesis, Genetic ; Mutation
Language	English
Publishing date	2023-04-29
Publishing country	Germany
Document type	Journal Article ; Research Support, N.I.H., Extramural
ZDB-ID	2553921-8
ISSN	1868-7083 ; 1868-7075
ISSN (online)	1868-7083
ISSN	1868-7075
DOI	10.1186/s13148-023-01471-3
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Article ; Online: Mid-life employment trajectories and subsequent memory function and rate of decline in rural South Africa, 2000-22.

Yu, Xuexin / Kabudula, Chodziwadziwa W / Wagner, Ryan G / Bassil, Darina T / Farrell, Meagan T / Tollman, Stephen M / Kahn, Kathleen / Berkman, Lisa F / Rosenberg, Molly S / Kobayashi, Lindsay C

International journal of epidemiology

2024 Volume 53, Issue 2

Abstract: Aim: To investigate mid-life employment trajectories in relation to later-life memory function and rate of decline in rural South Africa.: Methods: Data from the Agincourt Health and Socio-Demographic Surveillance System were linked to the 'Health ... ...

Abstract	Aim: To investigate mid-life employment trajectories in relation to later-life memory function and rate of decline in rural South Africa. Methods: Data from the Agincourt Health and Socio-Demographic Surveillance System were linked to the 'Health and Ageing in Africa: A Longitudinal Study of an INDEPTH Community in South Africa' (HAALSI) in rural Agincourt, South Africa (N = 3133). Employment was assessed every 4 years over 2000-12 as being employed (0, 1, 2 and ≥3 time points), being employed in a higher-skill occupation (0, 1, 2 and ≥3 time points) and dynamic employment trajectories identified using sequence analysis. Latent memory z-scores were assessed over 2014-22. Mixed-effects linear regression models were fitted to examine the associations of interest. Results: Sustained mid-life employment from 2000-12 (β = 0.052, 95% CI: -0.028 to 0.132, 1 vs 0 time points; β = 0.163, 95% CI: 0.077 to 0.250, 2 vs 0 time points; β = 0.212, 95% CI: 0.128 to 0.296, ≥3 vs 0 time points) and greater time spent in a higher-skill occupation (β = 0.077, 95% CI: -0.020 to 0.175, 1 vs 0 time points; β = 0.241, 95% CI: 0.070 to 0.412, 2 vs 0 time points; β = 0.361, 95% CI: 0.201 to 0.520, ≥3 vs 0 time points) were associated with higher memory scores in 2014/15, but not subsequent rate of memory decline. Moving from a lower-skill to higher-skill occupation was associated with higher memory function, but a faster rate of decline over 2014-22. Conclusions: Sustained mid-life employment, particularly in higher-skill occupations, may contribute to later-life memory function in this post-Apartheid South African setting.
MeSH term(s)	Humans ; South Africa/epidemiology ; Longitudinal Studies ; Cognition ; Aging ; Employment ; Rural Population
Language	English
Publishing date	2024-02-16
Publishing country	England
Document type	Journal Article
ZDB-ID	187909-1
ISSN	1464-3685 ; 0300-5771
ISSN (online)	1464-3685
ISSN	0300-5771
DOI	10.1093/ije/dyae022
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Zs.A 893: Show issues

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Article: Artificial Intelligence in Neuroradiology: A Review of Current Topics and Competition Challenges.

Wagner, Daniel T / Tilmans, Luke / Peng, Kevin / Niedermeier, Marilyn / Rohl, Matt / Ryan, Sean / Yadav, Divya / Takacs, Noah / Garcia-Fraley, Krystle / Koso, Mensur / Dikici, Engin / Prevedello, Luciano M / Nguyen, Xuan V

Diagnostics (Basel, Switzerland)

2023 Volume 13, Issue 16

Abstract: There is an expanding body of literature that describes the application of deep learning and other machine learning and artificial intelligence methods with potential relevance to neuroradiology practice. In this article, we performed a literature review ...

Abstract	There is an expanding body of literature that describes the application of deep learning and other machine learning and artificial intelligence methods with potential relevance to neuroradiology practice. In this article, we performed a literature review to identify recent developments on the topics of artificial intelligence in neuroradiology, with particular emphasis on large datasets and large-scale algorithm assessments, such as those used in imaging AI competition challenges. Numerous applications relevant to ischemic stroke, intracranial hemorrhage, brain tumors, demyelinating disease, and neurodegenerative/neurocognitive disorders were discussed. The potential applications of these methods to spinal fractures, scoliosis grading, head and neck oncology, and vascular imaging were also reviewed. The AI applications examined perform a variety of tasks, including localization, segmentation, longitudinal monitoring, diagnostic classification, and prognostication. While research on this topic is ongoing, several applications have been cleared for clinical use and have the potential to augment the accuracy or efficiency of neuroradiologists.
Language	English
Publishing date	2023-08-14
Publishing country	Switzerland
Document type	Journal Article ; Review
ZDB-ID	2662336-5
ISSN	2075-4418
ISSN	2075-4418
DOI	10.3390/diagnostics13162670
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Article ; Online: The role of resilience in the development of depression, anxiety, and post-traumatic stress disorder after trauma in children and adolescents.

Srivastava, Arjun V / Brown, Ryan / Newport, D Jeffrey / Rousseau, Justin F / Wagner, Karen D / Guzick, Andrew / Devargas, Cecilia / Claassen, Cynthia / Ugalde, Irma T / Garrett, Amy / Gushanas, Kim / Liberzon, Israel / Cisler, Josh M / Nemeroff, Charles B

Psychiatry research

2024 Volume 334, Page(s) 115772

Abstract: This investigation, conducted within the Texas Childhood Trauma Research Network, investigated the prospective relationships between resiliency and emergent internalizing symptoms among trauma-exposed youth. The cohort encompassed 1262 youth, aged 8-20, ... ...

Abstract	This investigation, conducted within the Texas Childhood Trauma Research Network, investigated the prospective relationships between resiliency and emergent internalizing symptoms among trauma-exposed youth. The cohort encompassed 1262 youth, aged 8-20, from twelve health-related institutions across Texas, who completed assessments at baseline and one- and six-month follow-ups for resiliency, symptoms of depression, generalized anxiety, posttraumatic stress disorder (PTSD), and other demographic and clinical characteristics. At baseline, greater resilience was positively associated with older age, male (vs female) sex assigned at birth, and history of mental health treatment. Unadjusted for covariates, higher baseline resilience was associated with greater prospective depression and PTSD symptoms but not anxiety symptoms. Upon adjusting for demographic and clinical factors, higher baseline resilience was no longer associated with depression, PTSD, or anxiety symptoms. Our analyses demonstrate that the predictive value of resilience on psychopathology is relatively small compared to more readily observable clinical and demographic factors. These data suggest a relatively minor prospective role of resilience in protecting against internalizing symptoms among trauma-exposed youth and highlight the importance of controlling for relevant youth characteristics when investigating a protective effect of resilience on internalizing symptoms.
MeSH term(s)	Infant, Newborn ; Child ; Adolescent ; Female ; Male ; Humans ; Stress Disorders, Post-Traumatic ; Resilience, Psychological ; Depression/etiology ; Anxiety Disorders ; Anxiety/etiology
Language	English
Publishing date	2024-02-10
Publishing country	Ireland
Document type	Journal Article
ZDB-ID	445361-x
ISSN	1872-7123 ; 1872-7506 ; 0925-4927 ; 0165-1781
ISSN (online)	1872-7123 ; 1872-7506
ISSN	0925-4927 ; 0165-1781
DOI	10.1016/j.psychres.2024.115772
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Zs.A 1541: Show issues

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Article ; Online: Extensive intratumor regional epigenetic heterogeneity in clear cell renal cell carcinoma targets kidney enhancers and is associated with poor outcome

Louis Y. El Khoury / Xiaoyu Pan / Ryan A. Hlady / Ryan T. Wagner / Shafiq Shaikh / Liguo Wang / Mitchell R. Humphreys / Erik P. Castle / Melissa L. Stanton / Thai H. Ho / Keith D. Robertson

Clinical Epigenetics, Vol 15, Iss 1, Pp 1-

2023 Volume 20

Abstract: Abstract Background Clear cell renal cell cancer (ccRCC), the 8th leading cause of cancer-related death in the US, is challenging to treat due to high level intratumoral heterogeneity (ITH) and the paucity of druggable driver mutations. CcRCC is unusual ... ...

Abstract	Abstract Background Clear cell renal cell cancer (ccRCC), the 8th leading cause of cancer-related death in the US, is challenging to treat due to high level intratumoral heterogeneity (ITH) and the paucity of druggable driver mutations. CcRCC is unusual for its high frequency of epigenetic regulator mutations, such as the SETD2 histone H3 lysine 36 trimethylase (H3K36me3), and low frequency of traditional cancer driver mutations. In this work, we examined epigenetic level ITH and defined its relationships with pathologic features, aspects of tumor biology, and SETD2 mutations. Results A multi-region sampling approach coupled with EPIC DNA methylation arrays was conducted on a cohort of normal kidney and ccRCC. ITH was assessed using DNA methylation (5mC) and CNV-based entropy and Euclidian distances. We found elevated 5mC heterogeneity and entropy in ccRCC relative to normal kidney. Variable CpGs are highly enriched in enhancer regions. Using intra-class correlation coefficient analysis, we identified CpGs that segregate tumor regions according to clinical phenotypes related to tumor aggressiveness. SETD2 wild-type tumors overall possess greater 5mC and copy number ITH than SETD2 mutant tumor regions, suggesting SETD2 loss contributes to a distinct epigenome. Finally, coupling our regional data with TCGA, we identified a 5mC signature that links regions within a primary tumor with metastatic potential. Conclusion Taken together, our results reveal marked levels of epigenetic ITH in ccRCC that are linked to clinically relevant tumor phenotypes and could translate into novel epigenetic biomarkers.
Keywords	Clear cell renal cell cancer ; Intra-tumor heterogeneity ; DNA methylation ; 5mC ; Epigenomics ; CNV ; Medicine ; R ; Genetics ; QH426-470
Subject code	616
Language	English
Publishing date	2023-04-01T00:00:00Z
Publisher	BMC
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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