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Book: Cervical cancer

Keppler, Daniel / Lin, Athena W.

methods and protocols

(Methods in molecular biology ; 1249 ; Springer protocols)

2015

Author's details	ed. by Daniel Keppler ; Athena W. Lin
Series title	Methods in molecular biology ; 1249 Springer protocols
Collection
Language	English
Size	XIV, 413 S. : zahlr. Ill., graph. Darst.
Publisher	Humana Press
Publishing place	New York u.a.
Publishing country	United States
Document type	Book
Note	Includes bibliographical references and index
HBZ-ID	HT018488604
ISBN	978-1-4939-2012-9 ; 1-4939-2012-X ; 9781493920136 ; 1493920138
Database	Catalogue ZB MED Medicine, Health

In stock of ZB MED Cologne/Königswinter

Shelf mark	Loan status	Location
Zs A 7042 -1249-	verfügbar in Königswinter	Königswinter

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Article ; Online: A Systematic Review of the 2016 National Academy of Engineering Exemplary Ethics Programs: Revisions to a Coding Framework.

Hess, Justin L / Kerr, Alison J / Lin, Athena / Chung, Andrew

Science and engineering ethics

2023 Volume 29, Issue 6, Page(s) 36

Abstract: Engineering ethics is a required aspect of accredited ABET programs, but there is widespread variation in how ethics is taught, to what ends, and how those ends are assessed. This variation makes it challenging to identify practices for teaching ethics ... ...

Abstract	Engineering ethics is a required aspect of accredited ABET programs, but there is widespread variation in how ethics is taught, to what ends, and how those ends are assessed. This variation makes it challenging to identify practices for teaching ethics to engineers aligned with extant practices in the field. In this study, we revise a recent coding framework by reviewing exemplary engineering ethics programs recognized by the National Academy of Engineering in 2016, or what we refer to as "exemplars." We pursue two primary objectives: (1) To apply and revise a prior coding framework to codify ethics learning objectives, instructional strategies, and assessment strategies in engineering education; and (2) To use the revised coding framework to identify trends in learning objectives, instructional strategies, and assessment strategies of NAE exemplars. We employ systemic review procedures to update the coding framework using 24 of 25 exemplars as a data source. The updated framework includes four primary categories associated with learning objectives, instructional strategies, assessment data collection strategies, and assessment design characteristics. Results indicate that ethical sensitivity or awareness was present in every exemplar as a learning objective, often alongside ethical reasoning-based learning objectives and the formation of professional skills. Exemplars employed numerous instructional strategies in tandem, as we coded eight out of 18 instructional strategies among at least half of the exemplars. Assignments/homework and summative reflections were the most oft-used sources of assessment data. Due to our challenges in coding assessment approaches, we offer practical suggestions for assessing engineering ethics instruction which are based on many of our coding discussions. We hope that this coding framework, the results classifying exemplary features of the NAE programs, and our practical suggestions can guide future instructors as they design, classify, assess, and report their approaches to engineering ethics education.
MeSH term(s)	Engineering ; Ethics, Professional ; Learning
Language	English
Publishing date	2023-10-23
Publishing country	England
Document type	Systematic Review ; Journal Article
ZDB-ID	2136491-6
ISSN	1471-5546 ; 1353-3452
ISSN (online)	1471-5546
ISSN	1353-3452
DOI	10.1007/s11948-023-00456-y
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Book: Cervical cancer

Keppler, Daniel / Lin, Athena W

methods and protocols

(Methods in molecular biology ; 1249 ; Springer protocols)

2015

Abstract: Representing the most relevant procedures and technologies aiding the advance of the field of HPV-mediated carcinogenesis of the cervix and other anatomical regions of squamocolumnar transition, such as the anorectum, penis, and oropharynx, Cervical ... ...

Author's details	edited by Daniel Keppler, Athena W. Lin
Series title	Methods in molecular biology ; 1249 Springer protocols
Abstract	Representing the most relevant procedures and technologies aiding the advance of the field of HPV-mediated carcinogenesis of the cervix and other anatomical regions of squamocolumnar transition, such as the anorectum, penis, and oropharynx, Cervical Cancer: Methods and Protocols compiles a detailed collection of practical chapters. The first half of the book covers HPV types, pathogenesis of cervical cancer (CxCA), prevention, and novel potential drug targets, while the second half explores pathology, genomics, modeling of CxCA, and experimental therapeutic strategies. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. Authoritative and vital, Cervical Cancer: Methods and Protocols serves as a valuable resource to both bench scientists and clinicians who step into the realm of high-risk HPVs and CxCA for the first time or those who wish to learn novel approaches or expand their toolbox for the study of CxCA.
MeSH term(s)	Uterine Cervical Neoplasms ; Human Papillomavirus DNA Tests/methods
Language	English
Size	xiv, 413 pages :, illustrations ;, 26 cm.
Document type	Book
ISBN	9781493920129 ; 149392012X ; 9781493920136 ; 1493920138
Database	Catalogue of the US National Library of Medicine (NLM)

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Article: Analysis of motility patterns of Stentor during and after oral apparatus regeneration using cell tracking

Sheung, Janet Y. / Otsuka, Megan / Seifert, Gabriella / Lin, Athena / Marshall, Wallace F.

Journal of visualized experiments. 2021 Apr. 26, , no. 170

2021

Abstract: Stentor coeruleus is a well-known model organism for the study of unicellular regeneration. Transcriptomic analysis of individual cells revealed hundreds of genes—many not associated with the oral apparatus (OA)—that are differentially regulated in ... ...

Abstract	Stentor coeruleus is a well-known model organism for the study of unicellular regeneration. Transcriptomic analysis of individual cells revealed hundreds of genes—many not associated with the oral apparatus (OA)—that are differentially regulated in phases throughout the regeneration process. It was hypothesized that this systemic reorganization and mobilization of cellular resources towards growth of a new OA will lead to observable changes in movement and behavior corresponding in time to the phases of differential gene expression. However, the morphological complexity of S. coeruleus necessitated the development of an assay to capture the statistics and timescale. A custom script was used to track cells in short videos, and statistics were compiled over a large population (N ~100). Upon loss of the OA, S. coeruleus initially loses the ability for directed motion; then starting at ~4 h, it exhibits a significant drop in speed until ~8 h. This assay provides a useful tool for the screening of motility phenotypes and can be adapted for the investigation of other organisms.
Keywords	gene expression regulation ; statistics ; transcriptomics
Language	English
Dates of publication	2021-0426
Size	p. e62352.
Publishing place	Journal of Visualized Experiments
Document type	Article
ZDB-ID	2259946-0
ISSN	1940-087X
ISSN	1940-087X
DOI	10.3791/62352
Database	NAL-Catalogue (AGRICOLA)

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Article ; Online: Analysis of Motility Patterns of Stentor During and After Oral Apparatus Regeneration Using Cell Tracking.

Sheung, Janet Y / Otsuka, Megan / Seifert, Gabriella / Lin, Athena / Marshall, Wallace F

Journal of visualized experiments : JoVE

2021 , Issue 170

Abstract: Stentor coeruleus is a well-known model organism for the study of unicellular regeneration. Transcriptomic analysis of individual cells revealed hundreds of genes-many not associated with the oral apparatus (OA)-that are differentially regulated in ... ...

Abstract	Stentor coeruleus is a well-known model organism for the study of unicellular regeneration. Transcriptomic analysis of individual cells revealed hundreds of genes-many not associated with the oral apparatus (OA)-that are differentially regulated in phases throughout the regeneration process. It was hypothesized that this systemic reorganization and mobilization of cellular resources towards growth of a new OA will lead to observable changes in movement and behavior corresponding in time to the phases of differential gene expression. However, the morphological complexity of S. coeruleus necessitated the development of an assay to capture the statistics and timescale. A custom script was used to track cells in short videos, and statistics were compiled over a large population (N ~100). Upon loss of the OA, S. coeruleus initially loses the ability for directed motion; then starting at ~4 h, it exhibits a significant drop in speed until ~8 h. This assay provides a useful tool for the screening of motility phenotypes and can be adapted for the investigation of other organisms.
MeSH term(s)	Animals ; Cell Tracking/standards ; Regeneration/genetics
Language	English
Publishing date	2021-04-26
Publishing country	United States
Document type	Journal Article ; Research Support, N.I.H., Extramural ; Video-Audio Media
ZDB-ID	2259946-0
ISSN	1940-087X ; 1940-087X
ISSN (online)	1940-087X
ISSN	1940-087X
DOI	10.3791/62352
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article ; Online: Aurora kinase inhibitors delay regeneration in

Lin, Athena / Summers, Diana / Reiff, Sarah B / Tipton, Aaron R / Tang, Sindy K / Marshall, Wallace F

Matters select

2020 Volume 6, Issue 4

Abstract: The giant unicellular ciliate Stentor coeruleus can be cut into pieces and each piece will regenerate into a healthy, full-sized individual. The molecular mechanism for how Stentor regenerates is a complete mystery, however, the process of regeneration ... ...

Abstract	The giant unicellular ciliate Stentor coeruleus can be cut into pieces and each piece will regenerate into a healthy, full-sized individual. The molecular mechanism for how Stentor regenerates is a complete mystery, however, the process of regeneration shows striking similarities to the process of cell division. On a morphological level, the process of creating a second mouth in division or a new oral apparatus in regeneration have the same steps and occur in the same order. On the transcriptional level, genes encoding elements of the cell division and cell cycle regulatory machinery, including Aurora kinases, are differentially expressed during regeneration. This suggests that there may be some common regulatory mechanisms involved in both regeneration and cell division. If the cell cycle machinery really does play a role in regeneration, then inhibition of proteins that regulate the timing of cell division may also affect the timing of regeneration in Stentor. Here we show that two well-characterized Aurora kinase A+B inhibitors that affect the timing of regeneration. ZM447439 slows down regeneration by at least one hour. PF03814735 completely suppresses regeneration until the drug is removed. Here we provide the first direct experimental evidence that Stentor may harness the cell division machinery to regulate the sequential process of regeneration.
Language	English
Publishing date	2020-04-06
Publishing country	Switzerland
Document type	Journal Article
ISSN	2297-9239
ISSN (online)	2297-9239
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article ; Online: Methods for the Study of Regeneration in Stentor.

Lin, Athena / Makushok, Tatyana / Diaz, Ulises / Marshall, Wallace F

Journal of visualized experiments : JoVE

2018 , Issue 136

Abstract: Cells need to be able to regenerate their parts to recover from external perturbations. The unicellular ciliate Stentor coeruleus is an excellent model organism to study wound healing and subsequent cell regeneration. The Stentor genome became available ... ...

Abstract	Cells need to be able to regenerate their parts to recover from external perturbations. The unicellular ciliate Stentor coeruleus is an excellent model organism to study wound healing and subsequent cell regeneration. The Stentor genome became available recently, along with modern molecular biology methods, such as RNAi. These tools make it possible to study single-cell regeneration at the molecular level. The first section of the protocol covers establishing Stentor cell cultures from single cells or cell fragments, along with general guidelines for maintaining Stentor cultures. Culturing Stentor in large quantities allows for the use of valuable tools like biochemistry, sequencing, and mass spectrometry. Subsequent sections of the protocol cover different approaches to inducing regeneration in Stentor. Manually cutting cells with a glass needle allows studying the regeneration of large cell parts, while treating cells with either sucrose or urea allows studying the regeneration of specific structures located at the anterior end of the cell. A method for imaging individual regenerating cells is provided, along with a rubric for staging and analyzing the dynamics of regeneration. The entire process of regeneration is divided in three stages. By visualizing the dynamics of the progression of a population of cells through the stages, the heterogeneity in regeneration timing is demonstrated.
MeSH term(s)	Animals ; Ciliophora/growth & development ; Ciliophora/pathogenicity ; Histological Techniques/methods ; Regeneration/physiology
Language	English
Publishing date	2018-06-13
Publishing country	United States
Document type	Journal Article ; Research Support, N.I.H., Extramural ; Research Support, U.S. Gov't, Non-P.H.S. ; Video-Audio Media
ISSN	1940-087X
ISSN (online)	1940-087X
DOI	10.3791/57759
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article: Methods for the study of regeneration in Stentor

Lin, Athena / Makushok, Tatyana / Diaz, Ulises / Marshall, Wallace F

Journal of visualized experiments. 2018 June 13, , no. 136

2018

Abstract	Cells need to be able to regenerate their parts to recover from external perturbations. The unicellular ciliate Stentor coeruleus is an excellent model organism to study wound healing and subsequent cell regeneration. The Stentor genome became available recently, along with modern molecular biology methods, such as RNAi. These tools make it possible to study single-cell regeneration at the molecular level. The first section of the protocol covers establishing Stentor cell cultures from single cells or cell fragments, along with general guidelines for maintaining Stentor cultures. Culturing Stentor in large quantities allows for the use of valuable tools like biochemistry, sequencing, and mass spectrometry. Subsequent sections of the protocol cover different approaches to inducing regeneration in Stentor. Manually cutting cells with a glass needle allows studying the regeneration of large cell parts, while treating cells with either sucrose or urea allows studying the regeneration of specific structures located at the anterior end of the cell. A method for imaging individual regenerating cells is provided, along with a rubric for staging and analyzing the dynamics of regeneration. The entire process of regeneration is divided in three stages. By visualizing the dynamics of the progression of a population of cells through the stages, the heterogeneity in regeneration timing is demonstrated.
Keywords	RNA interference ; cell culture ; cutting ; genome ; glass ; guidelines ; image analysis ; mass spectrometry ; models ; molecular biology ; sucrose ; urea
Language	English
Dates of publication	2018-0613
Size	p. e57759.
Publishing place	Journal of Visualized Experiments
Document type	Article
ZDB-ID	2259946-0
ISSN	1940-087X
ISSN	1940-087X
DOI	10.3791/57759
Database	NAL-Catalogue (AGRICOLA)

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Article ; Online: Modular, cascade-like transcriptional program of regeneration in

Sood, Pranidhi / Lin, Athena / Yan, Connie / McGillivary, Rebecca / Diaz, Ulises / Makushok, Tatyana / Nadkarni, Ambika V / Tang, Sindy K Y / Marshall, Wallace F

eLife

2022 Volume 11

Abstract: The giant ciliate Stentor coeruleus is a classical model system for studying regeneration and morphogenesis in a single cell. The anterior of the cell is marked by an array of cilia, known as the oral apparatus, which can be induced to shed and ... ...

Abstract	The giant ciliate Stentor coeruleus is a classical model system for studying regeneration and morphogenesis in a single cell. The anterior of the cell is marked by an array of cilia, known as the oral apparatus, which can be induced to shed and regenerate in a series of reproducible morphological steps, previously shown to require transcription. If a cell is cut in half, each half regenerates an intact cell. We used RNA sequencing (RNAseq) to assay the dynamic changes in Stentor's transcriptome during regeneration, after both oral apparatus shedding and bisection, allowing us to identify distinct temporal waves of gene expression including kinases, RNA -binding proteins, centriole biogenesis factors, and orthologs of human ciliopathy genes. By comparing transcriptional profiles of different regeneration events, we identified distinct modules of gene expression corresponding to oral apparatus regeneration, posterior holdfast regeneration, and recovery after wounding. By measuring gene expression after blocking translation, we show that the sequential waves of gene expression involve a cascade mechanism in which later waves of expression are triggered by translation products of early-expressed genes. Among the early-expressed genes, we identified an E2F transcription factor and the RNA-binding protein Pumilio as potential regulators of regeneration based on the expression pattern of their predicted target genes. RNAi-mediated knockdown experiments indicate that Pumilio is required for regenerating oral structures of the correct size. E2F is involved in the completion of regeneration but is dispensable for earlier steps. This work allows us to classify regeneration genes into groups based on their potential role for regeneration in distinct cell regeneration paradigms, and provides insight into how a single cell can coordinate complex morphogenetic pathways to regenerate missing structures.
MeSH term(s)	Base Sequence ; Ciliophora/genetics ; Humans ; RNA Interference ; Sequence Analysis, RNA ; Transcriptome
Language	English
Publishing date	2022-08-04
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't ; Research Support, U.S. Gov't, Non-P.H.S. ; Research Support, N.I.H., Extramural
ZDB-ID	2687154-3
ISSN	2050-084X ; 2050-084X
ISSN (online)	2050-084X
ISSN	2050-084X
DOI	10.7554/eLife.80778
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Article ; Online: Determining protein polarization proteome-wide using physical dissection of individual Stentor coeruleus cells.

Lin, Athena / Piehowski, Paul D / Tsai, Chia-Feng / Makushok, Tatyana / Yi, Lian / Diaz, Ulises / Yan, Connie / Summers, Diana / Sood, Pranidhi / Smith, Richard D / Liu, Tao / Marshall, Wallace F

Current biology : CB

2022 Volume 32, Issue 10, Page(s) 2300–2308.e4

Abstract: Cellular components are non-randomly arranged with respect to the shape and polarity of the whole cell. ...

Abstract	Cellular components are non-randomly arranged with respect to the shape and polarity of the whole cell.
MeSH term(s)	Cell Polarity/genetics ; Ciliophora/genetics ; Morphogenesis/genetics ; Proteome/metabolism ; Proteomics ; Saccharomyces cerevisiae
Chemical Substances	Proteome
Language	English
Publishing date	2022-04-20
Publishing country	England
Document type	Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't ; Research Support, U.S. Gov't, Non-P.H.S.
ZDB-ID	1071731-6
ISSN	1879-0445 ; 0960-9822
ISSN (online)	1879-0445
ISSN	0960-9822
DOI	10.1016/j.cub.2022.03.078
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