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Article ; Online: Measurement of phosphoinositide 3-kinase products in cultured Mammalian cells by HPLC.

Cooke, Frank T

Methods in molecular biology (Clifton, N.J.)

2010 Volume 645, Page(s) 179–202

Abstract: The phosphoinositide 3-kinase (PI3K) family catalyses the addition of a phosphate group to the D-3 position of polyphosphoinositides (PPIn). Since the discovery in the late 80s that phosphatidylinositol is phosphorylated in the D-3 position in eukaryotic ...

Abstract	The phosphoinositide 3-kinase (PI3K) family catalyses the addition of a phosphate group to the D-3 position of polyphosphoinositides (PPIn). Since the discovery in the late 80s that phosphatidylinositol is phosphorylated in the D-3 position in eukaryotic cells, there has been an explosion of interest in these PPIn. Although the four D-3 PPIn (phosphatidylinositol 3-phophate (PtdIns3P), PtdIns(3,4)P(2), PtdIns(3,5)P(2), and PtdIns(3,4,5)P(3)) represent only a small proportion of PPIn, production of D-3 PPIn is required for an ever-increasing number of processes. Measurement of the PPIn levels in intact cells cultured cells has been vital to our understanding of the metabolism and function of these important signalling molecules; methods are described herein that allow measurement of PPIn levels in cultured cells, with emphasis on the 3-OH PPIn.
MeSH term(s)	Animals ; Cell Culture Techniques ; Chromatography, High Pressure Liquid/methods ; Isotope Labeling/methods ; Phosphatidylinositol 3-Kinases/metabolism ; Phosphatidylinositols/chemistry ; Phosphatidylinositols/isolation & purification ; Phosphatidylinositols/metabolism
Chemical Substances	Phosphatidylinositols ; Phosphatidylinositol 3-Kinases (EC 2.7.1.-)
Language	English
Publishing date	2010-07-20
Publishing country	United States
Document type	Journal Article
ISSN	1940-6029
ISSN (online)	1940-6029
DOI	10.1007/978-1-60327-175-2_12
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Article: Measurement of polyphosphoinositides in cultured mammalian cells.

Cooke, Frank T

Methods in molecular biology (Clifton, N.J.)

2009 Volume 462, Page(s) 43–58

Abstract: The seven phosphorylated derivatives of phosphatidylinositol (PtdIns), often collectively referred to as polyphosphoinositides (PPIn), are a minor component of eukaryotic cell membranes. Nevertheless, their synthesis is needed for an ever-increasing ... ...

Abstract	The seven phosphorylated derivatives of phosphatidylinositol (PtdIns), often collectively referred to as polyphosphoinositides (PPIn), are a minor component of eukaryotic cell membranes. Nevertheless, their synthesis is needed for an ever-increasing spectrum of cellular processes, including regulation of the actin cytoskeleton, chemotaxis, membrane trafficking, glucose uptake, and organelle acidification. PPIn metabolism is regulated dynamically by a network of kinases and phosphatases. Furthermore, synthesis of PPIn can be provoked by external stimuli; for example, the second messenger phosphatidylinositol 3,4,5-trisphosphate rapidly and transiently accumulates in cells challenged with agonists such as PDGF that activate receptor tyrosine kinases. The measurement of PPIn levels in in vivo cultured cells has been vital to our understanding of the metabolism and function of these important signaling molecules; methods are described herein that allow measurement of PPIn levels in culture cells in vivo.
MeSH term(s)	Acylation ; Animals ; Cell Adhesion ; Cells, Cultured ; Chromatography, High Pressure Liquid ; Isotope Labeling ; Mammals ; Methylamines/chemistry ; Phosphatidylinositol Phosphates/analysis ; Phosphatidylinositol Phosphates/chemistry ; Phosphatidylinositol Phosphates/isolation & purification ; Phosphorus Isotopes/chemistry ; Polyphosphates/chemistry
Chemical Substances	Methylamines ; Phosphatidylinositol Phosphates ; Phosphorus Isotopes ; Polyphosphates ; methylamine (BSF23SJ79E) ; triphosphoric acid (NU43IAG5BC)
Language	English
Publishing date	2009-01-21
Publishing country	United States
Document type	Journal Article
ISSN	1064-3745
ISSN	1064-3745
DOI	10.1007/978-1-60327-115-8_3
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Article ; Online: Evaluating Competence by Design as a Large System Change Initiative: Readiness, Fidelity, and Outcomes.

Hall, Andrew K / Oswald, Anna / Frank, Jason R / Dalseg, Tim / Cheung, Warren J / Cooke, Lara / Gorman, Lisa / Brzezina, Stacey / Selvaratnam, Sinthiya / Wagner, Natalie / Hamstra, Stanley J / Van Melle, Elaine

Perspectives on medical education

2024 Volume 13, Issue 1, Page(s) 95–107

Abstract: Program evaluation is an essential, but often neglected, activity in any transformational educational change. Competence by Design was a large-scale change initiative to implement a competency-based time-variable educational system in Canadian ... ...

Abstract	Program evaluation is an essential, but often neglected, activity in any transformational educational change. Competence by Design was a large-scale change initiative to implement a competency-based time-variable educational system in Canadian postgraduate medical education. A program evaluation strategy was an integral part of the build and implementation plan for CBD from the beginning, providing insights into implementation progress, challenges, unexpected outcomes, and impact. The Competence by Design program evaluation strategy was built upon a logic model and three pillars of evaluation: readiness to implement, fidelity and integrity of implementation, and outcomes of implementation. The program evaluation strategy harvested from both internally driven studies and those performed by partners and invested others. A dashboard for the program evaluation strategy was created to transparently display a real-time view of Competence by Design implementation and facilitate continuous adaptation and improvement. The findings of the program evaluation for Competence by Design drove changes to all aspects of the Competence by Design implementation, aided engagement of partners, supported change management, and deepened our understanding of the journey required for transformational educational change in a complex national postgraduate medical education system. The program evaluation strategy for Competence by Design provides a framework for program evaluation for any large-scale change in health professions education.
MeSH term(s)	Humans ; Canada ; Program Evaluation ; Competency-Based Education ; Education, Medical ; Curriculum
Language	English
Publishing date	2024-02-06
Publishing country	Netherlands
Document type	Journal Article
ZDB-ID	2670231-9
ISSN	2212-277X ; 2212-277X
ISSN (online)	2212-277X
ISSN	2212-277X
DOI	10.5334/pme.962
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Article: Phosphoinositides: older than we first thought?

Cooke, Frank T

Current biology : CB

2004 Volume 14, Issue 18, Page(s) R762–4

Abstract: Despite nearly 50 years of study, it is good to see that phosphoinositides are still capable of springing the odd surprise. Signaling by the second messenger phosphatidylinositol 3,4,5-trisphosphate (PtdIns(3,4,5)P(3)) was thought to be absent in yeast, ... ...

Abstract	Despite nearly 50 years of study, it is good to see that phosphoinositides are still capable of springing the odd surprise. Signaling by the second messenger phosphatidylinositol 3,4,5-trisphosphate (PtdIns(3,4,5)P(3)) was thought to be absent in yeast, but a recent paper now describes the presence of PtdIns(3,4,5)P(3) in Schizosaccharomyces pombe.
MeSH term(s)	Evolution, Molecular ; Models, Biological ; Phosphatidylinositol Phosphates/metabolism ; Schizosaccharomyces/metabolism ; Schizosaccharomyces/physiology ; Second Messenger Systems ; Signal Transduction ; Species Specificity
Chemical Substances	Phosphatidylinositol Phosphates ; phosphatidylinositol 3,4,5-triphosphate
Language	English
Publishing date	2004-09-21
Publishing country	England
Document type	Journal Article ; Review
ZDB-ID	1071731-6
ISSN	1879-0445 ; 0960-9822
ISSN (online)	1879-0445
ISSN	0960-9822
DOI	10.1016/j.cub.2004.09.015
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Article: Phosphatidylinositol 3,5-bisphosphate: metabolism and function.

Cooke, Frank T

Archives of biochemistry and biophysics

2002 Volume 407, Issue 2, Page(s) 143–151

Abstract: Phosphatidylinositol 3,5-bisphosphate (PtdIns(3,5)P(2)) is the most recently discovered PtdInsP(2) isomer. It is likely that PtdIns(3,5)P(2) is ubiquitous to eukaryotes, and that it performs a number of important cellular functions, including vacuolar ... ...

Abstract	Phosphatidylinositol 3,5-bisphosphate (PtdIns(3,5)P(2)) is the most recently discovered PtdInsP(2) isomer. It is likely that PtdIns(3,5)P(2) is ubiquitous to eukaryotes, and that it performs a number of important cellular functions, including vacuolar homeostasis, retrograde trafficking from the vacuole, and protein sorting at the multivesicular body. This review describes the metabolism of PtdIns(3,5)P(2) and discusses the potential functions for this lipid.
MeSH term(s)	Animals ; Models, Chemical ; Phenotype ; Phosphatidylinositol Phosphates/metabolism ; Phosphatidylinositol Phosphates/physiology ; Phosphotransferases (Alcohol Group Acceptor)/chemistry ; Phosphotransferases (Alcohol Group Acceptor)/physiology ; Protein Structure, Tertiary ; Saccharomyces cerevisiae Proteins
Chemical Substances	Phosphatidylinositol Phosphates ; Saccharomyces cerevisiae Proteins ; phosphatidylinositol 3,5-diphosphate ; FAB1 protein, S cerevisiae (EC 2.7.1.-) ; Phosphotransferases (Alcohol Group Acceptor) (EC 2.7.1.-)
Language	English
Publishing date	2002-08-23
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't ; Review
ZDB-ID	523-x
ISSN	1096-0384 ; 0003-9861
ISSN (online)	1096-0384
ISSN	0003-9861
DOI	10.1016/s0003-9861(02)00487-3
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Article ; Online: Reconfigurable halide perovskite nanocrystal memristors for neuromorphic computing.

John, Rohit Abraham / Demirağ, Yiğit / Shynkarenko, Yevhen / Berezovska, Yuliia / Ohannessian, Natacha / Payvand, Melika / Zeng, Peng / Bodnarchuk, Maryna I / Krumeich, Frank / Kara, Gökhan / Shorubalko, Ivan / Nair, Manu V / Cooke, Graham A / Lippert, Thomas / Indiveri, Giacomo / Kovalenko, Maksym V

Nature communications

2022 Volume 13, Issue 1, Page(s) 2074

Abstract: Many in-memory computing frameworks demand electronic devices with specific switching characteristics to achieve the desired level of computational complexity. Existing memristive devices cannot be reconfigured to meet the diverse volatile and non- ... ...

Abstract	Many in-memory computing frameworks demand electronic devices with specific switching characteristics to achieve the desired level of computational complexity. Existing memristive devices cannot be reconfigured to meet the diverse volatile and non-volatile switching requirements, and hence rely on tailored material designs specific to the targeted application, limiting their universality. "Reconfigurable memristors" that combine both ionic diffusive and drift mechanisms could address these limitations, but they remain elusive. Here we present a reconfigurable halide perovskite nanocrystal memristor that achieves on-demand switching between diffusive/volatile and drift/non-volatile modes by controllable electrochemical reactions. Judicious selection of the perovskite nanocrystals and organic capping ligands enable state-of-the-art endurance performances in both modes - volatile (2 × 10
Language	English
Publishing date	2022-04-19
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/s41467-022-29727-1
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Article ; Online: Publisher Correction: A very luminous jet from the disruption of a star by a massive black hole.

Andreoni, Igor / Coughlin, Michael W / Perley, Daniel A / Yao, Yuhan / Lu, Wenbin / Cenko, S Bradley / Kumar, Harsh / Anand, Shreya / Ho, Anna Y Q / Kasliwal, Mansi M / de Ugarte Postigo, Antonio / Sagués-Carracedo, Ana / Schulze, Steve / Kann, D Alexander / Kulkarni, S R / Sollerman, Jesper / Tanvir, Nial / Rest, Armin / Izzo, Luca /

Somalwar, Jean J / Kaplan, David L / Ahumada, Tomás / Anupama, G C / Auchettl, Katie / Barway, Sudhanshu / Bellm, Eric C / Bhalerao, Varun / Bloom, Joshua S / Bremer, Michael / Bulla, Mattia / Burns, Eric / Campana, Sergio / Chandra, Poonam / Charalampopoulos, Panos / Cooke, Jeff / D'Elia, Valerio / Das, Kaustav Kashyap / Dobie, Dougal / Fernández, José Feliciano Agüí / Freeburn, James / Fremling, Cristoffer / Gezari, Suvi / Goode, Simon / Graham, Matthew J / Hammerstein, Erica / Karambelkar, Viraj R / Kilpatrick, Charles D / Kool, Erik C / Krips, Melanie / Laher, Russ R / Leloudas, Giorgos / Levan, Andrew / Lundquist, Michael J / Mahabal, Ashish A / Medford, Michael S / Miller, M Coleman / Möller, Anais / Mooley, Kunal P / Nayana, A J / Nir, Guy / Pang, Peter T H / Paraskeva, Emmy / Perley, Richard A / Petitpas, Glen / Pursiainen, Miika / Ravi, Vikram / Ridden-Harper, Ryan / Riddle, Reed / Rigault, Mickael / Rodriguez, Antonio C / Rusholme, Ben / Sharma, Yashvi / Smith, I A / Stein, Robert D / Thöne, Christina / Tohuvavohu, Aaron / Valdes, Frank / van Roestel, Jan / Vergani, Susanna D / Wang, Qinan / Zhang, Jielai

Nature

2023 Volume 613, Issue 7945, Page(s) E6

Language	English
Publishing date	2023-01-09
Publishing country	England
Document type	Published Erratum
ZDB-ID	120714-3
ISSN	1476-4687 ; 0028-0836
ISSN (online)	1476-4687
ISSN	0028-0836
DOI	10.1038/s41586-023-05699-0
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Article ; Online: Impact of abdominal compression on setup error and image matching during radical abdominal radiotherapy.

Chu, Kwun-Ye / Cooke, Rosie / Van den Heuvel, Frank / Mukherjee, Somnath / Hawkins, Maria A

Technical innovations & patient support in radiation oncology

2019 Volume 12, Page(s) 28–33

Abstract: ... conducted were an F-test to compare variances in setup error, Student's t-tests for setup error and average ...

Abstract	Purpose: To determine the impact of abdominal compression (AC) on setup error and image matching time. Materials and methods: This study included 72 liver, pancreas and abdominal node patients treated radically from 2016 to 2019 in a single centre. Patients received either SBRT or conventional radical fractionation (CRF). Compressed patients were supine, arms up with kneefix and AC equipment. Uncompressed patients were supine, arms up with kneefix. All patients received daily online-matched CBCTs before treatment. Initial setup error was determined for all patients. Registration error was assessed for 10 liver and 10 pancreas patients. Image matching times were determined using beam on times. Statistical tests conducted were an F-test to compare variances in setup error, Student's t-tests for setup error and average image analysis, and a Wilcoxon Mann Whitney test for imaging matching time analysis. Results: Initial setup displacement was similar between compressed and uncompressed patients. Displacements > 1 cm occurred more frequently in the longitudinal direction for most patients. SBRT patients required more additional manual positioning following imaging. Mean absolute registration error in the SI direction was 5.4 mm and 3.3 mm for uncompressed and compressed pancreas patients respectively and 1.7 mm and 0.8 mm for uncompressed and compressed liver patients respectively. Compressed patients required less time for image matching and fewer images per fraction on average. Repeat imaging occurred more frequently in SBRT and uncompressed patients. Conclusions: Although abdominal compression has no significant impact on setup error, it can reduce imaging matching times resulting in improved treatment accuracy.
Language	English
Publishing date	2019-12-16
Publishing country	England
Document type	Journal Article
ISSN	2405-6324
ISSN (online)	2405-6324
DOI	10.1016/j.tipsro.2019.11.003
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Article ; Online: Effects of urbanization on the population structure of freshwater turtles across the United States.

Bowne, David R / Cosentino, Bradley J / Anderson, Laurel J / Bloch, Christopher P / Cooke, Sandra / Crumrine, Patrick W / Dallas, Jason / Doran, Alexandra / Dosch, Jerald J / Druckenbrod, Daniel L / Durtsche, Richard D / Garneau, Danielle / Genet, Kristen S / Fredericksen, Todd S / Kish, Peter A / Kolozsvary, Mary Beth / Kuserk, Frank T / Lindquist, Erin S / Mankiewicz, Carol /

March, James G / Muir, Timothy J / Murray, K Greg / Santulli, Madeline N / Sicignano, Frank J / Smallwood, Peter D / Urban, Rebecca A / Winnett-Murray, Kathy / Zimmermann, Craig R

Conservation biology : the journal of the Society for Conservation Biology

2018 Volume 32, Issue 5, Page(s) 1150–1161

Abstract: Landscape-scale alterations that accompany urbanization may negatively affect the population structure of wildlife species such as freshwater turtles. Changes to nesting sites and higher mortality rates due to vehicular collisions and increased predator ... ...

Abstract	Landscape-scale alterations that accompany urbanization may negatively affect the population structure of wildlife species such as freshwater turtles. Changes to nesting sites and higher mortality rates due to vehicular collisions and increased predator populations may particularly affect immature turtles and mature female turtles. We hypothesized that the proportions of adult female and immature turtles in a population will negatively correlate with landscape urbanization. As a collaborative effort of the Ecological Research as Education Network (EREN), we sampled freshwater turtle populations in 11 states across the central and eastern United States. Contrary to expectations, we found a significant positive relationship between proportions of mature female painted turtles (Chrysemys picta) and urbanization. We did not detect a relationship between urbanization and proportions of immature turtles. Urbanization may alter the thermal environment of nesting sites such that more females are produced as urbanization increases. Our approach of creating a collaborative network of scientists and students at undergraduate institutions proved valuable in terms of testing our hypothesis over a large spatial scale while also allowing students to gain hands-on experience in conservation science.
MeSH term(s)	Animals ; Conservation of Natural Resources ; Female ; Fresh Water ; Turtles ; United States ; Urbanization
Language	English
Publishing date	2018-08-01
Publishing country	United States
Document type	Journal Article ; Research Support, U.S. Gov't, Non-P.H.S.
ZDB-ID	58735-7
ISSN	1523-1739 ; 0888-8892
ISSN (online)	1523-1739
ISSN	0888-8892
DOI	10.1111/cobi.13136
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Article ; Online: Comprehensive evidence implies a higher social cost of CO

Nature

2022 Volume 610, Issue 7933, Page(s) 687–692

Abstract: The social cost of carbon dioxide (SC- ... ...

Abstract	The social cost of carbon dioxide (SC-CO
MeSH term(s)	Carbon Dioxide/analysis ; Carbon Dioxide/economics ; Climate ; Greenhouse Gases/analysis ; Greenhouse Gases/economics ; Socioeconomic Factors ; Climate Models ; Uncertainty ; Delay Discounting ; Risk ; Policy Making ; Environmental Policy
Chemical Substances	Carbon Dioxide (142M471B3J) ; Greenhouse Gases
Language	English
Publishing date	2022-09-01
Publishing country	England
Document type	Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
ZDB-ID	120714-3
ISSN	1476-4687 ; 0028-0836
ISSN (online)	1476-4687
ISSN	0028-0836
DOI	10.1038/s41586-022-05224-9
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