keyword
MENU ▼
Read by QxMD icon Read
search

DOAK

keyword
https://www.readbyqxmd.com/read/28500237/resistance-to-ret-inhibition-in-ret-rearranged-nsclc-is-mediated-by-reactivation-of-ras-mapk-signaling
#1
Sarah K Nelson-Taylor, Anh T Le, Minjae Yoo, Laura Schubert, Katie M Mishall, Andrea Doak, Marileila Varella-Garcia, Aik-Choon Tan, Robert C Doebele
Oncogenic rearrangements in RET are present in 1-2% of lung adenocarcinoma (LAD) patients. Ponatinib is a multi-kinase inhibitor with low-nanomolar potency against the RET kinase domain. Here, we demonstrate that ponatinib exhibits potent anti-proliferative activity in RET fusion positive LC-2/ad LAD cells and inhibits phosphorylation of the RET fusion protein and signaling through ERK1/2 and AKT. Using distinct dose-escalation strategies, two ponatinib-resistant LC-2/ad cell lines, PR1 and PR2, were derived...
May 12, 2017: Molecular Cancer Therapeutics
https://www.readbyqxmd.com/read/28446701/wind-and-rain-are-the-primary-climate-factors-driving-changing-phenology-of-an-aerial-insectivore
#2
Rachel D Irons, April Harding Scurr, Alexandra P Rose, Julie C Hagelin, Tricia Blake, Daniel F Doak
While the ecological effects of climate change have been widely observed, most efforts to document these impacts in terrestrial systems have concentrated on the impacts of temperature. We used tree swallow (Tachycineta bicolor) nest observations from two widely separated sites in central Alaska to examine the aspects of climate affecting breeding phenology at the northern extent of this species' range. We found that two measures of breeding phenology, annual lay and hatch dates, are more strongly predicted by windiness and precipitation than by temperature...
April 26, 2017: Proceedings. Biological Sciences
https://www.readbyqxmd.com/read/28398334/diffraction-data-of-core-shell-nanoparticles-from-an-x-ray-free-electron-laser
#3
Xuanxuan Li, Chun-Ya Chiu, Hsiang-Ju Wang, Stephan Kassemeyer, Sabine Botha, Robert L Shoeman, Robert M Lawrence, Christopher Kupitz, Richard Kirian, Daniel James, Dingjie Wang, Garrett Nelson, Marc Messerschmidt, Sébastien Boutet, Garth J Williams, Elisabeth Hartmann, Aliakbar Jafarpour, Lutz M Foucar, Anton Barty, Henry Chapman, Mengning Liang, Andreas Menzel, Fenglin Wang, Shibom Basu, Raimund Fromme, R Bruce Doak, Petra Fromme, Uwe Weierstall, Michael H Huang, John C H Spence, Ilme Schlichting, Brenda G Hogue, Haiguang Liu
X-ray free-electron lasers provide novel opportunities to conduct single particle analysis on nanoscale particles. Coherent diffractive imaging experiments were performed at the Linac Coherent Light Source (LCLS), SLAC National Laboratory, exposing single inorganic core-shell nanoparticles to femtosecond hard-X-ray pulses. Each facetted nanoparticle consisted of a crystalline gold core and a differently shaped palladium shell. Scattered intensities were observed up to about 7 nm resolution. Analysis of the scattering patterns revealed the size distribution of the samples, which is consistent with that obtained from direct real-space imaging by electron microscopy...
April 11, 2017: Scientific Data
https://www.readbyqxmd.com/read/28373085/choose-your-cell-model-wisely-the-in-vitro-nanoneurotoxicity-of-differentially-coated-iron-oxide-nanoparticles-for-neural-cell-labeling
#4
Freya Joris, Daniel Valdepérez, Beatriz Pelaz, Tianqiang Wang, Shareen H Doak, Bella B Manshian, Stefaan J Soenen, Wolfgang J Parak, Stefaan C De Smedt, Koen Raemdonck
Currently, there is a large interest in the labeling of neural stem cells (NSCs) with iron oxide nanoparticles (IONPs) to allow MRI-guided detection after transplantation in regenerative medicine. For such biomedical applications, excluding nanotoxicity is key. Nanosafety is primarily evaluated in vitro where an immortalized or cancer cell line of murine origin is often applied, which is not necessarily an ideal cell model. Previous work revealed clear neurotoxic effects of PMA-coated IONPs in distinct cell types that could potentially be applied for nanosafety studies regarding neural cell labeling...
April 1, 2017: Acta Biomaterialia
https://www.readbyqxmd.com/read/28341647/estimating-seven-coefficients-of-pairwise-relatedness-using-population-genomic-data
#5
Matthew S Ackerman, Parul Johri, Ken Spitze, Sen Xu, Thomas G Doak, Kimberly Young, Michael Lynch
Population structure can be described by genotypic-correlation coefficients between groups of individuals, the most basic of which are the pairwise relatedness coefficients between any two individuals. There are nine pairwise relatedness coefficients in the most general model, and we show that these can be reduced to seven coefficients for biallelic loci. Although all nine coefficients can be estimated from pedigrees, six coefficients have been beyond empirical reach. We provide a numerical optimization procedure that estimates all seven reduced coefficients from population-genomic data...
May 2017: Genetics
https://www.readbyqxmd.com/read/28280722/tissue-engineered-solutions-in-plastic-and-reconstructive-surgery-principles-and-practice
#6
REVIEW
Sarah Al-Himdani, Zita M Jessop, Ayesha Al-Sabah, Emman Combellack, Amel Ibrahim, Shareen H Doak, Andrew M Hart, Charles W Archer, Catherine A Thornton, Iain S Whitaker
Recent advances in microsurgery, imaging, and transplantation have led to significant refinements in autologous reconstructive options; however, the morbidity of donor sites remains. This would be eliminated by successful clinical translation of tissue-engineered solutions into surgical practice. Plastic surgeons are uniquely placed to be intrinsically involved in the research and development of laboratory engineered tissues and their subsequent use. In this article, we present an overview of the field of tissue engineering, with the practicing plastic surgeon in mind...
2017: Frontiers in Surgery
https://www.readbyqxmd.com/read/28231421/varying-demographic-impacts-of-different-fisheries-on-three-mediterranean-seabird-species
#7
Meritxell Genovart, Daniel F Doak, José-Manuel Igual, Stefano Sponza, Jelena Kralj, Daniel Oro
Fisheries have an enormous economic importance, but reconciling their socio-economic features with the conservation and sustainability of marine ecosystems presents major challenges. Bycatch mortality from fisheries is clearly among the most serious global threats for marine ecosystems, affecting a wide range of top predators. Recent estimates report ca. 200,000 seabirds killed annually by bycatch in European waters. However, there is an urgent need to rigorously estimate actual mortality rates and quantify effects of bycatch on populations...
February 23, 2017: Global Change Biology
https://www.readbyqxmd.com/read/28204679/population-genomics-of-paramecium-species
#8
Parul Johri, Sascha Krenek, Georgi K Marinov, Thomas G Doak, Thomas U Berendonk, Michael Lynch
Population-genomic analyses are essential to understanding factors shaping genomic variation and lineage-specific sequence constraints. The dearth of such analyses for unicellular eukaryotes prompted us to assess genomic variation in Paramecium, one of the most well-studied ciliate genera. The Paramecium aurelia complex consists of ∼15 morphologically indistinguishable species that diverged subsequent to two rounds of whole-genome duplications (WGDs, as long as 320 MYA) and possess extremely streamlined genomes...
May 1, 2017: Molecular Biology and Evolution
https://www.readbyqxmd.com/read/28202732/atomic-structure-of-granulin-determined-from-native-nanocrystalline-granulovirus-using-an-x-ray-free-electron-laser
#9
Cornelius Gati, Dominik Oberthuer, Oleksandr Yefanov, Richard D Bunker, Francesco Stellato, Elaine Chiu, Shin-Mei Yeh, Andrew Aquila, Shibom Basu, Richard Bean, Kenneth R Beyerlein, Sabine Botha, Sébastien Boutet, Daniel P DePonte, R Bruce Doak, Raimund Fromme, Lorenzo Galli, Ingo Grotjohann, Daniel R James, Christopher Kupitz, Lukas Lomb, Marc Messerschmidt, Karol Nass, Kimberly Rendek, Robert L Shoeman, Dingjie Wang, Uwe Weierstall, Thomas A White, Garth J Williams, Nadia A Zatsepin, Petra Fromme, John C H Spence, Kenneth N Goldie, Johannes A Jehle, Peter Metcalf, Anton Barty, Henry N Chapman
To understand how molecules function in biological systems, new methods are required to obtain atomic resolution structures from biological material under physiological conditions. Intense femtosecond-duration pulses from X-ray free-electron lasers (XFELs) can outrun most damage processes, vastly increasing the tolerable dose before the specimen is destroyed. This in turn allows structure determination from crystals much smaller and more radiation sensitive than previously considered possible, allowing data collection from room temperature structures and avoiding structural changes due to cooling...
February 28, 2017: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/28112402/portfolio-effects-climate-change-and-the-persistence-of-small-populations-analyses-on-the-rare-plant-saussurea-weberi
#10
Ronald E Abbott, Daniel F Doak, Megan L Peterson
The mechanisms that stabilize small populations in the face of environmental variation are crucial to their long-term persistence. Building from diversity-stability concepts in community ecology, within-population diversity is gaining attention as an important component of population stability. Genetic and microhabitat variation within populations can generate diverse responses to common environmental fluctuations, dampening temporal variability across the population as a whole through portfolio effects. Yet, the potential for portfolio effects to operate at small scales within populations or to change with systematic environmental shifts, such as climate change, remain largely unexplored...
April 2017: Ecology
https://www.readbyqxmd.com/read/28011747/nanogenotoxicology-present-and-the-future
#11
Shareen H Doak, Maria Dusinska
This Mutagenesis special issue is on the topic of nanogenotoxicology. It unites a collection of reports that provide insight into: (i) the properties of engineered nanomaterials (ENMs) that contribute to genotoxicity, (ii) the genotoxic mechanisms associated with DNA damage observed in both in vitro and in vivo tests and (iii) the future test systems that will provide more accurate prediction of ENM genotoxicity to support regulatory hazard assessment frameworks. The contributions within therefore provide collective oversight of our current understanding, coupled to future perspectives aimed at overcoming technical hurdles and describing novel analytical methods to further advance the field...
January 2017: Mutagenesis
https://www.readbyqxmd.com/read/27942789/evaluation-of-the-automated-microflow-%C3%A2-and-metafer%C3%A2-platforms-for-high-throughput-micronucleus-scoring-and-dose-response-analysis-in-human-lymphoblastoid-tk6-cells
#12
Jatin R Verma, Benjamin J Rees, Eleanor C Wilde, Catherine A Thornton, Gareth J S Jenkins, Shareen H Doak, George E Johnson
The use of manual microscopy for the scoring of chromosome damage in the in vitro micronucleus assay is often associated with user subjectivity. This level of subjectivity can be reduced by using automated platforms, which have added value of faster with high-throughput and multi-endpoint capabilities. However, there is a need to assess the reproducibility and sensitivity of these automated platforms compared with the gold standard of the manual scoring. The automated flow cytometry-based MicroFlow(®) and image analysis-based Metafer™ were used for dose response analyses in human lymphoblastoid TK6 cells exposed to the model clastogen, methyl methanesulfonate (MMS), aneugen, carbendazim, and the weak genotoxic carcinogen, ochratoxin A (OTA)...
December 10, 2016: Archives of Toxicology
https://www.readbyqxmd.com/read/27927018/microbiome-growth-retardation-and-metabolism-are-they-related
#13
REVIEW
Daniel J Hoffman, Maiza Campos-Ponce, Carla R Taddei, Colleen M Doak
CONTEXT: Despite an improvement in food security and the delivery of nutritional supplements to children living in impoverished parts of the world, poor growth is still highly prevalent. Given that the microbiome is related to both nutrient absorption, as well as overweight/obesity, it may play a central role in limiting or modifying normal growth processes while contributing to chronic disease risks. OBJECTIVE: The objective of this paper is to describe normal growth processes, the role of the microbiome in supporting or disrupting normal growth processes, and its potential impact on long-term health...
May 2017: Annals of Human Biology
https://www.readbyqxmd.com/read/27883294/drug-discovery-beyond-the-rule-of-5-opportunities-and-challenges
#14
Bradley C Doak, Jan Kihlberg
No abstract text is available yet for this article.
December 8, 2016: Expert Opinion on Drug Discovery
https://www.readbyqxmd.com/read/27815329/critical-review-of-the-current-and-future-challenges-associated-with-advanced-in-vitro-systems-towards-the-study-of-nanoparticle-secondary-genotoxicity
#15
REVIEW
Stephen J Evans, Martin J D Clift, Neenu Singh, Jefferson de Oliveira Mallia, Michael Burgum, John W Wills, Thomas S Wilkinson, Gareth J S Jenkins, Shareen H Doak
With the need to understand the potential biological impact of the plethora of nanoparticles (NPs) being manufactured for a wide range of potential human applications, due to their inevitable human exposure, research activities in the field of NP toxicology has grown exponentially over the last decade. Whilst such increased research efforts have elucidated an increasingly significant knowledge base pertaining to the potential human health hazard posed by NPs, understanding regarding the possibility for NPs to elicit genotoxicity is limited...
January 2017: Mutagenesis
https://www.readbyqxmd.com/read/27778134/determination-of-ligand-binding-modes-in-weak-protein-ligand-complexes-using-sparse-nmr-data
#16
Biswaranjan Mohanty, Martin L Williams, Bradley C Doak, Mansha Vazirani, Olga Ilyichova, Geqing Wang, Wolfgang Bermel, Jamie S Simpson, David K Chalmers, Glenn F King, Mehdi Mobli, Martin J Scanlon
We describe a general approach to determine the binding pose of small molecules in weakly bound protein-ligand complexes by deriving distance constraints between the ligand and methyl groups from all methyl-containing residues of the protein. We demonstrate that using a single sample, which can be prepared without the use of expensive precursors, it is possible to generate high-resolution data rapidly and obtain the resonance assignments of Ile, Leu, Val, Ala and Thr methyl groups using triple resonance scalar correlation data...
October 24, 2016: Journal of Biomolecular NMR
https://www.readbyqxmd.com/read/27765679/coating-of-quantum-dots-strongly-defines-their-effect-on-lysosomal-health-and-autophagy
#17
Karen Peynshaert, Stefaan J Soenen, Bella B Manshian, Shareen H Doak, Kevin Braeckmans, Stefaan C De Smedt, Katrien Remaut
In the last decade the interest in autophagy got an incredible boost and the phenomenon quickly turned into an extensive research field. Interestingly, dysfunction of this cytoplasmic clearance system has been proposed to lie at the root of multiple diseases including cancer. We therefore consider it crucial from a toxicological point of view to investigate if nanomaterials that are developed for biomedical applications interfere with this cellular process. Here, we study the highly promising 'gradient alloyed' Quantum Dots (QDs) that differ from conventional ones by their gradient core composition which allows for better fluorescent properties...
October 17, 2016: Acta Biomaterialia
https://www.readbyqxmd.com/read/27752749/variability-in-practice-patterns-in-stress-urinary-incontinence-and-pelvic-organ-prolapse-results-of-an-iuga-survey
#18
Dorothy Kammerer-Doak, Kamil Svabik, Tony Bazi
INTRODUCTION AND HYPOTHESIS: Members of the International Urogynecological Association (IUGA) come from different geographic locations and practice settings. A member survey regarding practice patterns provides valuable information for practitioners and researchers alike, and allows the IUGA to discover areas to focus on education and information dissemination. METHODS: A questionnaire was developed by the IUGA Research and Development committee and distributed electronically to IUGA surgeons...
October 17, 2016: International Urogynecology Journal
https://www.readbyqxmd.com/read/27748751/structural-and-conformational-determinants-of-macrocycle-cell-permeability
#19
Björn Over, Pär Matsson, Christian Tyrchan, Per Artursson, Bradley C Doak, Michael A Foley, Constanze Hilgendorf, Stephen E Johnston, Maurice D Lee, Richard J Lewis, Patrick McCarren, Giovanni Muncipinto, Ulf Norinder, Matthew W D Perry, Jeremy R Duvall, Jan Kihlberg
Macrocycles are of increasing interest as chemical probes and drugs for intractable targets like protein-protein interactions, but the determinants of their cell permeability and oral absorption are poorly understood. To enable rational design of cell-permeable macrocycles, we generated an extensive data set under consistent experimental conditions for more than 200 non-peptidic, de novo-designed macrocycles from the Broad Institute's diversity-oriented screening collection. This revealed how specific functional groups, substituents and molecular properties impact cell permeability...
December 2016: Nature Chemical Biology
https://www.readbyqxmd.com/read/27748567/is-nickel-chloride-really-a-non-genotoxic-carcinogen
#20
REVIEW
Leanne Stannard, Shareen H Doak, Ann Doherty, Gareth J Jenkins
Human beings are exposed to carcinogens through air, water, food and tobacco smoke. Nickel chloride (NiCl2 ) is a toxic and carcinogenic environmental and occupational pollutant, which was previously classified as a non-genotoxic carcinogen and thought to not directly alter the DNA. Non-genotoxic carcinogens such as NiCl2 are difficult to detect in vitro; hence, a heavy reliance on animal studies exists. NiCl2 has previously been classified as a non-genotoxic carcinogen (NGTC); however, after studying the effect of NiCl2 on many mechanistic end-points, it has become clear that NiCl2 behaves more like a genotoxic carcinogen...
October 17, 2016: Basic & Clinical Pharmacology & Toxicology
keyword
keyword
26598
1
2
Fetch more papers »
Fetching more papers... Fetching...
Read by QxMD. Sign in or create an account to discover new knowledge that matter to you.
Remove bar
Read by QxMD icon Read
×

Search Tips

Use Boolean operators: AND/OR

diabetic AND foot
diabetes OR diabetic

Exclude a word using the 'minus' sign

Virchow -triad

Use Parentheses

water AND (cup OR glass)

Add an asterisk (*) at end of a word to include word stems

Neuro* will search for Neurology, Neuroscientist, Neurological, and so on

Use quotes to search for an exact phrase

"primary prevention of cancer"
(heart or cardiac or cardio*) AND arrest -"American Heart Association"