keyword
MENU ▼
Read by QxMD icon Read
search

T cell RNaseq

keyword
https://www.readbyqxmd.com/read/29282718/multispectral-imaging-for-quantitative-and-compartment-specific-immune-infiltrates-reveals-distinct-immune-profiles-that-classify-lung-cancer-patients
#1
Artur Mezheyeuski, Christian Holst Bergsland, Max Backman, Dijana Djureinovic, Tobias Sjöblom, Jarle Bruun, Patrick Micke
Semiquantitative assessment of immune markers by immunohistochemistry (IHC) has significant limitations for describing the diversity of the immune response in cancer. Therefore we evaluated a fluorescence-based multiplexed IHC method in combination with a multispectral imaging system to quantify immune infiltrates in situ in the environment of non-small cell lung cancer (NSCLC). A tissue microarray including 57 non-small cell lung cancer (NSCLC) cases was stained with antibodies to CD8, CD20, CD4, FOXP3, CD45RO and for pan-cytokeratin and immune cells were quantified in epithelial and stroma compartments...
December 27, 2017: Journal of Pathology
https://www.readbyqxmd.com/read/29282299/an-anti-gdnf-family-receptor-alpha-1-gfra1-antibody-drug-conjugate-for-the-treatment-of-hormone-receptor-positive-breast-cancer
#2
Sunil Bhakta, Lisa M Crocker, Yvonne Chen, Meredith Hazen, Melissa M Schutten, Dongwei Li, Coenraad Kuijl, Rachana Ohri, Fiona Zhong, Kirsten Achilles Poon, Mary Ann T Go, Eric Cheng, Robert Piskol, Ron Firestein, Aimee Fourie-O'Donohue, Katherine R Kozak, Helga Raab, Jo-Anne Hongo, Deepak Sampath, Mark S Dennis, Richard H Scheller, Paul Polakis, Jagath R Junutula
Luminal A (hormone receptor-positive) breast cancer constitutes 70% of total breast cancer patients. In an attempt to develop a targeted therapeutic for this cancer indication, we have identified and characterized Glial cell line-Derived Neurotrophic Factor (GDNF) Family Receptor Alpha 1 (GFRA1) antibody-drug conjugates (ADC) using a cleavable valine-citrulline-MMAE (vcMMAE) linker-payload. RNAseq and immunohistochemistry analysis confirmed the abundant expression of GFRA1 in luminal A breast cancer tissues, while minimal or no expression was observed in most normal tissues...
December 27, 2017: Molecular Cancer Therapeutics
https://www.readbyqxmd.com/read/29282132/design-and-validation-of-a-disease-network-of-inflammatory-processes-in-the-nsg-uc-mouse-model
#3
Henrika Jodeleit, Pia Palamides, Florian Beigel, Thomas Mueller, Eckhard Wolf, Matthias Siebeck, Roswitha Gropp
BACKGROUND: Ulcerative colitis (UC) is a highly progressive inflammatory disease that requires the interaction of epithelial, immune, endothelial and muscle cells and fibroblasts. Previous studies suggested two inflammatory conditions in UC-patients: 'acute' and 'remodeling' and that the design of a disease network might improve the understanding of the inflammatory processes. The objective of the study was to design and validate a disease network in the NOD-SCID IL2rγnull (NSG)-UC mouse model to get a better understanding of the inflammatory processes...
December 28, 2017: Journal of Translational Medicine
https://www.readbyqxmd.com/read/29228356/dietary-intervention-rescues-myopathy-associated-with-neurofibromatosis-type-1
#4
Matthew A Summers, Thusitha Rupasinghe, Emily R Vasiljevski, Frances J Evesson, Kathy Mikulec, Lauren Peacock, Kate Gr Quinlan, Sandra T Cooper, Ute Roessner, David A Stevenson, David G Little, Aaron Schindeler
Neurofibromatosis type 1 (NF1) is an autosomal dominant genetic disorder with complex symptomology. In addition to a predisposition to tumors, children with NF1 can present with reduced muscle mass, global muscle weakness, and impaired motor skills, which can have a significant impact on quality of life. Genetic mouse models have shown a lipid storage disease phenotype may underlie muscle weakness in NF1. Herein we confirm that biopsy specimens from six individuals with NF1 similarly manifest features of a lipid storage myopathy, with marked accumulation of intramyocellular lipid, fibrosis, and mononuclear cell infiltrates...
December 8, 2017: Human Molecular Genetics
https://www.readbyqxmd.com/read/29187856/a-role-for-iodide-and-thyroglobulin-in-modulating-the-function-of-human-immune-cells
#5
Mahmood Y Bilal, Svetlana Dambaeva, Joanne Kwak-Kim, Alice Gilman-Sachs, Kenneth D Beaman
Iodine is an essential element required for the function of all organ systems. Although the importance of iodine in thyroid hormone synthesis and reproduction is well known, its direct effects on the immune system are elusive. Human leukocytes expressed mRNA of iodide transporters (NIS and PENDRIN) and thyroid-related proteins [thyroglobulin (TG) and thyroid peroxidase (TPO)]. The mRNA levels of PENDRIN and TPO were increased whereas TG transcripts were decreased post leukocyte activation. Flow cytometric analysis revealed that both PENDRIN and NIS were expressed on the surface of leukocyte subsets with the highest expression occurring on monocytes and granulocytes...
2017: Frontiers in Immunology
https://www.readbyqxmd.com/read/29152102/l1-cell-adhesion-molecule-l1cam-is-a-strong-predictor-for-locoregional-recurrences-in-cervical-cancer
#6
Marlies Schrevel, Willem E Corver, Margit E Vegter, Natalja T Ter Haar, Enno J Dreef, Jogchum J Beltman, Gemma Kenter, Tjalling Bosse, Cornelis D de Kroon, Ekaterina S Jordanova
Background: L1 cell adhesion molecule (L1CAM) has been shown to be a prognostic marker in various cancer types, and has been suggested to play a role in epithelial mesenchymal transition (EMT). Here, we determined the prognostic significance of L1CAM in cervical cancer and its association with vimentin expression on tumor cells, indicative of EMT. Methods: Formalin-fixed, paraffin-embedded primary tumor samples from 372 cervical cancer patients were collected for immunohistochemical analysis of L1CAM expression...
October 20, 2017: Oncotarget
https://www.readbyqxmd.com/read/29129226/measuring-bovine-%C3%AE-%C3%AE-t-cell-function-at-the-site-of-mycobacterium-bovis-infection
#7
Rachel A Rusk, Mitchell V Palmer, W Ray Waters, Jodi L McGill
Bovine γδ T cells are amongst the first cells to accumulate at the site of Mycobacterium bovis infection; however, their role in the developing lesion remains unclear. We utilized transcriptomics analysis, in situ hybridization, and a macrophage/γδ T cell co-culture system to elucidate the role of γδ T cells in local immunity to M. bovis infection. Transcriptomics analysis revealed that γδ T cells upregulated expression of several novel, immune-associated genes in response to stimulation with M. bovis antigen...
December 2017: Veterinary Immunology and Immunopathology
https://www.readbyqxmd.com/read/29065523/the-transcriptomes-of-xiphinema-index-and-longidorus-elongatus-suggest-independent-acquisition-of-some-plant-parasitism-genes-by-horizontal-gene-transfer-in-early-branching-nematodes
#8
Etienne G J Danchin, Laetitia Perfus-Barbeoch, Corinne Rancurel, Peter Thorpe, Martine Da Rocha, Simon Bajew, Roy Neilson, Elena Sokolova Guzeeva, Corinne Da Silva, Julie Guy, Karine Labadie, Daniel Esmenjaud, Johannes Helder, John T Jones, Sebastian Eves-van den Akker
Nematodes have evolved the ability to parasitize plants on at least four independent occasions, with plant parasites present in Clades 1, 2, 10 and 12 of the phylum. In the case of Clades 10 and 12, horizontal gene transfer of plant cell wall degrading enzymes from bacteria and fungi has been implicated in the evolution of plant parasitism. We have used ribonucleic acid sequencing (RNAseq) to generate reference transcriptomes for two economically important nematode species, Xiphinema index and Longidorus elongatus, representative of two genera within the early-branching Clade 2 of the phylum Nematoda...
October 23, 2017: Genes
https://www.readbyqxmd.com/read/29054368/an-intermediate-level-of-cd161-expression-defines-a-novel-activated-inflammatory-and-pathogenic-subset-of-cd8-t-cells-involved-in-multiple-sclerosis
#9
Bryan Nicol, Marion Salou, Isabel Vogel, Alexandra Garcia, Emilie Dugast, Jeremy Morille, Stéphanie Kilens, Eric Charpentier, Audrey Donnart, Steven Nedellec, Marylène Jacq-Foucher, Fabienne Le Frère, Sandrine Wiertlewski, Arnaud Bourreille, Sophie Brouard, Laure Michel, Laurent David, Pierre-Antoine Gourraud, Nicolas Degauque, Arnaud B Nicot, Laureline Berthelot, David-Axel Laplaud
Several lines of evidence support a key role for CD8(+) T cells in central nervous system tissue damage of patients with multiple sclerosis. However, the precise phenotype of the circulating CD8(+) T cells that may be recruited from the peripheral blood to invade the CNS remains largely undefined to date. It has been suggested that IL-17 secreting CD8 (Tc17) T cells may be involved, and in humans these cells are characterized by the expression of CD161. We focused our study on a unique and recently described subset of CD8 T cells characterized by an intermediate expression of CD161 as its role in neuroinflammation has not been investigated to date...
October 17, 2017: Journal of Autoimmunity
https://www.readbyqxmd.com/read/29021401/rnaseq-analysis-of-differentiated-keratinocytes-reveals-a-massive-response-to-late-events-during-human-papillomavirus-type-16-infection-including-loss-of-epithelial-barrier-function
#10
T Klymenko, Q Gu, I Herbert, A Stevenson, V Iliev, G Watkins, C Pollock, R Bhatia, K Cuschieri, P Herzyk, D Gatherer, S V Graham
The human papillomavirus (HPV) replication cycle is tightly linked to epithelial cell differentiation. To examine HPV-associated changes in the keratinocyte transcriptome, RNAs isolated from undifferentiated and differentiated cell populations of normal, spontaneously immortalised, keratinocytes (NIKS), and NIKS stably transfected with HPV16 episomal genomes (NIKS16), were compared using RNASeq. HPV16 infection altered expression of 2862 cellular genes. Next, to elucidate the role of keratinocyte gene expression in late events during the viral life cycle, RNASeq was carried out on triplicate differentiated populations of NIKS (uninfected) and NIKS16 (infected)...
October 11, 2017: Journal of Virology
https://www.readbyqxmd.com/read/29020037/a-conserved-fungal-glycosyltransferase-facilitates-pathogenesis-of-plants-by-enabling-hyphal-growth-on-solid-surfaces
#11
Robert King, Martin Urban, Rebecca P Lauder, Nichola Hawkins, Matthew Evans, Amy Plummer, Kirstie Halsey, Alison Lovegrove, Kim Hammond-Kosack, Jason J Rudd
Pathogenic fungi must extend filamentous hyphae across solid surfaces to cause diseases of plants. However, the full inventory of genes which support this is incomplete and many may be currently concealed due to their essentiality for the hyphal growth form. During a random T-DNA mutagenesis screen performed on the pleomorphic wheat (Triticum aestivum) pathogen Zymoseptoria tritici, we acquired a mutant unable to extend hyphae specifically when on solid surfaces. In contrast "yeast-like" growth, and all other growth forms, were unaffected...
October 2017: PLoS Pathogens
https://www.readbyqxmd.com/read/28972046/inhibiting-pi3k%C3%AE-with-azd8186-regulates-key-metabolic-pathways-in-pten-null-tumours
#12
James Lynch, Urszula M Polanska, Oona Delpuech, Urs Hancox, Antonio Garcia-Trinidad, Filippos Michopoulos, Carol Lenaghan, Robert McEwen, James Bradford, Radoslaw Polanski, Rebecca Ellston, Alvaro Avivar-Valderas, James E Pilling, Anna D Staniszewska, Marie Cumberbatch, Susan E Critchlow, Francisco Cruzalegui, Simon T Barry
PURPOSE: PTEN null tumours become dependent on the PI3Kb isoform and can be targeted by molecules such as the selective PI3Kb inhibitor AZD8186. However beyond the modulation of the canonical PI3K pathway, the consequences of inhibiting PI3Kb are poorly defined. EXPERIMENTAL DESIGN: To determine the broader impact of AZD8186 in PTEN null tumours we performed a genome wide RNAseq analysis of PTEN null triple negative breast tumour xenografts treated with AZD8186...
October 2, 2017: Clinical Cancer Research: An Official Journal of the American Association for Cancer Research
https://www.readbyqxmd.com/read/28965926/exposure-to-4100k-fluorescent-light-elicits-sex-specific-transcriptional-responses-in-xiphophorus-maculatus-skin
#13
William T Boswell, Mikki Boswell, Dylan J Walter, Kaela L Navarro, Jordan Chang, Yuan Lu, Markita G Savage, Jianjun Shen, Ronald B Walter
It has been reported that exposure to artificial light may affect oxygen intake, heart rate, absorption of vitamins and minerals, and behavioral responses in humans. We have reported specific gene expression responses in the skin of Xiphophorus fish after exposure to ultraviolet light (UV), as well as, both broad spectrum and narrow waveband visible light. In regard to fluorescent light (FL), we have shown that male X. maculatus exposed to 4100K FL (i.e. "cool white") rapidly suppress transcription of many genes involved with DNA replication and repair, chromosomal segregation, and cell cycle progression in skin...
September 29, 2017: Comparative Biochemistry and Physiology. Toxicology & Pharmacology: CBP
https://www.readbyqxmd.com/read/28928284/functional-and-evolutionary-insights-from-the-ciona-notochord-transcriptome
#14
Wendy M Reeves, Yuye Wu, Matthew J Harder, Michael T Veeman
The notochord of the ascidian Ciona consists of only 40 cells, and is a longstanding model for studying organogenesis in a small, simple embryo. Here, we perform RNAseq on flow-sorted notochord cells from multiple stages to define a comprehensive Ciona notochord transcriptome. We identify 1364 genes with enriched expression and extensively validate the results by in situ hybridization. These genes are highly enriched for Gene Ontology terms related to the extracellular matrix, cell adhesion and cytoskeleton...
September 15, 2017: Development
https://www.readbyqxmd.com/read/28922848/aggressive-behavior-in-silent-subtype-iii-pituitary-adenomas-may-depend-on-suppression-of-local-immune-response-a-whole-transcriptome-analysis
#15
Timothy E Richardson, Zhong-Jian Shen, Mohammed Kanchwala, Chao Xing, Alexander Filatenkov, Ping Shang, Samuel Barnett, Zahidur Abedin, James S Malter, Jack M Raisanen, Dennis K Burns, Charles L White, Kimmo J Hatanpaa
Silent subtype III pituitary adenomas (SS-3) are clinically nonfunctional adenomas that are more aggressive in terms of invasion and risk of recurrence than their conventional null cell counterparts. We previously showed that these tumors can be distinguished by immunohistochemistry based on the identification of a markedly enlarged and fragmented Golgi apparatus. To understand the molecular correlates of differential aggressiveness, we performed whole transcriptome sequencing (RNAseq) on 4 SS-3 and 4 conventional null cell adenomas...
October 1, 2017: Journal of Neuropathology and Experimental Neurology
https://www.readbyqxmd.com/read/28851949/hypertension-susceptibility-loci-are-associated-with-anthracycline-related-cardiotoxicity-in-long-term-childhood-cancer-survivors
#16
Michelle A T Hildebrandt, Monica Reyes, Xifeng Wu, Xia Pu, Kara A Thompson, Jianzhong Ma, Andrew P Landstrom, Alanna C Morrison, Joann L Ater
Anthracycline-based chemotherapy is associated with dose-dependent, irreversible damage to the heart. Childhood cancer survivors with hypertension after anthracycline exposure are at increased risk of cardiotoxicity, leading to the hypothesis that genetic susceptibility loci for hypertension may serve as predictors for development of late cardiotoxicity. Therefore, we determined the association between 12 GWAS-identified hypertension-susceptibility loci and cardiotoxicity in a cohort of long-term childhood cancer survivors (N = 108) who received anthracyclines and were screened for cardiac function via echocardiograms...
August 29, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28805806/lung-tumor-exome-files-with-t-cell-receptor-recombinations-a-mouse-model-of-t-cell-infiltrates-reflecting-mutation-burdens
#17
Yaping N Tu, Wei Lue Tong, Timothy J Fawcett, George Blanck
Tumor exomes and RNASeq data were originally intended for obtaining tumor mutations and gene expression profiles, respectively. However, recent work has determined that tumor exome and RNAseq read files contain reads representing T-cell and B-cell receptor (TcR and BcR) recombinations, presumably due to infiltrating lymphocytes. Furthermore, the recovery of immune receptor recombination reads has demonstrated correlations with specific, previously appreciated aspects of tumor immunology. To further understand the usefulness of recovering TcR and BcR recombinations from tumor exome files, we developed a scripted algorithm for recovery of reads representing these recombinations from a previously described mouse model of lung tumorigenesis...
August 14, 2017: Laboratory Investigation; a Journal of Technical Methods and Pathology
https://www.readbyqxmd.com/read/28775251/niche-specific-gene-expression-in-a-parasitic-nematode-increased-expression-of-immunomodulators-in-teladorsagia-circumcincta-larvae-derived-from-host-mucosa
#18
Tom N McNeilly, David Frew, Stewart T G Burgess, Harry Wright, David J Bartley, Yvonne Bartley, Alasdair J Nisbet
Metazoan parasites have to survive in many different niches in order to complete their life-cycles. In the absence of reliable methods to manipulate parasite genomes and/or proteomes, identification of the molecules critical for parasite survival within these niches has largely depended on comparative transcriptomic and proteomic analyses of different developmental stages of the parasite; however, changes may reflect differences associated with transition between developmental stages rather than specific adaptations to a particular niche...
August 3, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28727807/digoxin-reveals-a-functional-connection-between-hiv-1-integration-preference-and-t-cell-activation
#19
Alexander Zhyvoloup, Anat Melamed, Ian Anderson, Delphine Planas, Chen-Hsuin Lee, Janos Kriston-Vizi, Robin Ketteler, Andy Merritt, Jean-Pierre Routy, Petronela Ancuta, Charles R M Bangham, Ariberto Fassati
HIV-1 integrates more frequently into transcribed genes, however the biological significance of HIV-1 integration targeting has remained elusive. Using a selective high-throughput chemical screen, we discovered that the cardiac glycoside digoxin inhibits wild-type HIV-1 infection more potently than HIV-1 bearing a single point mutation (N74D) in the capsid protein. We confirmed that digoxin repressed viral gene expression by targeting the cellular Na+/K+ ATPase, but this did not explain its selectivity. Parallel RNAseq and integration mapping in infected cells demonstrated that digoxin inhibited expression of genes involved in T-cell activation and cell metabolism...
July 2017: PLoS Pathogens
https://www.readbyqxmd.com/read/28711779/hyperactive-foxo1-results-in-lack-of-tip-stalk-identity-and-deficient-microvascular-regeneration-during-kidney-injury
#20
Lan T H Dang, Takahide Aburatani, Graham A Marsh, Bryce G Johnson, Stella Alimperti, Christine J Yoon, Angela Huang, Suzanne Szak, Naoki Nakagawa, Ivan Gomez, Shuyu Ren, Sarah K Read, Chris Sparages, Alfred C Aplin, Roberto F Nicosia, Chris Chen, Giovanni Ligresti, Jeremy S Duffield
Loss of the microvascular (MV) network results in tissue ischemia, loss of tissue function, and is a hallmark of chronic diseases. The incorporation of a functional vascular network with that of the host remains a challenge to utilizing engineered tissues in clinically relevant therapies. We showed that vascular-bed-specific endothelial cells (ECs) exhibit differing angiogenic capacities, with kidney microvascular endothelial cells (MVECs) being the most deficient, and sought to explore the underlying mechanism...
October 2017: Biomaterials
keyword
keyword
63177
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"