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apoptosis transcriptome

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https://www.readbyqxmd.com/read/28938587/transcriptomic-profiles-of-human-foreskin-fibroblast-cells-in-response-to-orf-virus
#1
Daxiang Chen, Mingjian Long, Bin Xiao, Yufeng Xiong, Huiqin Chen, Yu Chen, Zhenzhan Kuang, Ming Li, Yingsong Wu, Daniel L Rock, Daoyuan Gong, Yong Wang, Haijian He, Fang Liu, Shuhong Luo, Wenbo Hao
Orf virus has been utilized as a safe and efficient viral vector against not only diverse infectious diseases, but also against tumors. However, the nature of the genes triggered by the vector in human cells is poorly characterized. Using RNA sequencing technology, we compared specific changes in the transcriptomic profiles in human foreskin fibroblast cells following infection by the orf virus. The results indicated that orf virus upregulates or downregulates expression of a variety of genes, including genes involved in antiviral immune response, apoptosis, cell cycle and a series of signaling pathways, such as the IFN and p53-signaling pathways...
August 29, 2017: Oncotarget
https://www.readbyqxmd.com/read/28938541/differential-expression-of-circulating-biomarkers-of-tumor-phenotype-and-outcomes-in-previously-treated-non-small-cell-lung-cancer-patients-receiving-erlotinib-vs-cytotoxic-chemotherapy
#2
Mary Jo Fidler, Casey Frankenberger, Richard Seto, Gabriela C Lobato, Cristina L Fhied, Selina Sayidine, Sanjib Basu, Mark Pool, Reem Karmali, Marta Batus, Wen-Rong Lie, David Hayes, Jehangir Mistry, Philip Bonomi, Jeffrey A Borgia
BACKGROUND: The objective of this study was to identify serum biomarkers capable of predicting clinical outcomes in previously-treated NSCLC patients with wild-type for EGFR activating mutations or insufficient tissue for mutation status determination. METHODS: Sixty-six Luminex immunoassays representative of biological themes that emerged from a re-analysis of transcriptome data from the Cancer Genome Atlas (TCGA) were evaluate against pretreatment serum specimens from previously-treated advanced NSCLC patients received either cytotoxic chemotherapy (n=32) or erlotinib (n=79)...
August 29, 2017: Oncotarget
https://www.readbyqxmd.com/read/28926110/pacap-and-pac1r-are-differentially-expressed-in-motor-cortex-of-amyotrophic-lateral-sclerosis-patients-and-support-survival-of-ipsc-derived-motor-neurons
#3
Gabriele Bonaventura, Rosario Iemmolo, Agata Grazia D'Amico, Valentina La Cognata, Erminio Costanzo, Mario Zappia, Velia D'Agata, Francesca Luisa Conforti, Eleonora Aronica, Sebastiano Cavallaro
Amyotrophic lateral sclerosis (ALS) is a fatal and disabling neurodegenerative disease characterized by upper and lower motor neurons depletion. In our previous work, comprehensive genomic profiling of 41 motor cortex samples enabled to discriminate controls from sporadic ALS patients, and segregated these latter into two distinct subgroups (SALS1 and SALS2), each associated with different deregulated genes. In the present study, we focused our attention on two of them, Pituitary Adenylate Cyclase-Activating Polypeptide (PACAP) and its type 1 receptor (PAC1R), and validated the results of the transcriptome experiments by quantitative reverse transcription-polymerase chain reaction (qRT-PCR), immunohistochemistry and western blot analysis...
September 19, 2017: Journal of Cellular Physiology
https://www.readbyqxmd.com/read/28914406/manganese-induced-neurotoxicity-and-alterations-in-gene-expression-in-human-neuroblastoma-sh-sy5y-cells
#4
Deepa Gandhi, Saravanadevi Sivanesan, Krishnamurthi Kannan
Manganese (Mn) is an essential trace element required for many physiological functions including proper biochemical and cellular functioning of the central nervous system (CNS). However, exposure to excess level of Mn through occupational settings or from environmental sources has been associated with neurotoxicity. The cellular and molecular mechanism of Mn-induced neurotoxicity remains unclear. In the current study, we investigated the effects of 30-day exposure to a sub-lethal concentration of Mn (100 μM) in human neuroblastoma cells (SH-SY5Y) using transcriptomic approach...
September 15, 2017: Biological Trace Element Research
https://www.readbyqxmd.com/read/28914261/rsk2-is-a-new-pim2-target-with-pro-survival-functions-in-flt3-itd-positive-acute-myeloid-leukemia
#5
M-A Hospital, A Jacquel, F Mazed, E Saland, C Larrue, J Mondesir, R Birsen, A S Green, M Lambert, P Sujobert, E-F Gautier, V Salnot, M Le Gall, J Decroocq, L Poulain, N Jacque, M Fontenay, O Kosmider, C Récher, P Auberger, P Mayeux, D Bouscary, J-E Sarry, J Tamburini
Acute myeloid leukemia (AML) with the FLT3 internal tandem duplication (FLT3-ITD AML) accounts for 20-30% of AML cases. This subtype usually responds poorly to conventional therapies, and might become resistant to FLT3 tyrosine kinase inhibitors (TKIs) due to molecular bypass mechanisms. New therapeutic strategies focusing on resistance mechanisms are therefore urgently needed. Pim kinases are FLT3-ITD oncogenic targets that have been implicated in FLT3 TKI resistance. However, their precise biological function downstream of FLT3-ITD requires further investigation...
September 15, 2017: Leukemia: Official Journal of the Leukemia Society of America, Leukemia Research Fund, U.K
https://www.readbyqxmd.com/read/28910977/bisphenol-a-induced-apoptosis-and-transcriptome-differences-of-spermatogonial-stem-cells-in-vitro
#6
Xiaowen Gong, Hui Xie, Xiaoyong Li, Ji Wu, Yi Lin
Bisphenol A (BPA) is widely used as an industrial plasticizer, which is also an endocrine disruptor and considered to have adverse effects on reproduction. In male mammals, the long-term production of billions of spermatozoa relies on the regulated proliferation and differentiation of spermatogonial stem cells (SSCs). However, little is known about the effects of BPA on the viability of SSCs. To investigate the influence of BPA exposure on SSCs in vitro, we isolated SSCs from mouse and successfully established in vitro propagation of SSCs...
September 1, 2017: Acta Biochimica et Biophysica Sinica
https://www.readbyqxmd.com/read/28903751/rna-seq-comparative-analysis-of-peking-ducks-spleen-gene-expression%C3%A2-24%C3%A2-h-post-infected-with-duck-plague-virulent-or-attenuated-virus
#7
Tian Liu, Anchun Cheng, Mingshu Wang, Renyong Jia, Qiao Yang, Ying Wu, Kunfeng Sun, Dekang Zhu, Shun Chen, Mafeng Liu, XinXin Zhao, Xiaoyue Chen
Duck plague virus (DPV), a member of alphaherpesvirus sub-family, can cause significant economic losses on duck farms in China. DPV Chinese virulent strain (CHv) is highly pathogenic and could induce massive ducks death. Attenuated DPV vaccines (CHa) have been put into service against duck plague with billions of doses in China each year. Researches on DPV have been development for many years, however, a comprehensive understanding of molecular mechanisms underlying pathogenicity of CHv strain and protection of CHa strain to ducks is still blank...
September 13, 2017: Veterinary Research
https://www.readbyqxmd.com/read/28901203/the-role-of-monocyte-percentage-in-osteoporosis-in-male-rheumatic-diseases
#8
Yu-Jih Su, Chao Tung Chen, Nai-Wen Tsai, Chih-Cheng Huang, Hung-Chen Wang, Chia-Te Kung, Wei-Che Lin, Ben-Chung Cheng, Chih-Min Su, Sheng-Yuan Hsiao, Cheng-Hsien Lu
Osteoporosis is easily overlooked in male patients, especially in the field of rheumatic diseases mostly prevalent with female patients, and its link to pathogenesis is still lacking. Attenuated monocyte apoptosis from a transcriptome-wide expression study illustrates the role of monocytes in osteoporosis. This study tested the hypothesis that the monocyte percentage among leukocytes could be a biomarker of osteoporosis in rheumatic diseases. Eighty-seven males with rheumatic diseases were evaluated in rheumatology outpatient clinics for bone mineral density (BMD) and surrogate markers, such as routine peripheral blood parameters and autoantibodies...
September 1, 2017: American Journal of Men's Health
https://www.readbyqxmd.com/read/28895840/crucial-role-for-t-cell-intrinsic-il-18r-myd88-signaling-in-cognate-immune-response-to-intracellular-parasite-infection
#9
Ana-Carolina Oliveira, João Francisco Gomes-Neto, Carlos-Henrique Dantas Barbosa, Alessandra Granato, Bernardo S Reis, Bruno Maia Santos, Rita Fucs, Fábio B Canto, Helder I Nakaya, Alberto Nóbrega, Maria Bellio
MyD88 is the main adaptor molecule for TLR and IL-1R family members. Here, we demonstrated that T-cell intrinsic MyD88 signaling is required for proliferation, protection from apoptosis and expression of activation/memory genes during infection with the intracellular parasite Trypanosoma cruzi, as evidenced by transcriptome and cytometry analyses in mixed bone-marrow (BM) chimeras. The lack of direct IL-18R signaling in T cells, but not of IL-1R, phenocopied the absence of the MyD88 pathway, indicating that IL-18R is a critical MyD88-upstream pathway involved in the establishment of the Th1 response against an in vivo infection, a presently controvert subject...
September 12, 2017: ELife
https://www.readbyqxmd.com/read/28889014/transcriptomic-and-morphological-analyses-of-litopenaeus-vannamei-intestinal-barrier-in-response-to-vibrio-paraheamolyticus-infection-reveals-immune-response-signatures-and-structural-disruption
#10
Cancan Qi, Lei Wang, Mei Liu, Keyong Jiang, Mengqiang Wang, Wei Zhao, Baojie Wang
The white shrimp Litopenaeus vannamei has been greatly impacted by Vibrio infection. In this study, we investigated the intestinal barrier response of L vannamei following challenge with Vibrio parahaemolyticus E1, by examining morphological changes and transcriptome expression levels. A total of 16,4420 unigenes were obtained from RNAseq data after quality control and assembly, and 4646 differentially expressed genes (DEGs) were identified following Vibrio challenge, of which 2469 unigenes were significantly up-regulated and 2177 were significantly down-regulated...
September 6, 2017: Fish & Shellfish Immunology
https://www.readbyqxmd.com/read/28886691/impaired-response-of-the-bronchial-epithelium-to-inflammation-characterizes-severe-equine-asthma
#11
Laurence Tessier, Olivier Côté, Mary Ellen Clark, Laurent Viel, Andrés Diaz-Méndez, Simon Anders, Dorothee Bienzle
BACKGROUND: Severe equine asthma is a naturally occurring lung inflammatory disease of mature animals characterized by neutrophilic inflammation, bronchoconstriction, mucus hypersecretion and airway remodeling. Exacerbations are triggered by inhalation of dust and microbial components. Affected animals eventually are unable of aerobic performance. In this study transcriptomic differences between asthmatic and non-asthmatic animals in the response of the bronchial epithelium to an inhaled challenge were determined...
September 8, 2017: BMC Genomics
https://www.readbyqxmd.com/read/28886272/expression-of-sesn1-uhrf1bp1-and-mir-377-3p-as-prognostic-markers-in-mutated-tp53-squamous-cell-carcinoma-of-the-head-and-neck
#12
Mariama El Baroudi, Jean-Pascal Machiels, Sandra Schmitz
The tumor suppressor gene TP53 is the most frequently mutated gene in human papillomavirus (HPV)-negative head and neck squamous cell carcinoma (HNSCC). It represents a known transcription factor that controls different microRNAs (miRNA) and target genes involved in the regulation of cellular stress, apoptosis and response to DNA damage. We used The Cancer Genome Atlas database to investigate the difference in transcriptome and proteome levels between mutated and wild-type TP53 HPV-negative HNSCC. Using different databases and an extensive literature review, we built the transcriptional and post-transcriptional network regulated by TP53...
September 8, 2017: Cancer Biology & Therapy
https://www.readbyqxmd.com/read/28885630/from-direct-to-indirect-lithium-targets-a-comprehensive-review-of-omics-data
#13
REVIEW
Magali Roux, Anthony Dosseto
Metal ions are critical to a wide range of biological processes. Among them, lithium (Li) has been recognised for its benefit as a treatment for bipolar disorder (BD). However, we are yet to grasp the extent of its role in biological processes, despite its molecular targets having been extensively studied. Here we review a wide range of transcriptomic, proteomic and metabolomic studies in order to obtain a full picture of Li effects at various levels. Multifarious patterns of Li-regulated genes, proteins and metabolites are identified...
September 8, 2017: Metallomics: Integrated Biometal Science
https://www.readbyqxmd.com/read/28882999/mir-193b-regulated-signaling-networks-serve-as-tumor-suppressors-in-liposarcoma-and-promote-adipogenesis-in-adipose-derived-stem-cells
#14
Ying Z Mazzu, Yulan Hu, Rajesh K Soni, Kelly M Mojica, Li-Xuan Qin, Phaedra Agius, Zachary M Waxman, Aleksandra Mihailovic, Nicholas D Socci, Ronald C Hendrickson, Thomas Tuschl, Samuel Singer
Well-differentiated and dedifferentiated liposarcomas (WDLS/DDLS) account for approximately 13% of all soft tissue sarcoma in adults and cause substantial morbidity or mortality in the majority of patients. In this study, we evaluated the functions of miRNA (miR-193b) in liposarcoma in vitro and in vivo. Deep RNA sequencing on 93 WDLS, 145 DDLS and 12 normal fat samples demonstrated that miR-193b was significantly underexpressed in DDLS compared to normal fat. Re-introduction of miR-193b induced apoptosis in liposarcoma cells and promoted adipogenesis in human adipose-derived stem cells (ASC)...
September 7, 2017: Cancer Research
https://www.readbyqxmd.com/read/28881576/inhibition-of-pi3k-akt-mtor-signaling-in-pi3kr2-overexpressing-colon-cancer-stem-cells-reduces-tumor-growth-due-to-apoptosis
#15
Sugong Chen, Robert C Fisher, Steven Signs, L Alex Molina, Anitha K Shenoy, Maria-Cecilia Lopez, Henry V Baker, John M Koomen, Yi Chen, Haley Gittleman, Jill Barnholtz-Sloan, Annamarie Berg, Henry D Appelman, Emina H Huang
In sporadic colon cancer, colon cancer stem cells (CCSCs) initiate tumorigenesis and may contribute to late disease recurrences and metastases. We previously showed that aldehyde dehydrogenase (ALDH) activity (as indicated by the ALDEFLUOR(®) assay) is an effective marker for highly enriching CCSCs for further evaluation. Here, we used comparative transcriptome and proteome approaches to identify signaling pathways overrepresented in the CCSC population. We found overexpression of several components of the phosphoinositide 3-kinase (PI3K)/Akt/mechanistic target of rapamycin (mTOR) signaling pathway, including PI3KR2, a regulatory subunit of PI3K...
August 1, 2017: Oncotarget
https://www.readbyqxmd.com/read/28879612/how-long-noncoding-rnas-enforce-their-will-on-mitochondrial-activity-regulation-of-mitochondrial-respiration-reactive-oxygen-species-production-apoptosis-and-metabolic-reprogramming-in-cancer
#16
REVIEW
Boel De Paepe, Steve Lefever, Pieter Mestdagh
The cellular transcriptome contains a wide diversity of untranslated RNAs, of which the class of regulatory long noncoding RNAs (lncRNAs) has only recently been recognized. Evidence swiftly accumulates of lncRNAs influencing mitochondrial activities of eukaryotic cells, and perturbed expression is conspicuously associated with human diseases. In this review, we describe the multifaceted effects of lncRNAs on mitochondrial function, more particularly on the balance between oxidative phosphorylation and glycolysis, on the production of reactive oxygen species, and on apoptosis in human cells...
September 6, 2017: Current Genetics
https://www.readbyqxmd.com/read/28878027/death-by-hdac%C3%A2-inhibition-in-synovial-sarcoma-cells
#17
Aimée N Laporte, Neal M Poulin, Jared J Barrott, Xiu Qing Wang, Alireza Lorzadeh, Ryan Vander Werff, Kevin B Jones, T Michael Underhill, Torsten O Nielsen
Conventional cytotoxic therapies for synovial sarcoma provide limited benefit, and no drugs specifically targeting the causative SS18-SSX fusion oncoprotein are currently available. Histone deacetylase (HDAC) inhibition has been shown in previous studies to disrupt the synovial sarcoma oncoprotein complex, resulting in apoptosis. To understand the molecular effects of HDAC inhibition, RNA-Seq transcriptome analysis was undertaken in six human synovial sarcoma cell lines. HDAC inhibition induced pathways of cell cycle arrest, neuronal differentiation and response to oxygen-containing species, effects also observed in other cancers treated with this class of drugs...
September 6, 2017: Molecular Cancer Therapeutics
https://www.readbyqxmd.com/read/28867293/global-inhibition-with-specific-activation-how-p53-and-myc-redistribute-the-transcriptome-in-the-dna-double-strand-break-response
#18
Joshua R Porter, Brian E Fisher, Laura Baranello, Julia C Liu, Diane M Kambach, Zuqin Nie, Woo Seuk Koh, Ji Luo, Jayne M Stommel, David Levens, Eric Batchelor
In response to stresses, cells often halt normal cellular processes, yet stress-specific pathways must bypass such inhibition to generate effective responses. We investigated how cells redistribute global transcriptional activity in response to DNA damage. We show that an oscillatory increase of p53 levels in response to double-strand breaks drives a counter-oscillatory decrease of MYC levels. Using RNA sequencing (RNA-seq) of newly synthesized transcripts, we found that p53-mediated reduction of MYC suppressed general transcription, with the most highly expressed transcripts reduced to a greater extent...
September 21, 2017: Molecular Cell
https://www.readbyqxmd.com/read/28864908/antitumor-activity-and-expression-profiles-of-genes-induced-by-sulforaphane-in-human-melanoma-cells
#19
Paola Arcidiacono, Francesco Ragonese, Anna Stabile, Alessandra Pistilli, Ekaterina Kuligina, Mario Rende, Ugo Bottoni, Stefano Calvieri, Andrea Crisanti, Roberta Spaccapelo
PURPOSE: Human melanoma is a highly aggressive incurable cancer due to intrinsic cellular resistance to apoptosis, reprogramming, proliferation and survival during tumour progression. Sulforaphane (SFN), an isothiocyanate found in cruciferous vegetables, plays a role in carcinogenesis in many cancer types. However, the cytotoxic molecular mechanisms and gene expression profiles promoted by SFN in human melanoma remain unknown. METHODS: Three different cell lines were used: two human melanoma A375 and 501MEL and human epidermal melanocytes (HEMa)...
September 1, 2017: European Journal of Nutrition
https://www.readbyqxmd.com/read/28863889/transcriptome-analysis-of-mytilus-coruscus-hemocytes-in-response-to-vibrio-alginnolyficus-infection
#20
Wenqiang Dong, Yongxia Chen, Weixiao Lu, Bin Wu, Pengzhi Qi
As an economically important bivalve, the Mytilus coruscus is cultured widely in the eastern coast of China. In recent years, this bivalve has been seriously affected by the pathogenic infections. To elucidate the host defense mechanisms of M. coruscus against pathogenic challenge, the hemocyte transcriptomes of M. coruscus before and after Vibrio alginnolyficus infection were analyzed using the deep-sequencing platform Illumina/HiSeq-2500, meanwhile the differentially expressed genes (DEGs) were investigated...
August 29, 2017: Fish & Shellfish Immunology
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