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ProteomicsCOPZ1 depletion in thyroid tumor cells triggers type-I IFN response and immunogenic cell death
Thyroid carcinoma (TC) is generally associated with good prognosis, nevertheless no effective treatments are available for aggressive forms not cured by current therapies. We previously identified the coatomer protein complex zeta 1 (COPZ1), as a new putative therapeutic target for TC, since its dep...
ORGANISM(S): Homo sapiens (Human) 
2020-03-05 | PXD014423 | Pride
Proteomics  nano lc-ms-ms  tumor 
TranscriptomicsTranscription profiling of human 27 non-labored normal preterm and 9 non-labored normal term basal plate samples to investigate gene expression at the human maternal-fetal interface
Microarray analysis to globally assess gene expression at the maternal-fetal interface Experiment Overall Design: 27 non-labored normal preterm and 9 non-labored normal term basal plate samples were analyzed on Affymetrix U133 chips using established protocols. The gene expression profile of prete...
ORGANISM(S): Homo sapiens 
2008-11-07 | E-GEOD-5999 | biostudies-arrayexpress
TranscriptomicsOncogenic BRAF regulates oxidative metabolism via PGC1alpha and MITF
We evaluated two matched human cell lines derived from primary melanocytes, termed pmel+BRAF(V600E) and pmel+BRAF(V600E)+MITF. These cells are therefore isogenic with the exception of the expression of MITF. Gene Set Enrichment Analysis of microarray data identified a highly significant induction of...
ORGANISM(S): Homo sapiens 
2013-03-07 | E-GEOD-38007 | biostudies-arrayexpress
TranscriptomicsRMA expression data for liver samples from subjects with HCV cirrhosis with and without concomitant HCC
In this study, we used the Affymetrix HG-U133A 2.0 GeneChip for deriving a multigenic classifier capable of predicting HCV+cirrhosis with vs without concomitant HCC. We studied gene expression in cirrhotic tissues with (N=16) and without (N=47) HCC. Keywords: cross-sectional Liver tissue samples we...
ORGANISM(S): Homo sapiens 
2009-09-11 | E-GEOD-17967 | biostudies-arrayexpress
MetabolomicsWhat CHO is made of: Variations in the biomass composition of Chinese hamster ovary cell lines

Background: Cell line specific, genome-scale metabolic models enable rigorous and systematic in silico investigation of cellular metabolism. Such models have recently become available for Chinese hamster ovary (CHO) too. However, a key ingredient, namely an experimentally validat...

2020-07-13 | MTBLS1210 | MetaboLights
MetabolomicsCascading effects of root microbial symbiosis on the development and metabolome of the insect herbivore Manduca sexta L

Root mutualistic microbes can modulate the production of plant secondary metabolites affecting plant–herbivore interactions. Still, the main mechanisms underlying the impact of root mutualists on herbivore performance remain ambiguous. In particular, little is known about how changes in the plant...

2023-09-12 | MTBLS2700 | MetaboLights
TranscriptomicsA phase II trial of weekly nab-paclitaxel for progressive and symptomatic desmoid tumors
The uploaded datasets contains raw data from our research: columns represent patients, rows represent meta data (patients response, type of sarcoma, etc ...) + the raw gene counts.
ORGANISM(S): Homo sapiens 
2022-09-01 | E-MTAB-12163 | biostudies-arrayexpress
TranscriptomicsTGF-beta-mediated microRNA expression in breast cancer cells
We utilized 3D-organotypic cultures whose physical properties were altered by inclusiong of type I collagen to create biomechanically rigid microenvironments that approximated those typically observed in primary mammary tumors. Compliant 3D-organotypic cultures were also generated to recapitulate t...
ORGANISM(S): Mus musculus 
2012-10-31 | E-GEOD-41274 | biostudies-arrayexpress
ProteomicsEnhanced Proteomic Mapping of Arginine Methylation Using Electron Transfer Dissociation Reveals Novel PRMT5 Substrates and Arginine Trimethylation
PRMT5 is the major enzyme that catalyzes the symmetric dimethylation of arginine (sDMA) in mammalian cells. Its activity is crucial for many biological processes including transcriptional regulation, mRNA processing, as well as DNA damage and repair. However, the protein substrates identified for PR...
ORGANISM(S): Homo sapiens (Human) 
2024-04-30 | PXD037425 | Pride
Prmt5 Etd Methylation Proteomics 
TranscriptomicsExpression profiling of microRNAs in primary melanocytes
DICER is a central regulator of microRNA maturation. However little is known about mechanisms regulating its expression in development or disease. While profiling miRNA expression in differentiating melanocytes, two populations were observed: some upregulated at the pre-miRNA stage, and others upre...
ORGANISM(S): Homo sapiens 
2010-04-15 | E-GEOD-21249 | biostudies-arrayexpress
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