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ProteomicsPan-cancer plasma proteome profiling using SIS recombinant protein fragments reveals downregulation of proteins interacting with immunoglobulins in multiple myeloma
Mass spectrometry based on Data Independent Acquisition (DIA) strategies has developed into powerful tools suitable for precision medicine applications. Assays performed in this setting provide confident protein identification and precise quantification on an absolute scale when combined with stable...
ORGANISM(S): Homo Sapiens 
PXD037946 | panorama
TranscriptomicsGene expression profiling of histone deacetylase inhibition in epithelioid sarcoma
Epithelioid Sarcoma (ES) is a rare neoplasm uniquely comprised of cells exhibiting both mesenchymal and epithelial features. Having propensity for local and distant recurrence, it can pose a diagnostic dilemma secondary to pathologic complexity. Patients have dismal prognosis due to lack of effectiv...
ORGANISM(S): Homo sapiens 
2015-11-03 | E-GEOD-66800 | biostudies-arrayexpress
GenomicsMedullo-PAN-GATC - samples
Exome controls for 70 individuals, PAN-GATC cohort, sequenced on Illumina machines from the paper "Germline Elongator mutations in Sonic Hedgehog medulloblastoma" (Waszak et al. 2020 Nature).
EGAD00001006661 | EGA
TranscriptomicsCharacterization of probiotic Escherichia coli isolates using a novel pangenome microarray
Background: Based on 32 Escherichia coli and Shigella genome sequences, we have developed an E. coli pan-genome microarray. Publicly available genomes were annotated in a consistent manor to define all currently known genes potentially present in the species. The chip design was evaluated by hybridi...
ORGANISM(S): Escherichia coli 
2010-05-26 | E-GEOD-8595 | biostudies-arrayexpress
MetabolomicsMetabolic profiling of rheumatoid arthritis neutrophils reveals altered energy metabolism that is not affected by JAK inhibition
Neutrophils play a key role in the pathophysiology of rheumatoid arthritis (RA) where release of ROS and proteases directly causes damage to joints and tissues. Neutrophil function is directly affected by Janus Kinase (JAK) inhibitor drugs, including tofacitinib and baricitinib, which are clinically...
2023-07-11 | MTBLS4766 | MetaboLights
ProteomicsThe Pan-Human Library: A repository of assays to quantify 10 000 proteins by SWATH-MS
The â??Pan-Human Libraryâ?? is a compendium of highly specific assays covering more than 10 000 human proteins and enabling their targeted analysis in SWATH-MS datasets acquired from research or clinical specimens.
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2016-03-16 | MSV000079593 | MassIVE
TranscriptomicsTranscription profiling of C. elegans specific cells from the nervous system.
Background: With its fully sequenced genome and simple, well-defined nervous system, the nematode C. elegans offers a unique opportunity to correlate gene expression with neuronal differentiation. The lineal origin, cellular morphology and synaptic connectivity of each of the 302 neurons are known....
ORGANISM(S): Caenorhabditis elegans 
2008-06-15 | E-GEOD-8004 | biostudies-arrayexpress
TranscriptomicsKc167 MCM Localization
modENCODE_submission_675 This submission comes from a modENCODE project of David MacAlpine. For full list of modENCODE projects, see http://www.genome.gov/26524648 Project Goal: We will precisely identify sequence elements that direct DNA replication by using chromatin immunoprecipitation of known r...
ORGANISM(S): Drosophila melanogaster 
2010-05-15 | E-GEOD-17283 | biostudies-arrayexpress
TranscriptomicsGene expression profiling of Follicular Lymphoma (FL) cultured in the presence or absence of the Follicular Dendritic Cell (FDC) line HK
Cells from 2 FL patients and 1 FL cell line were cultured for up to 48h, with no stroma or on top of HK cells pre-establised layers. RNA from FL cells was isolated after 24 and 48h of culture The aim of this study was to uncover the molecular mechanisms underlying the FL-FDC crosstalk Global RNA exp...
ORGANISM(S): Homo sapiens 
2014-08-04 | E-GEOD-54158 | biostudies-arrayexpress
GenomicsMCM KC-167 ChIP-Seq experiment
modENCODE_submission_2783 This submission comes from a modENCODE project of David MacAlpine. For full list of modENCODE projects, see http://www.genome.gov/26524648 Project Goal: We will precisely identify sequence elements that direct DNA replication by using chromatin immunoprecipitation of known ...
ORGANISM(S): Drosophila melanogaster 
2010-03-16 | E-GEOD-20890 | biostudies-arrayexpress
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