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TranscriptomicsUnprecedented alternative splicing and 3 Mb of novel transcribed sequence leads to significant transcript diversity in the transcriptome of the human retina
The mRNA repertoire is specific to a given tissue type. This specificity, whether it is in the levels of gene expression or the splicing pattern of the transcripts, is important to study to increase our general knowledge of transcription and alternative splicing, as well as to identify novel coding...
ORGANISM(S): Homo sapiens 
2013-07-30 | E-GEOD-40524 | biostudies-arrayexpress
TranscriptomicsComparative Analysis of RNA-Seq Alignment Algorithms and the RNA-Seq Unified Mapper (RUM).
A critical task in high throughput sequencing is aligning millions of short reads to a reference genome. Alignment is especially complicated for RNA sequencing (RNA-Seq) because of RNA splicing. A number of RNA-Seq algorithms are available, and claim to align reads with high accuracy and efficiency ...
ORGANISM(S): Mus musculus 
2011-08-03 | E-GEOD-26248 | biostudies-arrayexpress
MetabolomicsAn Unbiased Lipid Phenotyping Approach To Study the Genetic Determinants of Lipids and Their Association with Coronary Heart Disease Risk Factors
Direct infusion high-resolution mass spectrometry (DIHRMS) is a novel, high-throughput approach to rapidly and accurately profile hundreds of lipids in human serum without prior chromatography, facilitating in-depth lipid phenotyping for large epidemiological studies to reveal the detailed associati...
2024-02-02 | MTBLS4461 | MetaboLights
ProteomicsIntegrated proteomics-based physical and functional mapping of AXL kinase signaling pathways and inhibitors define its role in cell migration: ABPP
To better understand the signaling complexity of AXL, a member of the TAM family of receptor tyrosine kinases, we created a physical and functional map of AXL signaling interactions, phosphorylation events, and target-engagement of three AXL tyrosine kinase inhibitors (TKI). We assessed AXL protein-...
ORGANISM(S): Homo sapiens (Human) 
2022-10-14 | PXD023913 | Pride
Abpp Lung cancer Targeted therapy Axl tyrosine kinase 
ProteomicsProteogenomic Landscape of Squamous Cell Lung Cancer 2: Tandem Mass Tag Datasets
We report an integrated analysis incorporating DNA copy number analyses, somatic exon mutations, mRNA expression via RNA-sequencing, and shotgun mass spectrometry analysis of protein abundance in 108 surgically resected squamous cell lung cancers (SCC) with accompanying clinical outcome, evaluation ...
ORGANISM(S): Homo sapiens (Human) 
2019-05-24 | PXD010429 | Pride
Human Tmt Squamous cell carcinoma Lung cancer 
ProteomicsProteogenomic Landscape of Squamous Cell Lung Cancer 1: Digestion QC with DIA LC-MS/MS
We report an integrated analysis incorporating DNA copy number analyses, somatic exon mutations, mRNA expression via RNA-sequencing, and shotgun mass spectrometry analysis of protein abundance in 108 surgically resected squamous cell lung cancers (SCC) with accompanying clinical outcome, evaluation ...
ORGANISM(S): Homo sapiens (Human) 
2019-05-24 | PXD010357 | Pride
Human Dia Squamous cell carcinoma Lung cancer 
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