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MetabolomicsIntegrative of Single-Cell RNA Sequencing and Metabolomics Decipher the Imbalanced Lipid-Metabolism in Maladaptive Immune Responses during Sepsis
To identify differentially expressed lipid metabolism-related genes (DE-LMRGs) responsible for immune dysfunction in sepsis. Machine learning algorithms were applied for screening hubgenes related to lipid metabolism. CIBERSORT and Single-sample GSEA were employed for assessing the immune cell infil...
2024-09-26 | MTBLS7315 | MetaboLights
MetabolomicsFIRST-seq: a nanopore-based cDNA sequencing platform for RNA modification and structure profiling

This repository contains the LC-MS/MS raw data for the RNA quantifications obtained from in vivo DMS probed RNAs from E.coli and MDA-MB231 cell lines.

2026-04-26 | MTBLS14382 | MetaboLights
MetabolomicsSingle-cell RNA sequencing decipher hepatic injury and APOA4 as a biomarker in males with intrauterine growth restriction

Intrauterine growth restriction (IUGR) is associated with increased relative liver weight at birth, hepatic function decline and a higher risk for chronic liver and cardiovascular diseases in adults. Precise mechanisms of early developmental plasticity to intervene in poor fetal programming and a...

2023-09-25 | MTBLS6881 | MetaboLights
TranscriptomicsTranscriptome Profiling of Developing Murine Lens through RNA Sequencing
Purpose: Transcriptome is the entire repertoire of all transcripts present in a cell at any particular time. We undertook next-generation whole transcriptome sequencing approach to gain insight of the transcriptional landscape of the developing mouse lens. Methods: We ascertained mice lenses at six ...
ORGANISM(S): Mus musculus 
2015-10-29 | E-GEOD-69221 | biostudies-arrayexpress
TranscriptomicsCharacterization of the platelet transcriptome by RNA sequencing in patients with acute myocardial infarction.
Recent technological advances have made transcriptome sequencing (RNA-seq) possible in cells with low RNA copy number including platelets. Resulting studies have used RNA-seq in platelets isolated from healthy individuals to characterize the platelet transcriptome. However, platelets, possibly throu...
ORGANISM(S): Homo sapiens 
2015-09-15 | E-GEOD-65705 | biostudies-arrayexpress
TranscriptomicsDeep-sequencing influences the results obtained in small-RNA sequencing
This study presents a comparison of small RNA sequencing libraries generated from the same cell lines but using different sequencing platforms and protocols. The samples were analyzed and compared at the level of miRNAs expression and as a population of small RNAs derived from repetitive elements. D...
ORGANISM(S): Mus musculus 
2012-03-01 | E-GEOD-35368 | biostudies-arrayexpress
TranscriptomicsHigh-resolution transcriptome analysis with long-read RNA sequencing
Ongoing improvements to next generation sequencing technologies are leading to longer sequencing read lengths, but a thorough understanding of the impact of longer reads on RNA sequencing analyses is lacking. To address this issue, we generated and compared two RNA sequencing datasets of differing r...
ORGANISM(S): Homo sapiens 
2014-09-25 | E-GEOD-57862 | biostudies-arrayexpress
TranscriptomicsDeep RNA Sequencing Reveals Dynamic Regulation of Myocardial Noncoding RNA in Failing Human Heart and Remodeling with Mechanical Circulatory Support
Complete transcriptome profiling in human failing and non-failing control hearts using next-gen sequencing Poly-A selected RNA and small RNA sequencing carried out in 5 groups of samples: NF, ICM, NICM, ICM+LVAD, NICM+LVAD
ORGANISM(S): Homo sapiens 
2014-02-10 | E-GEOD-46224 | biostudies-arrayexpress
TranscriptomicsAnalysis and expansion of the eosinophilic esophagitis transcriptome by RNA sequencing
We utilized RNA sequencing to expand and better define the molecular entities involved in the transcriptional programming within the eosphagus in eosinophilic esophagitis (EoE) Examination of differentially expressed genes from RNA sequencing data performed on esophageal biopsy specimen from 6 healt...
ORGANISM(S): Homo sapiens 
2014-06-27 | E-GEOD-58640 | biostudies-arrayexpress
ProteomicsIntegrated with Proteome-sequencing, bulk RNA-sequencing and Single cell RNA-sequencing to identify potential biomarkers in different grades of intervertebral disc degeneration
We selected humann intervertebral disc samples to perform proteomics analysis. There were 1 case of grade I , 1 case of grade II, 3 cases of grade Ⅲ and 3 cases of grade Ⅳ according to Pfirrmann classfication. RNA seqencing analysis and single-cell RNA sequencing were integrated with proteomics data...
ORGANISM(S): Homo sapiens (Human) 
2023-05-10 | PXD040593 | Pride
Intervertebral disc degeneration Proteome-sequencing 
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