Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

A5dda9c7-9e0d-4a79-97e5-3d689254d861 - samples

ABSTRACT: Nasal epithelial cells of PCD and non-PCD patients grown at air-liquid interface for RNAseq analysis. A total of 10 non-PCD patients (ALI day 14), 9 non-PCD patients (ALI day 21), 8 non-PCD patients (ALI day 28), 4 PCD patients (ALI day 14, day 21 and day 28), and 23 PCD patients (ALI day 21). Non-PCD patients and the 4 PCD patients on the three ALI days were sequenced at a depth of 100M reads, the remaining 23 PCD patients were sequenced at a depth of 70M. Overall sequencing design was rRNA depletion and 150bp paired-end.

PROVIDER: EGAD00001009498 | EGA |

REPOSITORIES: EGA

ACCESS DATA

Json Xml

Similar Datasets

Nasal epithelial cells of PCD and non-PCD patients grown at air-liquid interface for RNAseq analysis

Project description:Raw RNAseq data files of genetically unsolved PCD patients used for transcriptomic analysis aming to uplift the diagnostic rate. The non-PCD patients were used as a clinical comparator to the PCD patients. Majority of the nasal epithelial cells used for RNAseq were cultured at an air-liquid interface for 21 days, unless the data file name indicates a different air-liquid-culture time-point.

| EGAS00001006632 | EGA

Longitudinal analysis of developing neointimal vascular proliferation and pulmonary hypertension in rats

Project description:6 timepoints: Day 0 (normal controls), progressively developing neointimal vascular proliferation and pulmonary hypertension in vehicle treated animals (Days 14, 21, 28 and 35) and triptolide-treated animals at Day 35. Replicates: 6 for Day 0 (normal) 2 for Daty 14 3 each for Days 21, 28, 35 and Triptolide -treated at day 35 (T) Keywords: time-course

2003-12-02 | GSE843 | GEO

Reversible and irreversible PAH in a rat model for MCT+Shunt-induced PAH and hemodynamic unloading.

Project description:PAH was induced by 60mg/kg MCT and an aorto-caval shunt. At different timepoints of PAH progression (day 14, 21 and 28 after MCT-injection), the left lung with PAH was hemodynamically unloading by unilateral orthotopic transplatation into a syngeneic, healthy recipient. All day 14 and 7/10 day 21 transplanted lungs showed reversal of PAH after LTx. All day 28 and 3/10 day 21 transplanted lungs showed PAH progression after LTx. Lung tissue of Reversible and Irreversible PAH and normal controls, acquired at LTx, was compared using RNA-seq.

2020-07-01 | GSE149899 | GEO

Analysis of temporal gene expression responses during TNBS-induced colitis development

Project description:To obtain insight into the complex traits underlying the local pathophysiological response to the repeated colitis inductions with TNBS, whole genome gene expression was performed on RNA isolated from the distal colon tissue of 5 mice/timepoint Total RNA obtained from isolated from the distal colon of TNBS colitis mice (isolated on day 9, 14, 16, 21, 23, and 28) was compared to those healthy control mice

2013-07-08 | E-GEOD-35609 | biostudies-arrayexpress

Longitudinal analysis of developing neointimal vascular proliferation and pulmonary hypertension in rats

2010-06-05 | E-GEOD-843 | biostudies-arrayexpress

Bleomycin model of fibrosis and resolution phase in old and young mice

Project description:Bleomycin-induced pulmonary fibrosis in mice mimics major hallmarks of idiopathic pulmonary fibrosis, yet in this model it spontaneously resolves over time. We studied molecular mechanisms of fibrosis resolution and lung repair, focusing on transcriptional and proteomic signatures and the effect of aging. Young (3 months) and old (21 months) mice were treated with Bleomycin or with control saline solution and analyzed transcript and protein expression over 8 weeks (Day 0, 14, 21, 28, 35, 42, 49, 56).

2023-08-09 | PXD041050 | Pride

Whole blood microRNA expression profiles in human non-small cell lung adenocarcinoma

Project description:Fifth generation Exiqon® locked nucleic acid miRCURY™ LNA microarrays were used to profile the expression of microRNAs in whole blood of patients with non-small cell lung adenocarcinoma and of clinically relevant controls without the disease. Total RNA was isolated from whole blood of 22 cases and 23 controls. Sample RNA was labeled with the Cy3-like Hy3™ dye, mixed with a human universal reference RNA labeled with the Cy5-like Hy5™ dye, and hybridized to two-color miRCURY™ arrays from Exiqon®. - Disease: Lung adenocarcinoma: samples 1, 2, 3, 4, 5, 6, 7, 8, 10, 11, 12, 13, 14, 16, 17, 18, 20, 21, 22, 23, 24, 25 - Disease: No cancer: samples 26, 27, 28, 29, 30, 31, 32, 33, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49

2011-05-20 | E-GEOD-27486 | biostudies-arrayexpress

Quantitative bile acids study on total murine liver tissue from mice at different age

Project description:Bile acids in total liver tissue from healthy C57BL/6 mice at 1, 7, 14, 21, 28 and 56 day after birth was analyzed.

2020-06-01 | ST001388 | MetabolomicsWorkbench

Transcription profiling of human tumours at baseline and after 21 days of treatment with sorafenib and dacarbazine

Project description:Background New approaches are needed to improve prognostic accuracy for treatment response and to explore the complexities of drug effects on human tumours. We developed a strategy of global genomic investigation of sequential tumor biopsies at baseline and 21 days post-treatment, and applied this approach in a phase I study of sorafenib plus dacarbazine in patients with solid tumours. Methods 23 patients received 21-day cycles of oral sorafenib, 400 mg twice daily and dacarbazine, 1000 mg/m2 by 1-h intravenous infusion on day 1. Efficacy was assessed using response evaluation criteria in solid tumours. Differential gene expression was assessed through genomic microarray analysis of biopsy tissue from the same tumour at baseline and on day 21. Seven parameters characterizing vascularisation using dynamic enhanced-contrast ultrasonography (DCE-US) were assessed. Changes from baseline in the two parameters were characterized for patients with and without a clinical response to treatment at 3 months.Findings 23 patients were evaluable for efficacy and 17 for gene expression and DCE-US analyses. One patient had a partial response; 14 had stable disease. Genomic analyses identified a 247-gene signature that distinguished progressors from nonprogressors at 3 months. Expression of four genes was significantly associated with progression at 3 months. Functional parameters of DCE-US representing blood volume at baseline, day 8, and day 21 correlated with 3-month disease progression status.Interpretation This novel approach of sequential investigations in a phase I trial was feasible, detecting early changes in gene expression and tumour vascularity that may be predictive of clinical outcome.

2010-07-31 | E-TABM-760 | biostudies-arrayexpress

Quantitative amino acids and biogenic amines study on total murine liver tissue from mice at different age

Project description:Amino acids and biogenic amines in total liver tissue from healthy C57BL/6 mice at 1, 7, 14, 21, 28 and 56 day after birth was analyzed.

2020-06-02 | ST001389 | MetabolomicsWorkbench

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data