Assays

What is an Assay?

11 Assays visible to you, out of a total of 11

Differential protein level anaylsis (C3 vs. C4)

OMICS of vascular smooth muscle cells under oxidative stress

Cell line: Human aortic smooth muscel cells (Thermo Fisher Scientific, C-007-5C, LOT: 2164581)

Technical replicates: n=4 per condition

Conditions: C3 = TGFB1-treated SMCs C4 = PDGF-BB/IL1B-treated SMCs

Submitter: Tobias Reinberger

Biological problem addressed: Model Analysis Type

Investigation: Proteomic investigation of smooth muscle cells ...

Study: Protein quantification using mass spectrometry

Organisms: No organisms

Models: No Models

SOPs: No SOPs

Data files: Summary statistics - differenital analysis

Snapshots: No snapshots

Created: 18th Jun 2025 at 10:05, Last updated: 19th Dec 2025 at 13:08

Raw maxLFQ protein intensities (C3 vs. C4)

OMICS of vascular smooth muscle cells under oxidative stress

Cell line: Human aortic smooth muscel cells (Thermo Fisher Scientific, C-007-5C, LOT: 2164581)

Technical replicates: n=4 per condition

Conditions: C3 = TGFB1-treated SMCs C4 = PDGF-BB/IL1B-treated SMCs

Submitter: Tobias Reinberger

Assay type: Experimental Assay Type

Technology type: Mass Spectrometry

Investigation: Proteomic investigation of smooth muscle cells ...

Study: Protein quantification using mass spectrometry

Organisms: No organisms

SOPs: No SOPs

Data files: maxLFQ protein intensity data

Snapshots: No snapshots

Created: 18th Jun 2025 at 09:12, Last updated: 19th Dec 2025 at 13:08

Comparison C3-C5

OMICS of vascular smooth muscle cells under oxidative stress

No description specified

Submitter: Inken Wohlers

Biological problem addressed: Model Analysis Type

Investigation: Illumina RNA Sequencing

Study: Differential Expression

Organisms: No organisms

Models: No Models

SOPs: No SOPs

Data files: Workflow key results C3-C5

Snapshots: No snapshots

Created: 24th Apr 2025 at 13:27, Last updated: 19th Dec 2025 at 13:02

Comparison C3-C1

OMICS of vascular smooth muscle cells under oxidative stress

No description specified

Submitter: Inken Wohlers

Biological problem addressed: Model Analysis Type

Investigation: Illumina RNA Sequencing

Study: Differential Expression

Organisms: No organisms

Models: No Models

SOPs: No SOPs

Data files: Workflow key results C3-C1

Snapshots: No snapshots

Created: 24th Apr 2025 at 07:05, Last updated: 19th Dec 2025 at 13:02

Comparison C3-C2

OMICS of vascular smooth muscle cells under oxidative stress

No description specified

Submitter: Inken Wohlers

Biological problem addressed: Model Analysis Type

Investigation: Illumina RNA Sequencing

Study: Differential Expression

Organisms: No organisms

Models: No Models

SOPs: No SOPs

Data files: Workflow key results C3-C2

Snapshots: No snapshots

Created: 24th Apr 2025 at 13:20, Last updated: 19th Dec 2025 at 13:02

Comparison C3-C4

OMICS of vascular smooth muscle cells under oxidative stress

No description specified

Submitter: Inken Wohlers

Biological problem addressed: Model Analysis Type

Investigation: Illumina RNA Sequencing

Study: Differential Expression

Organisms: No organisms

Models: No Models

SOPs: No SOPs

Data files: Workflow key results C3-C4

Snapshots: No snapshots

Created: 24th Apr 2025 at 13:21, Last updated: 19th Dec 2025 at 13:02

Expression profiling with heatmaps and PCA

OMICS of vascular smooth muscle cells under oxidative stress

No description specified

Submitter: Inken Wohlers

Biological problem addressed: Model Analysis Type

Investigation: Illumina RNA Sequencing

Study: Transcriptome profiling

Organisms: No organisms

Models: No Models

SOPs: No SOPs

Data files: Quarto document with R code for transcriptome p...

Snapshots: No snapshots

Created: 23rd Apr 2025 at 20:51, Last updated: 19th Dec 2025 at 13:02

Comparison of all conditions (C1,C2,C3,C4,C5)

OMICS of vascular smooth muscle cells under oxidative stress

No description specified

Submitter: Inken Wohlers

Biological problem addressed: Model Analysis Type

Investigation: Illumina RNA Sequencing

Study: Differential Expression

Organisms: No organisms

Models: No Models

SOPs: No SOPs

Data files: Workflow key results all conditions (C1,C2,C3,C...

Snapshots: No snapshots

Created: 23rd Apr 2025 at 21:20, Last updated: 19th Dec 2025 at 13:02

Comparison C2-C1

OMICS of vascular smooth muscle cells under oxidative stress

No description specified

Submitter: Inken Wohlers

Biological problem addressed: Model Analysis Type

Investigation: Illumina RNA Sequencing

Study: Differential Expression

Organisms: No organisms

Models: No Models

SOPs: No SOPs

Data files: Workflow key results C2-C1

Snapshots: No snapshots

Created: 24th Apr 2025 at 06:48, Last updated: 19th Dec 2025 at 13:02

Differential gene expression and pathway enrichment using Deseq2

OMICS of vascular smooth muscle cells under oxidative stress

No description specified

Submitter: Ayat Ismail

Biological problem addressed: Model Analysis Type

Investigation: ONT direct RNA Sequencing

Study: Differential transcript expression analysis

Organisms: No organisms

Models: No Models

SOPs: No SOPs

Data files: All figures in PDF form, C3 vs Others – DESeq2 reproducible conda workflow, DESeq2 condition based analysis, DESeq2_DE_Transcript_Lists.csv, DiffExp and pathway enrichment report.pdf, Input files

Snapshots: No snapshots

Created: 12th Feb 2025 at 11:37, Last updated: 19th Dec 2025 at 13:01

Comprehensive RNA Modification Analysis and Visualization

OMICS of vascular smooth muscle cells under oxidative stress

Majority direction kmer data files were used for the analysis. e.g: results/analysed_icg/xpore_cdna.all/diffmod_s1-s2/majority_direction_kmer_diffmod.table. which has been renamed to : s1_s2.table as uploaded here.

Submitter: Ayat Ismail

Biological problem addressed: Model Analysis Type

Investigation: ONT direct RNA Sequencing

Study: RNA modification detection

Organisms: No organisms

Models: No Models

SOPs: No SOPs

Data files: Exploring RNA Modifications with xPore: Visual ..., Filtered xPore RNA Modification Data and Summar..., vsmc-omics-postprocessing_quarto-renv-inputdata, xPore Input Data Tables, xPore Postprocessing Visualization Code (Quarto), xPore RNA Modification Analysis: Visualization ...

Snapshots: No snapshots

Created: 12th Feb 2025 at 11:34, Last updated: 19th Dec 2025 at 13:01

(v.1.17.2)

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