Exploring RNA Modifications with xPore: Visual summary of results report in pdf format
This report is the result of running a Quarto Markdown file designed for visualizing and analyzing xPore RNA modification data. It provides clear insights into RNA modifications across different experimental conditions, serving as both a visual and analytical reference for the study.
**Key sections include: **
- PCA plots before and after filtering
- Counts of k-mers at different filtering thresholds
- Gene- and transcript-level modification summaries
- Volcano plots for differential modification analysis
- Heatmaps and base-specific modification plots
The report helps interpret xPore outputs by summarizing key patterns and statistically significant modifications through informative visualizations.
SEEK ID: https://fairdomhub.org/data_files/7761?version=2
Filename:
Postprocessing_no_cov_filter.pdf
Format: PDF document
Size: 114 MB
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Creators and SubmitterViews: 27 Downloads: 6
Created: 8th Apr 2025 at 14:14
Last updated: 19th Dec 2025 at 13:01
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Version History
Version 4 (latest) Created 29th May 2025 at 21:47 by Ayat Ismail
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Version 3 Created 7th May 2025 at 15:08 by Ayat Ismail
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Version 2 Created 24th Apr 2025 at 08:31 by Ayat Ismail
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Version 1 (earliest) Created 8th Apr 2025 at 14:14 by Ayat Ismail
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Projects: Group Data Science, Methylation differences during respiratory infection, Implementation of Nanopore Sequencing for Detection of Treatment Induced Transcriptomic and Epitranscriptomic Changes in Leukaemic Tumour Models, OMICS of vascular smooth muscle cells under oxidative stress, Systems genetics of lung health and asthma (GWAS, PGS, QTL)
Institutions: Forschungszentrum Borstel
The FZB is the lung research center of the Leibniz Association and is therefore committed to the motto “theoria cum praxi”.
The FZB sees its scientific and socio-political task in basic, disease- and patient-oriented lung research and training in this field. The field of research includes chronic inflammatory diseases of the lung of infectious and non-infectious environmental and behavioral origin. Research focuses on tuberculosis, infections with non-tuberculous mycobacteria and other bacterial ...
Projects: Group Data Science, Group Microbial Interface Biology, Core Facility Fluorescence Cytometry, Targeting the immunoproteasome: Analyzing the biological effects of specific versus pan inhibition, Macrophage and neutrophil redox proteome in infection with Mycobacterium tuberculosis, Methylation differences during respiratory infection, Lipid droplet formation and dynamics in murine macrophages, OMICS of vascular smooth muscle cells under oxidative stress, Systems genetics of lung health and asthma (GWAS, PGS, QTL), Archaean stimulation of human primary PBMCs and PBMCs monocytes
Web page: https://fz-borstel.de
Programme: Research Center Borstel
Public web page: Not specified
Submitter: Ayat Ismail
Investigation: ONT direct RNA Sequencing
Assays: Comprehensive RNA Modification Analysis and Visualization
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
