Oligonucleotide Fragmentation Data from Multiple Ion Activation Experiments

Experimental data from ion activation experiments performed on a timsOmni mass spectrometer for oligonucleotide analysis. The dataset, authored by Frédéric Rosu and last updated in April 2026, compares fragmentation results from techniques including resonance collision-induced dissociation, electron detachment dissociation, and laser photodissociation. It includes analysis of standard sequences, the therapeutic oligonucleotide Fomivirsen, and longer 46-mer DNA and RNA strands.

Use Cases

• Comparing the effectiveness of different ion activation techniques (RCID, EDD, IRMPD, UVPD) based on the described experimental results.
• Benchmarking sequence coverage for oligonucleotide therapeutics like Fomivirsen based on the fragmentation analysis mentioned.
• Studying the generation of specific fragment ions (a•, d, z•, w) from electron detachment dissociation as described in the MS4 experiments.
• Evaluating multi-stage activation combinations (e.g., EDD-RCID, EDD-IRMPD) for sequencing longer oligonucleotides based on the 46-mer analysis.

Strengths

• Includes data from four distinct activation methods (RCID, EDD, IRMPD, UVPD) allowing for direct comparison.
• Covers a range of oligonucleotide lengths, from a 6-mer standard to a 46-mer DNA/RNA, as stated in the description.
• Demonstrates advanced multi-stage experiments (MS3, MS4) for validating fragmentation pathways.

Limitations

• Column-level documentation is absent; field semantics must be inferred after download.
• Row count is unknown, which may limit suitability assessment.
• The dataset is small (960.5 KB), indicating a limited experimental scope.

Provenance

Source

Figshare

Collection Method

Experimental data from mass spectrometry analysis on a timsOmni platform with an integrated Omnitrap.

Time Range

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Freshness

Last updated 2026-04-30 14:33:29; freshness should be verified.

Geography

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