Assays

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

All Metadata

MIT SRP

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: MIT SRP

Study: DNA adduct and mutational profiles reveal the s...

Organisms: No organisms

SOPs: No SOPs

Data files: All_Metadata - NG Drinking Water.xlsx

Snapshots: No snapshots

Created: 9th Dec 2025 at 17:08, Last updated: 9th Dec 2025 at 17:09

Mutational Spectra Analysis - Data Linked

MIT SRP

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: MIT SRP

Study: DNA adduct and mutational profiles reveal the s...

Organisms: No organisms

SOPs: P.ESS-251028-V1_NG_6-DuplexDNA.docx, P.ESS-251028-V1_NG_7-NGS_Analysis

Data files: Musp_matrix-NG-drinkingwater.csv

Snapshots: No snapshots

Created: 30th Oct 2025 at 14:58, Last updated: 9th Dec 2025 at 17:08

Short Read Sequencing - Data Linked

MIT SRP

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: MIT SRP

Study: DNA adduct and mutational profiles reveal the s...

Organisms: No organisms

SOPs: P.ESS-251028-V1_NG_6-DuplexDNA.docx

Data files: No Data files

Snapshots: No snapshots

Created: 30th Oct 2025 at 14:58, Last updated: 24th Nov 2025 at 17:59

DNA Extraction - Metadata

MIT SRP

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: MIT SRP

Study: DNA adduct and mutational profiles reveal the s...

Organisms: No organisms

SOPs: P.ESS-251028-V1_NG_6-DuplexDNA.docx

Data files: No Data files

Snapshots: No snapshots

Created: 30th Oct 2025 at 14:58, Last updated: 24th Nov 2025 at 17:50

Library Prep - Metadata

MIT SRP

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: MIT SRP

Study: DNA adduct and mutational profiles reveal the s...

Organisms: No organisms

SOPs: P.ESS-251028-V1_NG_6-DuplexDNA.docx

Data files: No Data files

Snapshots: No snapshots

Created: 30th Oct 2025 at 14:58, Last updated: 24th Nov 2025 at 17:47

Final Report

Working Group Nicole Radde

No description specified

Submitter: Benjamin Castellaz

Biological problem addressed: Model Analysis Type

Investigation: Master Thesis Georg Bail

Study: Statistical Modelling of DNA Methylation Levels...

Organisms: No organisms

Models: No Models

SOPs: No SOPs

Data files: No Data files

Snapshots: No snapshots

Created: 4th Nov 2025 at 11:44, Last updated: 6th Nov 2025 at 16:26

All Metadata

Hi-IMPAcTB

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: IMPAcTB

Study: IFN-γ- GranzymeB + Natural killer cells are ind...

Organisms: No organisms

SOPs: No SOPs

Data files: SM All Metadata.xlsx

Snapshots: No snapshots

Created: 28th Mar 2025 at 17:54, Last updated: 4th Nov 2025 at 15:26

PCR - Data Linked

MIT SRP

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: MIT SRP

Study: DNA adduct and mutational profiles reveal the s...

Organisms: No organisms

SOPs: P.ESS-251028-V1_NG_8-GEX.docx

Data files: No Data files

Snapshots: No snapshots

Created: 30th Oct 2025 at 14:58, Last updated: 30th Oct 2025 at 16:19

RaDR - Data Linked

MIT SRP

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: MIT SRP

Study: DNA adduct and mutational profiles reveal the s...

Organisms: No organisms

SOPs: P.ESS-251028-V1_NG_5-RADR.docx

Data files: No Data files

Snapshots: No snapshots

Created: 30th Oct 2025 at 14:58, Last updated: 30th Oct 2025 at 16:19

RNA Extraction - Metadata

MIT SRP

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: MIT SRP

Study: DNA adduct and mutational profiles reveal the s...

Organisms: No organisms

SOPs: P.ESS-251028-V1_NG_8-GEX.docx

Data files: No Data files

Snapshots: No snapshots

Created: 30th Oct 2025 at 14:58, Last updated: 30th Oct 2025 at 16:19

Mass Spectrometry - Data Linked

MIT SRP

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: MIT SRP

Study: DNA adduct and mutational profiles reveal the s...

Organisms: No organisms

SOPs: P.ESS-251028-V1_NG_3-DNA_Adducts.docx

Data files: No Data files

Snapshots: No snapshots

Created: 30th Oct 2025 at 14:58, Last updated: 30th Oct 2025 at 16:19

GPT Assay - Data Linked

MIT SRP

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: MIT SRP

Study: DNA adduct and mutational profiles reveal the s...

Organisms: No organisms

SOPs: P.ESS-251028-V1_NG_4-GPT.docx

Data files: No Data files

Snapshots: No snapshots

Created: 30th Oct 2025 at 14:58, Last updated: 30th Oct 2025 at 16:19

ELISA - Data Linked

MIT SRP

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: MIT SRP

Study: DNA adduct and mutational profiles reveal the s...

Organisms: No organisms

SOPs: P.ESS-251028-V1_NG_9-ELISA.docx

Data files: No Data files

Snapshots: No snapshots

Created: 30th Oct 2025 at 14:58, Last updated: 30th Oct 2025 at 16:19

Chemical Challenge - Metadata

MIT SRP

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: MIT SRP

Study: DNA adduct and mutational profiles reveal the s...

Organisms: No organisms

SOPs: P.ESS-251028-V1_NG_2-NDMA.docx

Data files: No Data files

Snapshots: No snapshots

Created: 30th Oct 2025 at 14:57, Last updated: 30th Oct 2025 at 16:19

Tissue Collection - Metadata

MIT SRP

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: MIT SRP

Study: DNA adduct and mutational profiles reveal the s...

Organisms: No organisms

SOPs: P.ESS-251028-V1_NG_1-Animals.docx

Data files: No Data files

Snapshots: No snapshots

Created: 30th Oct 2025 at 14:57, Last updated: 30th Oct 2025 at 16:19

All Metadata

Hi-IMPAcTB

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: IMPAcTB

Study: Protection against reinfection with Mycobacteri...

Organisms: No organisms

SOPs: No SOPs

Data files: G2G All Metadata.xlsx

Snapshots: No snapshots

Created: 20th Oct 2025 at 18:20, Last updated: 22nd Oct 2025 at 14:47

PET-CT Scan - Data Linked

Hi-IMPAcTB

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: IMPAcTB

Study: Protection against reinfection with Mycobacteri...

Organisms: No organisms

SOPs: P.FLY-230523-V1_PET_CT_Imaging

Data files: No Data files

Snapshots: No snapshots

Created: 20th Oct 2025 at 14:52, Last updated: 20th Oct 2025 at 18:44

Mass Spectrometry Proteomics - Data Linked

MetNet

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: MetNet

Study: Remodeling of self-assembled microvascular netw...

Organisms: No organisms

SOPs: MF_Flow_Proteomics_Protocol

Data files: No Data files

Snapshots: No snapshots

Created: 2nd Oct 2025 at 16:46, Last updated: 6th Oct 2025 at 18:57

Proteomics Analysis - Data Linked

MetNet

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: MetNet

Study: Remodeling of self-assembled microvascular netw...

Organisms: No organisms

SOPs: MF_Flow_Proteomics_Protocol

Data files: No Data files

Snapshots: No snapshots

Created: 2nd Oct 2025 at 16:47, Last updated: 6th Oct 2025 at 18:57

Gene Expression Analysis - Data Linked

MetNet

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: MetNet

Study: Remodeling of self-assembled microvascular netw...

Organisms: No organisms

SOPs: MF_RNAseq

Data files: No Data files

Snapshots: No snapshots

Created: 2nd Oct 2025 at 16:45, Last updated: 6th Oct 2025 at 18:57

Microfluidic Network Imaging - Data Linked

MetNet

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: MetNet

Study: Remodeling of self-assembled microvascular netw...

Organisms: No organisms

SOPs: MF_MVN_imaging

Data files: No Data files

Snapshots: No snapshots

Created: 2nd Oct 2025 at 16:46, Last updated: 6th Oct 2025 at 18:57

MVN Imaging Analysis - Data Linked

MetNet

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: MetNet

Study: Remodeling of self-assembled microvascular netw...

Organisms: No organisms

SOPs: MF_flow_analysis

Data files: No Data files

Snapshots: No snapshots

Created: 2nd Oct 2025 at 16:46, Last updated: 6th Oct 2025 at 18:57

Cytokine Luminex - Data Linked

MetNet

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: MetNet

Study: Remodeling of self-assembled microvascular netw...

Organisms: No organisms

SOPs: MF_Cytokines, P.KAM-250411-V2_MF_Cytokines.docx

Data files: No Data files

Snapshots: No snapshots

Created: 2nd Oct 2025 at 16:46, Last updated: 6th Oct 2025 at 18:57

Cell Extraction - Metadata

MetNet

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: MetNet

Study: Remodeling of self-assembled microvascular netw...

Organisms: No organisms

SOPs: MF_RNAseq

Data files: No Data files

Snapshots: No snapshots

Created: 2nd Oct 2025 at 16:40, Last updated: 6th Oct 2025 at 18:57

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