Assays

A file combining all CpG sites from the differentially methylated regions (DMRs) of the control, t0, and t1 groups was generated. This combined file, containing methylation values extracted from the bedgraph files, was then used to create a PCA plot and a single heatmap for all CpG sites across the regions.

Submitter: Ayat Ismail

Biological problem addressed: Modelling analysis

Investigation: 1 hidden item

Study: 1 hidden item

Organisms: No organisms

Models: No Models

SOPs: No SOPs

Data files: 1 hidden item

Snapshots: No snapshots

Created: 15th Sep 2024 at 12:28, Last updated: 15th Sep 2024 at 12:30

Optimization of DERA-61 reaction conditions

CC-TOP

No description specified

Submitter: Andrea Rizzo

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: 1 hidden item

Study: 1 hidden item

Organisms: No organisms

SOPs: Enzymatic reaction set-up

Data files: Kinetic of DERA-61 towards non-natural substrate, Screening of the activity of DERA-61 in differe..., Time course of the aldol addition of furfural a..., Variation of DERA-61 melting temperature in dif...

Snapshots: No snapshots

Created: 30th Aug 2024 at 14:39, Last updated: 30th Aug 2024 at 15:41

Metagenomic enzyme discovery

CC-TOP

No description specified

Submitter: Andrea Rizzo

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: 1 hidden item

Study: 1 hidden item

Organisms: No organisms

SOPs: No SOPs

Data files: 3D structure of DERA-61, 3D structure of DERA-61, Phylogenetic tree of all the 48 metagenomic DERAs

Snapshots: No snapshots

Created: 30th Aug 2024 at 14:41, Last updated: 30th Aug 2024 at 14:51

Computation of ftsI haplotypes and of haplotype networks with node annotation according to isolates' PBP3 resistance group, MIC, origin, resistance and serotype

Revisiting mutational resistance to ampicillin and cefotaxime in Haemophilus influenzae

No description specified

Submitter: Inken Wohlers

Biological problem addressed: Visualization

Investigation: Haplotype networks for common variants in gene ...

Study: Haplotype network computation using PegasShiny

Organisms: No organisms

Models: No Models

SOPs: No SOPs

Data files: PegasShiny tool, Tab-separated input files for PegasShiny with i..., VCF file of non-synonymous ftsI variants in 247...

Snapshots: No snapshots

Created: 29th Aug 2024 at 15:57, Last updated: 30th Aug 2024 at 10:13

Fourier Transform Infrared Spectroscopy - Data Linked

MIT SRP

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: MIT SRP

Study: Optical Detection of Interleukin-6 using Liquid...

Organisms: No organisms

SOPs: P.SWA-240105-V1_FTIR-Protocol.txt

Data files: samples-publish2024-02-10-CHM.xlsx, samples-publish2024-02-10-D.SPC.xlsx

Snapshots: No snapshots

Created: 9th Feb 2024 at 19:52, Last updated: 22nd Aug 2024 at 15:22

Pendant Drop Tensiometry - Data Linked

MIT SRP

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: MIT SRP

Study: Optical Detection of Interleukin-6 using Liquid...

Organisms: No organisms

SOPs: P.SWA-240105-V1_Pendant-Drop-Tensiometry-Protoc...

Data files: samples-publish2024-02-10-CHM.xlsx, samples-publish2024-02-10-D.TNSY.xlsx

Snapshots: No snapshots

Created: 9th Feb 2024 at 19:53, Last updated: 22nd Aug 2024 at 15:22

All Metadata

MIT SRP

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: MIT SRP

Study: Optical Detection of Interleukin-6 using Liquid...

Organisms: No organisms

SOPs: No SOPs

Data files: MC - All Metadata.xlsx

Snapshots: No snapshots

Created: 9th Feb 2024 at 20:28, Last updated: 22nd Aug 2024 at 15:22

Nuclear Magnetic Resonance Spectroscopy Analysis - Data Linked

MIT SRP

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: MIT SRP

Study: Optical Detection of Interleukin-6 using Liquid...

Organisms: No organisms

SOPs: No SOPs

Data files: samples-publish2024-02-10-A.NMR.xlsx, samples-publish2024-02-10-D.NMR.xlsx

Snapshots: No snapshots

Created: 9th Feb 2024 at 19:50, Last updated: 22nd Aug 2024 at 15:22

Gel Permeation Chromatography - Data Linked

MIT SRP

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: MIT SRP

Study: Optical Detection of Interleukin-6 using Liquid...

Organisms: No organisms

SOPs: P.SWA-240105-V1_GPC-Protocol.txt

Data files: samples-publish2024-02-10-CHM.xlsx, samples-publish2024-02-10-D.GPC.xlsx

Snapshots: No snapshots

Created: 9th Feb 2024 at 19:51, Last updated: 22nd Aug 2024 at 15:22

Nuclear Magnetic Resonance Spectroscopy - Data Linked

MIT SRP

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: MIT SRP

Study: Optical Detection of Interleukin-6 using Liquid...

Organisms: No organisms

SOPs: P.SWA-240105-V1_NMR-Protocol.txt

Data files: samples-publish2024-02-10-CHM.xlsx, samples-publish2024-02-10-D.NMR.xlsx

Snapshots: No snapshots

Created: 9th Feb 2024 at 19:49, Last updated: 22nd Aug 2024 at 15:22

Agglutination Assay - Data Linked

MIT SRP

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: MIT SRP

Study: Optical Detection of Interleukin-6 using Liquid...

Organisms: No organisms

SOPs: P.SWA-240108-V2_Agglutination_Assay.docx

Data files: samples-publish2024-02-10-CHM.xlsx, samples-publish2024-02-10-D.IMG.xlsx

Snapshots: No snapshots

Created: 9th Feb 2024 at 19:47, Last updated: 22nd Aug 2024 at 15:22

Chemical Synthesis - Metadata

MIT SRP

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: MIT SRP

Study: Optical Detection of Interleukin-6 using Liquid...

Organisms: No organisms

SOPs: P.SWA-240108-V2_Chemical_Synthesis-Agglutinatio...

Data files: samples-publish2024-02-10-CHM.xlsx

Snapshots: No snapshots

Created: 9th Feb 2024 at 19:45, Last updated: 22nd Aug 2024 at 15:22

Lineweaver-Burk Kinetics

Glycogen Metabolism in bacteria

No description specified

Submitter: Janette Alford

Assay type: Experimental Assay Type

Technology type: Progressive Curve Experiment

Investigation: Phosphoglucomutase variants in Synechocystis

Study: Enzymatic characterization

Organisms: No organisms

SOPs: No SOPs

Data files: Lineweaver-Burk Kinetic SynPGM1, Lineweaver-Burk Kinetic SynPGM1 S47A

Snapshots: No snapshots

Created: 6th Aug 2024 at 13:40, Last updated: 22nd Aug 2024 at 06:21

IC50 of fructose-1,6-bisphosphate

Glycogen Metabolism in bacteria

No description specified

Submitter: Janette Alford

Assay type: Experimental Assay Type

Technology type: Progressive Curve Experiment

Investigation: Phosphoglucomutase variants in Synechocystis

Study: Enzymatic characterization

Organisms: No organisms

SOPs: No SOPs

Data files: SynPGM1 IC50 of fructose-1,6-bisphosphate

Snapshots: No snapshots

Created: 7th Aug 2024 at 06:31, Last updated: 22nd Aug 2024 at 06:21

EC50 of glucose-1,6-bisphosphate

Glycogen Metabolism in bacteria

No description specified

Submitter: Janette Alford

Assay type: Experimental Assay Type

Technology type: Progressive Curve Experiment

Investigation: Phosphoglucomutase variants in Synechocystis

Study: Enzymatic characterization

Organisms: No organisms

SOPs: No SOPs

Data files: SynPGM1 EC50 of glucose-1,6-bisphosphate

Snapshots: No snapshots

Created: 7th Aug 2024 at 06:42, Last updated: 22nd Aug 2024 at 06:21

Nuclear Magnetic Resonance - Data Linked

MIT SRP

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: MIT SRP

Study: Colorimetric Detection of Aqueous N-Nitrosodime...

Organisms: No organisms

SOPs: P.SWA-240522-V1_CW-NaphthosulfonateIndicator.docx

Data files: samples-publish2024-03-12-D.NMR.xlsx, samples-publish2024-05-22-CHM.xlsx

Snapshots: No snapshots

Created: 16th May 2024 at 15:44, Last updated: 20th Aug 2024 at 18:57

Nuclear Magnetic Resonance Analysis - Data Linked

MIT SRP

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: MIT SRP

Study: Colorimetric Detection of Aqueous N-Nitrosodime...

Organisms: No organisms

SOPs: P.SWA-240522-V1_CW-NaphthosulfonateIndicator.docx

Data files: samples-publish2024-03-12-D.NMR.xlsx, samples-publish2024-05-22-A.NMR

Snapshots: No snapshots

Created: 16th May 2024 at 15:46, Last updated: 20th Aug 2024 at 18:57

Imaging - Data Linked

MIT SRP

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: MIT SRP

Study: Colorimetric Detection of Aqueous N-Nitrosodime...

Organisms: No organisms

SOPs: P.SWA-240522-V1_CW-NaphthosulfonateIndicator.docx

Data files: samples-publish2024-05-22-CHM.xlsx, samples-publish2024-05-22-D.IMG.xlsx, samples-publish2024-05-22-D.XRS.xlsx

Snapshots: No snapshots

Created: 16th May 2024 at 15:48, Last updated: 20th Aug 2024 at 18:57

UV-Vis Spectroscopy - Data Linked

MIT SRP

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: MIT SRP

Study: Colorimetric Detection of Aqueous N-Nitrosodime...

Organisms: No organisms

SOPs: P.SWA-240522-V1_CW-NaphthosulfonateIndicator.docx

Data files: samples-publish2024-05-22-CHM.xlsx, samples-publish2024-05-22-D.SPC.xlsx

Snapshots: No snapshots

Created: 16th May 2024 at 14:29, Last updated: 20th Aug 2024 at 18:57

Chemical Synthesis - Metadata

MIT SRP

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: MIT SRP

Study: Colorimetric Detection of Aqueous N-Nitrosodime...

Organisms: No organisms

SOPs: P.SWA-240522-V1_CW-NaphthosulfonateIndicator.docx

Data files: samples-publish2024-05-22-CHM.xlsx

Snapshots: No snapshots

Created: 16th May 2024 at 14:20, Last updated: 20th Aug 2024 at 18:57

Single-crystal X-ray Crystallography - Data Linked

MIT SRP

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: MIT SRP

Study: Colorimetric Detection of Aqueous N-Nitrosodime...

Organisms: No organisms

SOPs: P.SWA-240522-V1_CW-NaphthosulfonateIndicator.docx

Data files: samples-publish2024-05-22-CHM.xlsx, samples-publish2024-05-22-D.XRS.xlsx

Snapshots: No snapshots

Created: 16th May 2024 at 14:25, Last updated: 20th Aug 2024 at 18:57

Flow Cytometry - Data Linked

Hi-IMPAcTB

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: IMPAcTB

Study: Multi-modal data integration using Markov Field...

Organisms: No organisms

SOPs: P.FLY-240411-V1_Flynn_RITUX_Flow_Cytometry_Prot...

Data files: RITUX_Panel_Cohort.xlsx, samples-publishSW_AB.xlsx, samples-publishSW_ABP.xlsx, samples-publishSW_D.FLOW.xlsx, samples-publishSW_TIS.xlsx

Snapshots: No snapshots

Created: 31st Jul 2024 at 19:43, Last updated: 8th Aug 2024 at 19:58

Michaelis Menten Kinetics

Glycogen Metabolism in bacteria

No description specified

Submitter: Janette Alford

Assay type: Experimental Assay Type

Technology type: Progressive Curve Experiment

Investigation: Phosphoglucomutase variants in Synechocystis

Study: Enzymatic characterization

Organisms: No organisms

SOPs: No SOPs

Data files: Michaelis-Menten Kinetic SynPGM1, Michaelis-Menten Kinetic SynPGM1 S47A, Michaelis-Menten Kinetic SynPGM1 S47D

Snapshots: No snapshots

Created: 30th Jul 2024 at 08:25, Last updated: 6th Aug 2024 at 13:47

Imaging Analysis - Data Attached

MetNet

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: MetNet

Study: Personalized Vascularized Models of Breast Canc...

Organisms: No organisms

SOPs: No SOPs

Data files: Fig5b_Analysis_permeability_patients3and4.xlsx, Fig5c_Cell_death_4_patients.xlsx, samples-publish2024-03-22-D.IMG.xlsx

Snapshots: No snapshots

Created: 22nd Mar 2024 at 19:32, Last updated: 17th Jul 2024 at 19:44

Tumoroid Formation - Metadata

MetNet

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: MetNet

Study: Personalized Vascularized Models of Breast Canc...

Organisms: No organisms

SOPs: P.KAM-230131-V1_Cell-culture.docx, P.KAM-240321-V1_Vascularized-Tumoroid-Formation...

Data files: samples-publish2024-03-22-CEL.xlsx

Snapshots: No snapshots

Created: 22nd Mar 2024 at 19:30, Last updated: 17th Jul 2024 at 19:44

Device Creation - Metadata

MetNet

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: MetNet

Study: Personalized Vascularized Models of Breast Canc...

Organisms: No organisms

SOPs: P.KAM-240321-V1_MVN-Permeability-and-Fluid-Flow...

Data files: samples-publish2024-03-22-CEL.xlsx, samples-publish2024-03-22-OOC.xlsx

Snapshots: No snapshots

Created: 22nd Mar 2024 at 19:30, Last updated: 17th Jul 2024 at 19:44

Device Imaging - Metadata

MetNet

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: MetNet

Study: Personalized Vascularized Models of Breast Canc...

Organisms: No organisms

SOPs: P.KAM-240321-V1_MVN-Permeability-and-Fluid-Flow...

Data files: samples-publish2024-03-22-D.IMG.xlsx, samples-publish2024-03-22-OOC.xlsx

Snapshots: No snapshots

Created: 22nd Mar 2024 at 19:31, Last updated: 17th Jul 2024 at 19:44

All Metadata

Hi-IMPAcTB

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: IMPAcTB

Study: CD4+ T cells re-wire granuloma cellularity and ...

Organisms: No organisms

SOPs: No SOPs

Data files: CD4_AllMetadata.xlsx

Snapshots: No snapshots

Created: 16th Jul 2024 at 20:32, Last updated: 16th Jul 2024 at 20:49

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