Assays

1172 Assays visible to you, out of a total of 2142

Model simulation of PFK-1 and PFK-2 enzyme kinetics

SCyCode The Autotrophy-Heterotrophy Switch in Cyanobacteria: Coherent Decision-Making at Multiple Regulatory Layers

The experimental data for PFK-1 and PFK-2 were analysed and fitted with a MWC equation. The model is described in Mathematica and the plots in the manuscript are generatedin the notebook.

Submitter: Jacky Snoep

Biological problem addressed: Model Analysis Type

Investigation: ADP dependent cyanobacterial PFK-A

Study: PFK-1 and PFK-2 kinetics

Organisms: No organisms

Models: Mathematica notebook for enzyme kinetic data an...

SOPs: No SOPs

Data files: Kinetic data for PFK-1 and PFK-2

Snapshots: No snapshots

Created: 19th Feb 2024 at 11:19, Last updated: 26th Oct 2024 at 11:52

Experimental data for enzyme kinetic characterisation of PFK-1 and PFK-2

SCyCode The Autotrophy-Heterotrophy Switch in Cyanobacteria: Coherent Decision-Making at Multiple Regulatory Layers

The purified enzymes were kinetically charactyerised in terms of substrate sensitivity and alloestric regulation.

Submitter: Jacky Snoep

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: ADP dependent cyanobacterial PFK-A

Study: PFK-1 and PFK-2 kinetics

Organisms: No organisms

SOPs: No SOPs

Data files: Kinetic data for PFK-1 and PFK-2

Snapshots: No snapshots

Created: 19th Feb 2024 at 11:12, Last updated: 26th Oct 2024 at 11:51

Device Imaging - Data Linked

MetNet

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: MetNet

Study: Utilizing convolutional neural networks for dis...

Organisms: No organisms

SOPs: P.KAM-240227-V1_Image-Aquisiton-CNN.docx;

Data files: samples-publish2024-03-05-D.IMG.xlsx, samples-publish2024-03-05-OOC.xlsx and 1 hidden item

Snapshots: No snapshots

Created: 5th Mar 2024 at 18:50, Last updated: 23rd Oct 2024 at 19:28

Model Validation

Hi-IMPAcTB

Training data for this Model is available: https://fairdomhub.org/studies/1198

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.LAU-240111-V1_SW_LMM_ReadMe.docx

Data files: samples-publishSW_A.FLOW.xlsx, samples-publishSW_A.TITR.xlsx, samples-publishSW_MDL.xlsx

Snapshots: No snapshots

Created: 31st Jul 2024 at 19:45, Last updated: 9th Oct 2024 at 19:32

Bradford assay for protein quantification (TKs purified)

CC-TOP

A stock solution of BSA (Bovine serum Albumine) 1 mg/ml is made and from this solution different aliquots are picked in order to obtain different dilution solution.

25 µL from solution + 975 µL water to obtain 25 µg/ml
50 µL from solution + 950 µL of water to obtain 50 µg/ml
75 µL from solution + 925 µL water to obtain 75 µg/ml
100 µL from solution + 900 µL water to obtain 100 µg/ml
125 µL from solution + 825 µL water to obtain 125 µg/ml
150 µL from solution + 850 µL water to ...

Submitter: Giuseppe Arbia

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: No Data files

Snapshots: No snapshots

Created: 1st Oct 2024 at 08:30

UV-Vis 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: Colorimetric Detection of Aqueous N-Nitrosodime...

Organisms: No organisms

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

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

Snapshots: No snapshots

Created: 16th May 2024 at 14:33, Last updated: 18th Sep 2024 at 18:21

Comet Chip - Data Linked

MIT SRP

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: MIT SRP

Study: Novel In Vivo CometChip Reveals NDMA-Induced DN...

Organisms: No organisms

SOPs: P.ENG-230912-V1_Cell-Culture.docx, P.ENG-230912-V1_In-Vivo-Comet-Assay-Protocol.docx

Data files: CEL-samples-publish2023-09-19_13-11.xlsx, D.IMG-samples-publish2023-09-13_12-43.xlsx, TIS-samples-publish2023-09-13_12-27.xlsx

Snapshots: No snapshots

Created: 13th Sep 2023 at 16:15, Last updated: 18th Sep 2024 at 18:21

Tissue Collection - Metadata

MIT SRP

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: MIT SRP

Study: Novel In Vivo CometChip Reveals NDMA-Induced DN...

Organisms: No organisms

SOPs: P.ENG-230912-V1_MMS-and-NDMA-TIS.docx, P.ENG-230913-V1_In-Vivo-Comet-Chip---MUS.docx

Data files: MUS-samples-publish2023-09-13_11-48.xlsx, TIS-samples-publish2023-09-13_12-27.xlsx

Snapshots: No snapshots

Created: 13th Sep 2023 at 16:14, Last updated: 18th Sep 2024 at 18:21

Chemical Challenge - Metadata

MIT SRP

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: MIT SRP

Study: Novel In Vivo CometChip Reveals NDMA-Induced DN...

Organisms: No organisms

SOPs: P.ENG-230913-V1_Chemicals-and-Reagents.docx, P.ENG-230913-V1_In-Vivo-Comet-Chip---MUS.docx

Data files: CHM-samples-publish2023-09-13_11-34.xlsx, MUS-samples-publish2023-09-13_11-48.xlsx

Snapshots: No snapshots

Created: 13th Sep 2023 at 16:13, Last updated: 18th Sep 2024 at 18:21

Comet Chip Analysis - Data Attached

MIT SRP

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: MIT SRP

Study: Novel In Vivo CometChip Reveals NDMA-Induced DN...

Organisms: No organisms

SOPs: P.ENG-230912-V1_In-Vivo-Comet-Assay-Protocol.docx

Data files: Figure 2B MMS 211203.pzfx, Figure 3A hAAG 211201_Enzymes.pzfx, Figure 3B MMS FPG.pzfx, Figure 4B.pzfx, Figure 5A Liver Time Course.pzfx, Figure 5B Lung time course.pzfx, Figure 5C Kidney NDMA Time Course.pzfx, Figure 6A Liver hAAG.pzfx, Figure 6B Liver Fpg.pzfx, Figure 6C-D Lung with Enzymes.pzfx, Figure 6E-F In_vivo_NDMA_Kidney w Enzymes copy...., Figure S2 MEFs and HepG2.pzfx, Figure S5A In_vivo_NDMA_Pancreas.pzfx, Figure S5B NDMA Spleen.pzfx

Snapshots: No snapshots

Created: 13th Sep 2023 at 16:15, Last updated: 18th Sep 2024 at 17:17

All Metadata

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: No SOPs

Data files: RITUX SW - All Metadata.xlsx

Snapshots: No snapshots

Created: 17th Sep 2024 at 20:29, Last updated: 18th Sep 2024 at 14:53

Flow Cytometry Analysis - 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: samples-publishSW_A.FLOW.xlsx, samples-publishSW_D.FLOW.xlsx

Snapshots: No snapshots

Created: 31st Jul 2024 at 19:44, Last updated: 18th Sep 2024 at 14:53

Antibody Titer Analysis - 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.ALT-231222-V1_ivbcg_ritux_ab_methods.docx

Data files: samples-publishSW_A.TITR.xlsx, samples-publishSW_D.TITR.xlsx

Snapshots: No snapshots

Created: 31st Jul 2024 at 19:43, Last updated: 18th Sep 2024 at 14:53

Antibody Titer - 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.ALT-231222-V1_ivbcg_ritux_ab_methods.docx

Data files: samples-publishSW_D.TITR.xlsx, samples-publishSW_TIS.xlsx

Snapshots: No snapshots

Created: 31st Jul 2024 at 19:42, Last updated: 18th Sep 2024 at 14:53

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

Organisms: No organisms

SOPs: P.FLY-230523-V1_PET_CT_Imaging

Data files: samples-publishSW_D.IMG.xlsx, samples-publishSW_PAV.xlsx

Snapshots: No snapshots

Created: 31st Jul 2024 at 19:41, Last updated: 18th Sep 2024 at 14:53

Tissue Collection - Metadata

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-240808-V1_TISs_RITUX.docx

Data files: samples-publishSW_PAV.xlsx, samples-publishSW_TIS.xlsx

Snapshots: No snapshots

Created: 31st Jul 2024 at 19:40, Last updated: 18th Sep 2024 at 14:53

Patient Visit - Metadata

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-240808-V1_NHPs_RITUX.docx

Data files: samples-publishSW_NHP.xlsx, samples-publishSW_PAV.xlsx

Snapshots: No snapshots

Created: 31st Jul 2024 at 19:39, Last updated: 18th Sep 2024 at 14:53

Control versus t0t1 DMR site-based heatmap and PCA-based visualization of methylation profiles

Methylation differences during respiratory infection

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

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