Assays

What is an Assay?

66 Assays visible to you, out of a total of 165

Proteomic data

EbN1 Systems Biology

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No description specified

Submitter: Lars Wöhlbrand

Assay type: Protein Identification

Technology type: Liquid Chromatography-tandom Mass Spectrometry

Investigation: Systems biology investigation of aromatic compo...

Study: Experimental multi-OMICS

Organisms: No organisms

SOPs: SOP – Protein preparation, nanoLC-MS/MS analyse...

Data files: Detailed peptide data for identified proteins, Protein identification data

Snapshots: No snapshots

Created: 3rd Jun 2022 at 09:03, Last updated: 11th Apr 2024 at 08:15

Single Cell Expression Matrix Analysis - Data Linked

Endometriosis

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: Endometriosis

Study: Integrating endometrial proteomic and single ce...

Organisms: No organisms

SOPs: P.GRI-231107-V1_Computational-analyses-of-scRNA...

Data files: samples-publish2023-11-03_A.SCXP.xlsx, samples-publish2023-11-03_D.SEQ.xlsx

Snapshots: No snapshots

Created: 6th Nov 2023 at 19:27, Last updated: 17th Nov 2023 at 21:50

Linear Mixed Model - Data Linked

Endometriosis

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: Endometriosis

Study: Integrating endometrial proteomic and single ce...

Organisms: No organisms

SOPs: P.GRI-230228-V1_2.4-Linear-Mixed-Model-for-Prot...

Data files: samples-publish2023-11-03_A.MSP.xlsx, samples-publish2023-11-03_A.SCXP.xlsx

Snapshots: No snapshots

Created: 6th Nov 2023 at 21:47, Last updated: 17th Nov 2023 at 21:50

All Metadata

Endometriosis

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: Endometriosis

Study: Integrating endometrial proteomic and single ce...

Organisms: No organisms

SOPs: No SOPs

Data files: No Data files

Snapshots: No snapshots

Created: 17th Nov 2023 at 21:49, Last updated: 17th Nov 2023 at 21:50

All Metadata

Endometriosis

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: Endometriosis

Study: Organoid co-culture model of the cycling human ...

Organisms: No organisms

SOPs: No SOPs

Data files: No Data files

Snapshots: No snapshots

Created: 17th Nov 2023 at 21:47, Last updated: 17th Nov 2023 at 21:50

Gene Expression Analysis - Data Linked

Endometriosis

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: Endometriosis

Study: Organoid co-culture model of the cycling human ...

Organisms: No organisms

SOPs: P.GRI-231107-V1_Bulk-RNAseq-analysis-of-in-vitr...

Data files: samples-publish2023-11-03_A.GEX.xlsx, samples-publish2023-11-03_D.SEQ_CEL.xlsx

Snapshots: No snapshots

Created: 6th Nov 2023 at 19:30, Last updated: 17th Nov 2023 at 21:50

Immunohistochemistry - Data Linked

Endometriosis

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: Endometriosis

Study: Integrating endometrial proteomic and single ce...

Organisms: No organisms

SOPs: P.GRI-230228-V1_2.7-Tissue-Sectioning,-Staining...

Data files: samples-publish2023-11-03_AB_IHC.xlsx, samples-publish2023-11-03_D.IMG_IHC.xlsx, samples-publish2023-11-03_TIS.xlsx

Snapshots: No snapshots

Created: 3rd Nov 2023 at 14:48, Last updated: 17th Nov 2023 at 21:45

Mass Spectrometry Proteomics - Data Linked

Endometriosis

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: Endometriosis

Study: Integrating endometrial proteomic and single ce...

Organisms: No organisms

SOPs: P.GRI-230228-V1_2.3-Tissue-Preparation-for-Prot...

Data files: samples-publish2023-11-03_D.MSP.xlsx, samples-publish2023-11-03_TIS.xlsx

Snapshots: No snapshots

Created: 3rd Nov 2023 at 14:49, Last updated: 17th Nov 2023 at 21:45

Single Cell Sequencing - Data Linked

Endometriosis

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: Endometriosis

Study: Integrating endometrial proteomic and single ce...

Organisms: No organisms

SOPs: P.GRI-231101-V1_scRNA_Protocol

Data files: samples-publish2023-11-03_D.SEQ.xlsx, samples-publish2023-11-03_DNA.xlsx

Snapshots: No snapshots

Created: 3rd Nov 2023 at 18:31, Last updated: 17th Nov 2023 at 21:45

Mass Spectrometry Proteomics Analysis - Data Linked

Endometriosis

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: Endometriosis

Study: Integrating endometrial proteomic and single ce...

Organisms: No organisms

SOPs: P.GRI-230228-V1_2.3-Tissue-Preparation-for-Prot...

Data files: samples-publish2023-11-03_A.MSP.xlsx, samples-publish2023-11-03_D.MSP.xlsx

Snapshots: No snapshots

Created: 6th Nov 2023 at 21:53, Last updated: 17th Nov 2023 at 21:45

Patient Visit - Metadata

Endometriosis

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: Endometriosis

Study: Integrating endometrial proteomic and single ce...

Organisms: No organisms

SOPs: P.GRI-230228-V1_2.1-Study-Approval.docx

Data files: samples-publish2023-11-03_PAT.xlsx, samples-publish2023-11-03_PAV.xlsx

Snapshots: No snapshots

Created: 3rd Nov 2023 at 14:11, Last updated: 17th Nov 2023 at 21:45

Tissue Collection - Metadata

Endometriosis

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: Endometriosis

Study: Integrating endometrial proteomic and single ce...

Organisms: No organisms

SOPs: P.GRI-230228-V1_2.1-Study-Approval.docx, P.GRI-231030-V1_Tissue_Protocol

Data files: samples-publish2023-11-03_PAV.xlsx, samples-publish2023-11-03_TIS.xlsx

Snapshots: No snapshots

Created: 3rd Nov 2023 at 14:27, Last updated: 17th Nov 2023 at 21:45

DNA Extraction - Metadata

Endometriosis

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: Endometriosis

Study: Integrating endometrial proteomic and single ce...

Organisms: No organisms

SOPs: P.GRI-231101-V1_scRNA_Protocol

Data files: samples-publish2023-11-03_DNA.xlsx, samples-publish2023-11-03_TIS.xlsx

Snapshots: No snapshots

Created: 3rd Nov 2023 at 14:46, Last updated: 17th Nov 2023 at 21:45

Cell Culture and Organoid Generation - Metadata

Endometriosis

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: Endometriosis

Study: Organoid co-culture model of the cycling human ...

Organisms: No organisms

SOPs: P.GRI-231030-V1_Cell_Culture_and_Organoid_Gener...

Data files: samples-publish2023-11-03_CEL.xlsx, samples-publish2023-11-03_TIS.xlsx

Snapshots: No snapshots

Created: 3rd Nov 2023 at 14:44, Last updated: 17th Nov 2023 at 21:20

DNA Extraction - Metadata

Endometriosis

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: Endometriosis

Study: Organoid co-culture model of the cycling human ...

Organisms: No organisms

SOPs: P.GRI-231101-V1_RNA-isolation-and-bulk-RNA-seq

Data files: samples-publish2023-11-03_CEL.xlsx, samples-publish2023-11-03_DNA_2.xlsx

Snapshots: No snapshots

Created: 3rd Nov 2023 at 15:11, Last updated: 17th Nov 2023 at 21:20

Luminex - Data Linked

Endometriosis

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: Endometriosis

Study: Organoid co-culture model of the cycling human ...

Organisms: No organisms

SOPs: No SOPs

Data files: samples-publish2023-11-03_CEL.xlsx, samples-publish2023-11-03_D.LMX.xlsx

Snapshots: No snapshots

Created: 3rd Nov 2023 at 15:11, Last updated: 17th Nov 2023 at 21:20

Elisa - Data Linked

Endometriosis

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: Endometriosis

Study: Organoid co-culture model of the cycling human ...

Organisms: No organisms

SOPs: P.GRI-231103-V1_ELISA_Luminex_Protocol

Data files: samples-publish2023-11-03_CEL.xlsx, samples-publish2023-11-03_D.ELISA.xlsx

Snapshots: No snapshots

Created: 3rd Nov 2023 at 15:13, Last updated: 17th Nov 2023 at 21:20

Cell Culture Imaging - Data Linked

Endometriosis

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: Endometriosis

Study: Organoid co-culture model of the cycling human ...

Organisms: No organisms

SOPs: P.GRI-231030-V4_Imaging_Protocol

Data files: samples-publish2023-11-03_AB_IMF.xlsx, samples-publish2023-11-03_CEL.xlsx, samples-publish2023-11-03_D.IMG_CCI.xlsx

Snapshots: No snapshots

Created: 3rd Nov 2023 at 15:14, Last updated: 17th Nov 2023 at 21:20

Short Read Sequencing - Data Linked

Endometriosis

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: Endometriosis

Study: Organoid co-culture model of the cycling human ...

Organisms: No organisms

SOPs: P.GRI-231101-V1_RNA-isolation-and-bulk-RNA-seq

Data files: samples-publish2023-11-03_D.SEQ_CEL.xlsx, samples-publish2023-11-03_DNA_2.xlsx

Snapshots: No snapshots

Created: 3rd Nov 2023 at 18:29, Last updated: 17th Nov 2023 at 21:20

Patient Visit - Metadata

Endometriosis

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: Endometriosis

Study: Organoid co-culture model of the cycling human ...

Organisms: No organisms

SOPs: P.GRI-230228-V1_2.1-Study-Approval.docx

Data files: samples-publish2023-11-03_PAT.xlsx, samples-publish2023-11-03_PAV.xlsx

Snapshots: No snapshots

Created: 3rd Nov 2023 at 14:08, Last updated: 17th Nov 2023 at 21:20

Tissue Collection - Metadata

Endometriosis

No description specified

Submitter: Charles Demurjian

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: Endometriosis

Study: Organoid co-culture model of the cycling human ...

Organisms: No organisms

SOPs: P.GRI-230228-V1_2.1-Study-Approval.docx, P.GRI-231030-V1_Tissue_Protocol

Data files: samples-publish2023-11-03_PAV.xlsx, samples-publish2023-11-03_TIS.xlsx

Snapshots: No snapshots

Created: 3rd Nov 2023 at 14:26, Last updated: 17th Nov 2023 at 21:20

Proteomic analyses

Heat stress response of the red-tide dinoflagellate Prorocentrum cordatum

No description specified

Submitter: Lars Wöhlbrand

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: Heat stress response of Prorcentrum cordatum

Study: Heat stress response of Prorocentrum cordatum

Organisms: No organisms

SOPs: No SOPs

Data files: 2D LC MS/MS peptide analyses, Membrane protein enriched fraction, Shotgun proteomic data

Snapshots: No snapshots

Created: 8th Jul 2022 at 13:19, Last updated: 16th Oct 2023 at 09:50

Metabolite analyses

Heat stress response of the red-tide dinoflagellate Prorocentrum cordatum

No description specified

Submitter: Lars Wöhlbrand

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: Heat stress response of Prorcentrum cordatum

Study: Heat stress response of Prorocentrum cordatum

Organisms: No organisms

SOPs: No SOPs

Data files: GCMS metabolite data

Snapshots: No snapshots

Created: 8th Jul 2022 at 13:27, Last updated: 16th Oct 2023 at 09:50

Usage of fine-tuned BioBERT for identification of chemical entities

BioCreative VII

Usage of fine-tuned BioBERT for identification of chemical entities

Submitter: Olga Krebs

Biological problem addressed: Annotation

Investigation: Chemical Identification and Indexing in PubMed ...

Study: Chemical named entity recognition and annotation

Organisms: No organisms

Models: WELT code

SOPs: No SOPs

Data files: BioCreative VII Track 2 - NLM-CHEM

Snapshots: No snapshots

Created: 12th Oct 2021 at 17:14, Last updated: 27th Sep 2023 at 14:21

Using semantic search in MesH and PubChem databases for entity linking

BioCreative VII

Using semantic search in MesH and PubChem databases for entity linking

Submitter: Olga Krebs

Biological problem addressed: Annotation

Investigation: Chemical Identification and Indexing in PubMed ...

Study: Chemical named entity recognition and annotation

Organisms: No organisms

Models: No Models

SOPs: No SOPs

Data files: BioCreative VII Track 2 - NLM-CHEM

Snapshots: No snapshots

Created: 12th Oct 2021 at 17:16, Last updated: 27th Sep 2023 at 14:21

GC-MS based analysis of metabolites

Adaptation of Salmonella enterica

No description specified

Submitter: Meina Neumann-Schaal

Assay type: Experimental Assay Type

Technology type: Gas Chromatography Mass Spectrometry

Investigation: Salmonella enterica relies on carbon metabolism...

Study: Metabolic analysis of Salmonella enterica to st...

Organisms: No organisms

SOPs: No SOPs

Data files: Salmonella enterica_metabolite data

Snapshots: No snapshots

Created: 21st Mar 2023 at 07:07, Last updated: 28th Aug 2023 at 13:57

Additional data related to microscopic investigations

The nucleus of Prorocentrum cordatum

No description specified

Submitter: Jana Kalvelage

Assay type: Organism or Strain Characteristics

Technology type: Technology Type

Investigation: 1 hidden item

Study: Proteomic analyses of the nuclear fraction of P...

Organisms: No organisms

SOPs: No SOPs

Data files: Distribution of nuclear pores in the nuclear en..., Illustration of chromosomal packing in the nucl..., Image stack 3D reconstruction of the nucleus of..., Volume calculations of nuclear structures of P....

Snapshots: No snapshots

Created: 31st Aug 2022 at 09:01, Last updated: 7th Jun 2023 at 10:28

Cellular and nuclear fractions of P. cordatum analyzed by GeLC iontrap MS/MS

The nucleus of Prorocentrum cordatum

No description specified

Submitter: Lars Wöhlbrand

Assay type: Protein Expression Profiling

Technology type: Liquid Chromatography-tandom Mass Spectrometry

Investigation: 1 hidden item

Study: Proteomic analyses of the nuclear fraction of P...

Organisms: No organisms

SOPs: No SOPs

Data files: GeLC ESI iontrap MS-based protein identification

Snapshots: No snapshots

Created: 24th Aug 2022 at 12:37, Last updated: 7th Jun 2023 at 10:28

Cellular and nuclear fractions of P. cordatum analyzed by timsTOF MS/MS

The nucleus of Prorocentrum cordatum

No description specified

Submitter: Lars Wöhlbrand

Assay type: Protein Identification

Technology type: Ion Mobility Spectrometry Mass Spectrometry

Investigation: 1 hidden item

Study: Proteomic analyses of the nuclear fraction of P...

Organisms: No organisms

SOPs: No SOPs

Data files: Shotgun proteomic data timsTOF MS/MS

Snapshots: No snapshots

Created: 25th Aug 2022 at 07:38, Last updated: 7th Jun 2023 at 10:28

FAIR Functional Enrichment

No description specified

Submitter: Yi Chen

Biological problem addressed: Gene Expression

Investigation: FAIR Functional Enrichment: Assessing and Model...

Study: FAIR Functional Enrichment

Organisms: No organisms

Models: No Models

SOPs: No SOPs

Data files: Supplementary file 1: Search Terms, Supplementary file 2: Publications surveyed

Snapshots: No snapshots

Created: 28th Nov 2022 at 13:02, Last updated: 11th Feb 2023 at 23:25

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