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MetabolomicsLipidomic Comparison of 2D and 3D Colon Cancer Cell Culture Models
Not available
ORGANISM(S): Homo sapiens 
ST002070 | MetabolomicsWorkbench
MetabolomicsLiquid chromatography coupled to high-resolution mass spectrometry metabolomics: A useful tool for investigating tumor secretome based on a three-dimensional co-culture model

Three-dimensional (3D) cell culture technologies, which more closely mimic the complex microenvironment of tissue, are being increasingly evaluated as a tool for the preclinical screening of clinically promising new molecules, and studying of tissue metabolism. Studies of metabolites released int...

2023-12-12 | MTBLS5375 | MetaboLights
MetabolomicsComparative non-targeted LC-MS metabolomic profiling of murine bone marrow-derived macrophages cultured in 2D versus 3D

Macrophages are key drivers of inflammatory and fibrotic diseases and their activation is shaped by interactions in their tissue microenvironment. However, dissecting the processes that drive immunopathology has proved challenging as traditional 2D culture methods fail to capture the complex mole...

2026-06-08 | MTBLS12917 | MetaboLights
ProteomicsLabel-free quantification of 3D MCF10A cell culture proteome (DIA)
Global shotgun proteomic analysis using data independent acquisition (DIA) and Spectronaut analysis on the input cell lysates before the enrichment step in proximity labeling experiments, specifically MCF10A cells stably expressing miniTurbo-BAD in 3D with biotin treatment (n=4)
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2024-05-21 | MSV000094825 | MassIVE
ProteomicsBAD BioID in 2D MCF10A cell culture
BioID proximity labeling experiment on Bcl2-associated agonist of cell death (BAD) using BAD-miniTurbo stable cell line in MCF10A, 2D cell culture. Sample: BAD-turbo-biotin; controls: BAD-biotin, turbo-biotin, BAD-turbo (n=3).
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2023-11-10 | MSV000093357 | MassIVE
ProteomicsA comparison of human skeletal muscle cell maturation in 2D versus 3D culture: A quantitative proteomic study C4PR_LIV
Background Three-dimensional (3D) bioengineered models of human skeletal muscle are a promising approach for studying muscle development, function and disease in vitro. These models more closely resemble the complexity of native muscle tissue than two-dimensional (2D) monolayer culture and allow for...
ORGANISM(S): Homo sapiens (Human) 
2025-06-23 | PXD061227 | Pride
Bioengineering In vitro models Skeletal muscle Maturation Proteomics 3d culture Hydrogel 
TranscriptomicsExpression data of two human cancer cell lines cultivated in 2-dimensional (2D) vs. 3-dimensional (3D) cell culture
3D cultivation of cells lead to changes in morphology of the cells. This is likely to explain the higher radioresistance of cells growing in 3D compared to cells growing in 2D cell culture. Whole genome gene expression is performed to determine genes involved in changes of cell moroholgy and radiore...
ORGANISM(S): Homo sapiens 
2010-07-30 | E-GEOD-17347 | biostudies-arrayexpress
ProteomicsAnalysis of extracellular matrix proteins from 3D cultures of primary prostate fibroblasts, DU145 cells and mixed cells
Composition and organization of extracellular matrix (ECM) in tumor stroma are important regulators of cancer cell behavior. Therefore, ECM produced by cancer associated fibroblasts is often used in in vitro experiments. Here, a proteome wide analysis of ECM proteins in 3D culture is analysed.
ORGANISM(S): Homo sapiens (Human) 
2018-03-13 | PXD006563 | Pride
3d culture Prostate cancer Fibroblast Extracellular matrix 
TranscriptomicsTranscription profiling of 25 breast cancer cell lines grown in 2D and 3D tissue culture conditions
A comparison of gene expression profiles for 25 breast cancer cell lines grown in 2D and 3D tissue culture conditions
ORGANISM(S): Homo sapiens 
2007-05-02 | E-TABM-244 | biostudies-arrayexpress
ProteomicsiTRAQ-Based Quantitative Proteomic Comparison of 2D and 3D Adipocyte Cell Models Co-cultured with Macrophages Using Online 2D-nanoLC-ESI-MS/MS
The demand for novel three-dimensional (3D) cell culture models of adipose tissue has been increasing, and proteomic investigations are important for determining the underlying causes of obesity, type II diabetes, and metabolic disorders. In this study, we performed global quantitative proteomic pro...
ORGANISM(S): Mus musculus (Mouse) 
2020-05-26 | PXD014437 | Pride
3d-culture Macrophages Adipocytes Proteomic quantification Itraq 
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