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ModelsMacNamara2012 - Signal transduction
MacNamara2012 - Signal transduction A toy model of signal tranduction to illustrate how different logic formalizms (Boolean, fuzzy logic and differential equations) treat state and time, is described here. This model was generated from the PKN-ToyPB.sif file available in...
2005-01-01 | MODEL1305240000 | BioModels
MetabolomicsDynamic partitioning of branched-chain amino acids-derived nitrogen supports renal cancer progression

Metabolic reprogramming is critical for tumor initiation and progression. However, the exact impact of specific metabolic changes on cancer progression is poorly understood. Here, we integrate multimodal analyses of primary and metastatic clonally-related clear cell renal cancer cells (ccRCC) gro...

2022-12-08 | MTBLS5615 | MetaboLights
ModelsChaouiya2013 - EGF and TNFalpha mediated signalling pathway
Chaouiya2013 - EGF and TNFalpha mediated signalling pathway This model is described in the article: SBML qualitative models: a model representation format and infrastructure to foster interactions between qualitative modelling formalisms and tools. Chaouiya C, Bérenguier D...
2024-09-02 | BIOMD0000000562 | BioModels
OtherPhosphoproteomic analyses reveal novel cross-modulation mechanisms between two signaling pathways in yeast.
Data from ProteomeXchange, PXD ID: PXD001445. File: vagas_O1210_369.c.mzXML. Published as part of Mol Syst Biol. 2014 Dec 9;10(12):767 . From the Abstract: {{i}} Cells respond to environmental stimuli via specialized signaling pathways. Concurrent stimuli trigger multiple pathways that integrate in...
ORGANISM(S): Yeast 
GPM32320005651 | GPMDB
Resource Reanalysis 
ProteomicsProteomic Dynamics of Breast Cancer Cell Lines Identifies Potential Therapeutic Protein Targets
Treatment and relevant targets for breast cancer (BC) remain limited, especially for triple-negative BC (TNBC). We identified 6091 proteins of 76 human BC cell lines using data-independent acquisition (DIA). Integrating prior multi-omics datasets with our proteomic results, we found that including p...
ORGANISM(S): Homo Sapiens 
2023-07-03 | PXD043471 |
TranscriptomicsAnalysis of human enteroids and colonoids (3D organoid models from small intestine and colon) exposed to chemotherapy agent 5-fluorouracil (5FU) in a dose-repeated exposure across three doses (10,100 and 1000uM) and sampled at three points (24, 48 and 72h) since initial exposure. Organoids were obtained from healthy human tissues.
ADRs (adverse drug reactions) are one of the main reasons for treatment discontinuation or alterations in dose regimens in clinical settings. Chemotherapy-induced ADRs are common, especially gastrointestinal-induced ones. Within TransQST (transqst.org), one of the main goal is to improve the in vitr...
ORGANISM(S): Homo sapiens 
2021-09-09 | E-MTAB-9134 | biostudies-arrayexpress
ModelsMontagud2022 - Prostate cancer Boolean model
Prostate cancer is the second most occurring cancer in men worldwide, and with the advances made with screening for prostate-specific antigen, it has been prone to early diagnosis and over-treatment. To better understand the mechanisms of tumorigenesis and possible treatment responses, we developed ...
2022-06-22 | MODEL2106070001 | BioModels
MetabolomicsSystematic analyses of lipid mobilization by human lipid transfer proteins

Lipid transfer proteins (LTPs) maintain the specialised lipid compositions of biological membranes, and many are associated with disease. In eukaryotes, they support organellar functions by transporting lipids between compartmentalised metabolic pathways. However, for the majority of the hundreds...

2025-11-14 | MTBLS9567 | MetaboLights
ProteomicsGenomic determinants of protein abundance variation in colorectal cancer cell lines
Assessing the impact of genomic alterations on protein networks is fundamental in identifying the mechanisms that shape cancer heterogeneity. We have used isobaric labelling to characterize the proteomic landscapes of 50 colorectal cancer cell lines and to decipher the functional consequences of som...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
MSV000081528 | MassIVE
ModelsT-Cell Signaling 2006
Background Structural analysis of cellular interaction networks contributes to a deeper understanding of network-wide interdependencies, causal relationships, and basic functional capabilities. While the structural analysis of metabolic networks is a well-established field, similar methodologies hav...
2691 | Cell Collective
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