Kholodenko Boris B

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Models (2)
Proteomics (2)

Organisms

Homo sapiens (2)
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Human alphaherpesvirus 1 strain 17 (2)
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Repository

BioModels (2)
pride (2)

Tissue

Pancreatic ductal cell (1)
Cell culture (1)

Disease

Pancreatic ductal adenocarcinoma (1)

Technology Type

Mass Spectrometry (2)
Data-independent acquisition (1)
Bottom-up proteomics (1)
Shotgun proteomics (1)

Publication Date

2024 (3)
2022 (1)

UNIPROT ID/AC

Q9Y6W6 (1)
Q05923 (1)
Q16690 (1)
Q13115 (1)
Q13202 (1)
P01100 (1)
P27361 (1)
P28562 (1)
P28482 (1)

IsPrivate

False (2)

Modelling Approach

Ordinary differential equation model (2)

Lab affiliation

Full Professor of Systems Biology and Director of Computational Modelling Systems Biology Ireland, University College Dublin, Dublin, Ireland. Conway Institute of Biomolecular & Biomedical Research,University College Dublin, Dublin, Ireland. School of Medicine and Medical Science, University College Dublin, Dublin, Ireland. Department of Pharmacology, Yale University School of Medicine, New Haven, CT, USA (1)
Systems Biology Ireland, University College Dublin, Belfield, Dublin 4. (1)

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Phosphoproteomics of TrkA and TrkB signaling in SH-SY5Y neuroblastoma cells

Human neuroblastoma cells (SH-SY5Y) were engineered to have stable expression of either TrkA (NTRK1) or TrkB (NTRK2) receptors. The cells were pretreated with 0.5 μM Trametinib, 2.5 μM Gefitinib, and combination of 0.25 μM Trametinib and 1.25 μM Gefitinib. Stimulation of TrkA and TrkB-expressing SH-...

ORGANISM(S): Homo sapiens (Human)

2022-04-13 | PXD028943 | Pride

Phosphoproteomics Neuroblastoma.

Nakakuki2010_CellFateDecision_Mechanistic

This mechanistic model describes the activation of immediate early genes such as cFos after EGF or heregulin (HRG) stimulation of the MAPK pathway. Phosphorylated cFos is a key transcription factor triggering downstream cascades of cell fate determination. The model can explain how the switch-like r...

2024-09-02 | BIOMD0000000250 | BioModels

Nakakuki2010_CellFateDecision_Core

This model describes the activation of immediate early genes such as cFos after EGF or heregulin (HRG) stimulation of the MAPK pathway. Phosphorylated cFos is a key transcription factor triggering downstream cascades of cell fate determination. The model can explain how the switch-like response of p...

2024-09-02 | BIOMD0000000251 | BioModels

Cell specific models reveal conformation-specific RAF inhibitor combinations that synergistically inhibit ERK signaling in pancreatic cancer cells

Pancreatic ductal adenocarcinoma (PDAC) presents significant challenges for targeted clinical interventions due to prevalent KRAS mutations, rendering PDAC resistant to RAF and MEK inhibitors (RAFi and MEKi). In addition, responses to targeted therapies vary between patients. Here, we explored the ...