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ModelsPfeiffer2001_ATP-ProducingPathways_CooperationCompetition
This model is from the article: Cooperation and Competition in the Evolution of ATP-Producing Pathways Thomas Pfeiffer, Stefan Schuster, Sebastian Bonhoeffer Science 2001 Apr; Volume:292 (Issue:5516); Page info:504-7 11283355 ...
2024-09-02 | BIOMD0000000337 | BioModels
ModelsGarde2020 - metabolic oscillations in Bacillus subtilis biofilms
Ravindra Garde, Bashar Ibrahim & Stefan Schuster. Extending the minimal model of metabolic oscillations in Bacillus subtilis biofilms. Scientific Reports 10, 1 (2020). Biofilms are composed of microorganisms attached to a solid surface or floating on top of a liquid surface. They pose challenges in...
2024-09-02 | BIOMD0000001053 | BioModels
ModelsStavrum2013 - Tryptophan Metabolism in Liver
Stavrum2013 - Tryptophan Metabolism in Liver This model is described in the article: Model of tryptophan metabolism, readily scalable using tissue-specific gene expression data. Stavrum AK, Heiland I, Schuster S, Puntervoll P, Ziegler M. J. Biol. Chem. 2013 Nov; 288(48): ...
2024-09-02 | BIOMD0000000602 | BioModels
ModelsGebauer2016 - Genome-scale model of Caenorhabditis elegans metabolism (without bacteria)
Gebauer2016 - Genome-scale model of Caenorhabditis elegans metabolism (without bacteria) This model is one of the two versions of ElegCyc presented in the paper. It describes the metabolism of a worm raised in a medium without bacteria. This model is described in the article: A Genome-Sca...
2017-04-20 | MODEL1704200000 | BioModels
ModelsGebauer2016 - Genome-scale model of Caenorhabditis elegans metabolism (with bacteria)
Gebauer2016 - Genome-scale model of Caenorhabditis elegans metabolism (with bacteria) This model is one of the two versions of ElegCyc presented in the paper. It describes the metabolism of a worm raised in a medium with bacteria This model is described in the article: A Genome-Scale Data...
2017-04-20 | MODEL1704200001 | BioModels
TranscriptomicsNOTCH1 activation in breast cancer confers sensitivity to inhibition of SUMOylation
Breast cancer is genetically heterogeneous, and recent studies have underlined a prominent contribution of epigenetics to the development of this disease. To uncover new synthetic lethalities with known breast cancer oncogenes, we screened an epigenome-focused short hairpin RNA library on a panel...
ORGANISM(S): Homo sapiens 
2014-11-21 | E-GEOD-61727 | biostudies-arrayexpress
ProteomicsUnveiling the Peptide Motifs of HLA-C and HLA-G from Naturally Presented Peptides and Generation of Binding Prediction Matrices
The classical HLA-C and the nonclassical HLA-E and HLA-G molecules play important roles both in the innate and adaptive immune system. Starting already during embryogenesis and continuing throughout our lives, these three Ags exert major functions in immune tolerance, defense against infections, and...
ORGANISM(S): Homo sapiens (Human) 
2018-04-20 | PXD009531 | Pride
Hla-e Hla-g Binding prediction  peptide motifs Hla-c Lc-msms 
ProteomicsAcute BAF perturbation causes immediate changes in chromatin accessibility
Loss-of-function mutations in genes coding for subunits of the large, multifarious BRG1/BRM associated factor (BAF) chromatin remodeling complexes are frequently causative for cancer or developmental diseases1-5. Cells lacking the most frequently mutated subunits like the ATPase SMARCA4 typically ex...
ORGANISM(S): Homo sapiens (Human) 
2020-12-23 | PXD018381 | Pride
Atac-seq Enhancer Dtag knock-in Chromatin remodeling Baf complex Chromatin accessibility Acute chemical degradation Synthetic lethality Mammalian swi/snf complex Kinetics 
ProteomicsValidation of a high-performance liquid chromatography-tandem mass spectrometry immunopeptidomics assay for the identification of HLA ligands suitable for pharmaceutical therapies
For more than two decades naturally presented, human leukocyte antigen (HLA)-restricted peptides (immunopeptidome) have been eluted and sequenced using liquid chromatography-tandem mass spectrometry (LC-MS/MS). Since, identified disease-associated HLA ligands have been characterized and evaluated as...
ORGANISM(S): Homo sapiens (Human) 
2020-01-15 | PXD012797 | Pride
Validation Mass spectrometry Gmp Cancer immunotherapy Immunopeptidome Lc–ms/ms 
ProteomicsChromatin isolation for mass spectrometry
The histone acetyl-reader BRD4 is an important regulator of chromatin structure and transcription, yet factors modulating its activity have remained elusive. Here we describe two complementary screens for genetic and physical interactors of BRD4, which converge on the folate pathway enzyme MTHFD1. W...
ORGANISM(S): Homo sapiens (Human) 
2019-04-04 | PXD013090 | Pride
Transcription Brd4 Mthfd1 Folate metabolism Gene regulation 
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