Article ; Online: DRUGPATH - a novel bioinformatic approach identifies DNA-damage pathway as a regulator of size maintenance in human ESCs and iPSCs.
2019 Volume 9, Issue 1, Page(s) 1897
Abstract: Genetic and biochemical screening approaches often fail to identify functionally relevant pathway networks because many signaling proteins contribute to multiple gene ontology pathways. We developed a DRUGPATH-approach to predict pathway-interactomes ... ...
Abstract | Genetic and biochemical screening approaches often fail to identify functionally relevant pathway networks because many signaling proteins contribute to multiple gene ontology pathways. We developed a DRUGPATH-approach to predict pathway-interactomes from high-content drug screen data. DRUGPATH is based upon combining z-scores of effective inhibitors with their corresponding and validated targets. We test DRUGPATH by comparing homeostatic pathways in human embryonic stem cells (hESCs), human induced pluripotent stem cells (hiPSCs) and human amniotic fluid stem cells (hAFSCs). We show that hAFSCs utilize distinct interactomes compared to hESCs/hiPSCs and that pathways orchestrating cell cycle and apoptosis are strongly interconnected, while pathways regulating survival and size are not. Interestingly, hESCs/hiPSCs regulate their size by growing exact additional sizes during each cell cycle. Chemical and genetic perturbation studies show that this "adder-model" is dependent on the DNA-damage pathway. In the future, the DRUGPATH-approach may help to predict novel pathway interactomes from high-content drug screens. |
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MeSH term(s) | Apoptosis/drug effects ; Ataxia Telangiectasia Mutated Proteins/antagonists & inhibitors ; Ataxia Telangiectasia Mutated Proteins/genetics ; Ataxia Telangiectasia Mutated Proteins/metabolism ; Cell Cycle Checkpoints/drug effects ; Cell Size/drug effects ; Computational Biology/methods ; DNA Damage ; Dimethyl Sulfoxide/pharmacology ; Enzyme Inhibitors/pharmacology ; Human Embryonic Stem Cells ; Humans ; Indazoles/pharmacology ; Induced Pluripotent Stem Cells ; RNA Interference ; RNA, Small Interfering/metabolism ; Sulfonamides/pharmacology |
Chemical Substances | 2-(1H-indazol-4-yl)-6-(4-methanesulfonylpiperazin-1-ylmethyl)-4-morpholin-4-ylthieno(3,2-d)pyrimidine ; Enzyme Inhibitors ; Indazoles ; RNA, Small Interfering ; Sulfonamides ; Ataxia Telangiectasia Mutated Proteins (EC 2.7.11.1) ; Dimethyl Sulfoxide (YOW8V9698H) |
Language | English |
Publishing date | 2019-02-13 |
Publishing country | England |
Document type | Journal Article |
ZDB-ID | 2615211-3 |
ISSN | 2045-2322 ; 2045-2322 |
ISSN (online) | 2045-2322 |
ISSN | 2045-2322 |
DOI | 10.1038/s41598-018-37491-w |
Database | MEDical Literature Analysis and Retrieval System OnLINE |
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