Functional high-resolution time-course expression analysis of human embryonic stem cells undergoing cardiac induction.

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Anticipated technological progress in deriving stably expandable cardiac precursor cells or in advancing cardiac subtype specification protocols will likely require deeper insights into this fascinating system. Recent improvements in controlling hESC differentiation now enable a near-homogeneous induction of the cardiac lineage. This is based on an optimized initial stimulation of mesoderm-inducing signaling pathways such as Activin and/or FGF, BMP, and WNT, followed by WNT inhibition as a secondary requirement. Here, we describe a comprehensive data set based on varying hESC differentiation conditions in a systematic manner and recording high-resolution differentiation time-courses analyzed by genome-wide expression profiling (GEO accession number GSE67154). As a baseline, hESCs were differentiated into cardiomyocytes under optimal conditions. Moreover, in additional time-series, individual signaling factors were withdrawn from the initial stimulation cocktail to reveal their specific roles via comparison to the standard condition. Hence, this data set presents a rich resource for hypothesis generation in studying human cardiac induction, as we reveal numbers of known as well as uncharacterized genes prominently marking distinct intermediate stages in the process. These data will also be useful for identifying putative cardiac master regulators in the human system as well as for characterizing expandable cardiac stem cells.", "claims": [{"id": "claim-method", "statement": "Hierarchical clustering of genes was performed with standardized Euclidean metrics and the Ward linkage method [5].", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:27722090", "locator": "sections[4] \"Technical and biological data quality assessment\" paragraph 3", "quote": "Hierarchical clustering of genes was performed with standardized Euclidean metrics and the Ward linkage method [5]."}], "state": "complete"}, {"id": "claim-data-access", "statement": "Deposited data can be found here: http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE67154.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:27722090", "locator": "sections[1] \"Direct link to deposited data\" paragraph 3", "quote": "Deposited data can be found here: http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE67154."}], "state": "complete"}, {"id": "claim-target-result", "statement": "The paper background-subtracted and normalized array data using the Cubic Spline algorithm in GenomeStudio, and deposited the source data in GEO under accession GSE67154.", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:27722090", "locator": "sections[4] \"Technical and biological data quality assessment\" paragraph 2", "quote": "Following these routine checks, all separately hybridized samples were background-subtracted and normalized using the Cubic Spline algorithm in GenomeStudio."}, {"asset": "source:pmid:27722090", "locator": "sections[1] \"Direct link to deposited data\" paragraph 3", "quote": "Deposited data can be found here: http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE67154."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "The paper background-subtracted and normalized array data using the Cubic Spline algorithm in GenomeStudio, and deposited the source data in GEO under accession GSE67154.", "steps": [{"id": "read_published_estimate", "order": 1, "name": "Read the published estimate from the source", "kind": "other", "state": "complete", "blocked_on": null, "description": "The claim, method and evidence span published with the source article.", "duration_hours": null, "parameters": {}, "inputs": ["source:pmid:27722090"], "outputs": ["the published estimate and its evidence"], "instruments": [], "reagents": []}, {"id": "obtain_source_data", "order": 2, "name": "Obtain the source data from the named repository", "kind": "data-preparation", "state": "complete", "blocked_on": null, "description": "The GEO series accession resolves and its sample accessions are listed. 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