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i.e, 1 c ∑ k (r i (k ) ) 2 ≥ 0.35 for the gene pair i, where there are c valid correlation estimations (c=32 if there are no missing values) and k is dataset index corresponding to all valid correlation estimations; and (2) the Wilcoxon ranksum test of correlations between cancer and non-cancer datasets gives a p-value <= 0.01.
Note that for the estimation of the relationship between counts of cases and holding size for the CSFS dataset, index cases, those detected through the regular surveillance activities (for further details see [ 13, 14]) that triggered the incorporation of the holdings in the CSFS, were initially included in the analyses.
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This paper presents the overall design and development of the Data Atlas, its associated dataset indexing and retrieval services that originated from the development of the N4U Virtual Laboratory in the EU FP7 N4U project in the light of detailed user requirements.
A larger dataset, indexed by disease and clinical condition, would overcome many of these potential biases.
To supplement information about datasets indexed within Datasets2Tools, NCBI eSearch and eSummary API, and the LINCS Data Portal API, were used to query these resources to obtain metadata.
The Chrome extension enhances biomedical data repositories by embedding links to canned analyses generated from the datasets indexed within these repositories.
Household factors have been explored in other work [ 10, 11] but hospital-related factors remain a subject for future research, and would require a larger dataset of index patients admitted to non-isolation wards, or methodologies treating entire wards rather than individual index patients as the unit of analysis.
Similarly, CCSphase scores for the cycling gene dataset could index the proportion of cells at the cell cycle phase per cycling cells.
CCScycling scores for the cycling gene dataset could index the proportion of cycling cells per cycling cells and thus would show constant values.
CCScycling and CCSphase scores for the total gene dataset could index the proportion of cycling cells and of cells at the designated cell cycle phase per total cells, respectively.
For each dataset, we indexed data according to a day interval.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com