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The use of visual analytics software to allow human interaction with dataset is increasingly recognized as relevant to gaining novel insights into biological datasets beyond purely biostatistical approaches.
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To explore this further, we compare sets of sensitivity- and fitness-based genetic interactions with datasets generated by Workman et al [ 12] describing MMS-induced differential gene expression and protein-DNA interactions in the presence of MMS.
Meyohas mentions that archive theory is an important aspect of the project, "in a sense, each interaction with a dataset becomes a part of the archive that interaction is traced, and inscribed as additional data that can be made to offer up a second level of information".
We observe that the correlation between TIC with exclusion and median or noise level normalization factors is high (>0.91), indicating that these normalization will give similar results, without the requirement for manual interaction with the dataset.
Similarly, the interplay between energy and protein intakes could be important but we were not able to adequately assess these interactions with this dataset.
As an alternative to the machine-compatible web API's, a GUI based dashboard webapp was created to facilitate human interaction with the integrated dataset.
This procedure enables users to compare their own interactions with existing datasets or to assess them by confidence servers.
As can be seen, considerable percent variances of evolutionary rate explained by ePPID remain in all the six protein interaction datasets, with the exception of "DIP-CORE".
This analysis also showed a negative correlation between the CLR and the content of membrane interactions in the network, suggesting that the CLR is valid mainly for interaction datasets with a lower coverage of membrane PPIs.
These results show that the correlation between high node degree proteins and essentiality that resulted in the CLR is biased due to interaction datasets with an under-representation of membrane proteins.
Proteins found to not have any known interaction with other proteins in the dataset were not displayed, facilitating the focus on proteins that have known annotations.
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