papers on 13 target genes from the predicted MGPs were retrieved from PubMed (as of May 2021; Fig.5b). This paper retrieval was implemented twice, once with an additional keyword of “glioma” and the second round with “cancer.” The paper retrieval showed...
E3-degron interactions impact half-lives of substrates.aDistribution of half-lives for proteins with different densities of degrons in four non-dividing cell types. The half-lives used were replicate 1 of four cell types in original paper [39], and the results of replicate 2 were identical (...
1e). A model calculated using AlphaFold structure prediction23 showed an almost identical binding mode and suggested additional interactions between SGO1 amino acids 341–349 and SA2 (Fig. 1c). Table 1 X-ray data collection and refinement statistics Full size table Accordingly, isothermal ...
we used the Tg(gata2b:Gal4sd32) line and created theUAS:miR-128plasmid, while forfli1aexpression we createdfli1a:miR-128plasmid. One-cell-state embryo was injected with tol2 mRNA and the indicated plasmids, and WISH was
Zero measurements in scRNA-seq data have two sources: biological and non-biological (Fig.1). While biological zeros carry meaningful information about cell states, non-biological zeros represent missing values artificially introduced during the generation of scRNA-seq data. In our paper, non-biologica...
A detailed analysis of metabolite profile data reveals that the increasing-connectivity prediction is true for graphical Gaussian models in our data from early development. This mirrors properties of observed heterotic Arabidopsis phenotypes. Furthermore, the model predicts a limit for increasing hybrid ...
You can pass the output of both these prediction functions toplotHypercube.predictionfor a visualisation of the corresponding prediction. HyperTraPS will also estimate the probability of a particular state for either the discrete or the continuous time cases. In the discrete case, this is returned ...
sapiens-M. tuberculosis H37Rv PPI dataset can be found in the Additional Files 1. From Figure 1 we can observe that, like many host-pathogen PPINs, the pathogen proteins tend to be hubs in host-pathogen PPIN. Prediction of intra-species PPIs Currently no large-scale high-quality H. ...
Full-length transcriptome sequencing is a fundamental resource to study of functional, structural, and comparative genomics that are almost none in potatoes and their relatives. In this paper, we sequenced full-length transcriptomes in potatoes, by using a combination of second generation and third ge...
Table 1 Overview of the human cell line data used in this paper. Full size table SPIDER predicts accurate gene regulatory networks To begin, we benchmarked the two naïve networks using the six ChIP-seq “gold standard” networks and evaluated their accuracy based on the Area Under the Recei...