Gene expression inference with deep learning[github][paper] This deals with a specific prediction task, namely to predict the expression of specified target genes from a panel of about 1,000 pre-selected “landmark genes”. As the authors explain, gene expression levels are often highly correlate...
Supermeres are highly enriched with cargo involved in multiple cancers (glycolytic enzymes, TGFBI, miR-1246, MET, GPC1 and AGO2), Alzheimer’s disease (APP) and cardiovascular disease (ACE2, ACE and PCSK9). The majority of extracellular RNA is associated with supermeres rather than small ...
Moreover, the noise correction scheme for human brain measurements has not been validated experimentally. Here, we developed a fiber-based SCOS system capable of measuring human CBF and brain function non-invasively. We created and experimentally validated a data analysis pipeline to remove the bias...
Studies on the exposure to drugs of abuse and alcohol were also categorized as “studies of exposure to environmental toxicants”. Among these publications, a study of alcohol exposure and stress response in the unexposed offspring is particularly innovative [82]. In this paper, the exposure to ...
(Additional file1: Table S8). In general, higherD-statistics have been observed within the coreCausonisclade, suggesting frequent hybridizations in the recent divergence of the genus (Additional file2: Fig. S5), which is consistent with previous findings [31]. On the contrary, no strong ...
In addition to the frequency threshold, Fisher’s exact test was used to determine if the frequency of the iSNV is significantly higher than the mean error rate at that position (see contingency table, Additional file 1: Table S6). Based on the iSNVs called, mismatches in the primer ...
While this paper has focused on higher-order differential analysis, the complementary problem of differential analysis of individual transcripts can also benefit from some of the aggregation ideas described here. The stageR method, recently described in Van den Berge et al. [26], incorporates a two...
A simplified scheme of p53 regulation in cells upon stress and the drugs currently evaluated in clinical trials for p53 reactivation for improved therapy in MDS and AML. In normal cells, p53 protein is activated by numerous stress conditions like, oncogene activation, telomere shortening, replication...
S6a for a visual explanation of the simulation scheme. The total change in ΔH is obtained from both contributions of ΔHB = H(γ') − H(γ) and ΔHM. (3). The hypothetical state γ' is accepted with a probability as given by the Metropolis criterion. Results Prechordal ...
Fig. 1: Daxx loss alters the chromatin landscape and transcription in LT-HSCs.a, Overview scheme of haematopoiesis. ST-HSC, short-term haematopoietic stem cells; MegE, megakaryocyte-erythrocyte; MEP, megakaryocyte-erythrocyte progenitor; GM, granulocyte-monocyte. b...