The dataset consists of the sequence for the ALKATI gene. EMBL and FATSA data can be viewed as html or downloaded as TXT and FASTA respectively. This was deposited in the NCBI Nucleotide database as well as the European Nucleotide Archives. The NCBI Nucleotide database includes a graphics sequence viewer.

To improve identification of canonical and non-canonical protein isoforms, we introduced ProteomeGenerator, a framework for reference-guided and de novo proteogenomic database generation from transcriptomic sequencing dataset. The proteomic databases output by ProteomeGenerator contain only proteins encoded by actively transcribed genes, and includes sample-specific protein isoforms resulting from...

Description from GEO: "We used CRISPR/Cas9-mediated knockout of PRC2 core components, Eed and generated PRC2-isogenic murine mammary tumor model (AT3, sgCon vs. sgEed ) amenable for syngeneic transplant in C57BL/6J mice. Transcriptome analysis of the explanted PRC2-wt (sgCon) and PRC2-loss (sgEed) AT3 tumors by RNA-seq demonstrated that PRC2 loss led to the upregulation of various developmental pathways,...

Description from GEO: "PRC2 loss of function occurs frequently in human MPNST. Here, we found that PRC2-loss tumors are separated from PRC2-wt ones at the transcriptome level by RNA-seq among 41 human MPNST tumor tissues." Overall design from GEO: "mRNA profiling of 41 human MPNST tumors including 15 PRC2-wt and 26 PRC2-loss tumors"

Abstract from repository: "Transcriptional and epigenetic profiling of single-cells has advanced our knowledge of the molecular bases of gastrulation and early organogenesis. However, current approaches rely on dissociating cells from tissues, thereby losing the crucial spatial context that is necessary for understanding cell and tissue interactions during development. Here, we apply an image-based...

Summary from GEO: " Immune cell activation is a very rapid and concerted cellular response that requires coordination between cellular processes that occur in different compartments and on very different time scales. Here, we use ribosome profiling and deep RNA sequencing to define the acute mRNA translation changes that follow initial signaling events and enable subsequent events of T cell activation...

Summary from GEO: "The human immune system displays remarkable variation between individuals, leading to differences in susceptibility to autoimmune disease. We present single cell RNA sequence data from 1,267,768 peripheral blood mononuclear cells from 982 healthy human subjects. For 14 cell types, we identified 26,597 independent cis-expression quantitative trait loci (eQTLs) and 990 trans-eQTL,...

Summary from GEO: "The human immune system displays remarkable variation between individuals, leading to differences in susceptibility to autoimmune disease. We present single cell RNA sequence data from 1,267,768 peripheral blood mononuclear cells from 982 healthy human subjects. For 14 cell types, we identified 26,597 independent cis-expression quantitative trait loci (eQTLs) and 990 trans-eQTL,...