scLS – a computationally efficient differentially expressed gene detection algorithm
The proposed algorithm enables pseudotime-based dynamics without the need for explicit regression models or branch assignment Single-cell RNA sequencing (scRNA-seq) is a method to measure gene expression of individual cells, allowing observation of various cellular processes, including cell differentiation, ...
Spatial mapping of RNA turnover kinetics in the mouse brain
Gene expression is often described by measuring how much RNA is present in a cell at a given moment. But RNA levels are constantly changing as new molecules are produced and older ones are broken down. Measuring both processes ...
Immune cells offer insights on billion-dollar virus
Whiteleg shrimp studies examine key organs and pinpoint genes linked to virus response. Studies have shed light on a disease that has caused billion-dollar losses in a key commercial seafood species. Insights into the immune system of the Pacific whiteleg shrimp, ...
SPIDER improves spatial transcriptomics data using single-cell RNA sequencing
Spatial transcriptomics is a powerful technology that allows researchers to measure gene activity while preserving information about where cells are located within a tissue. Unlike traditional RNA sequencing, which can lose this spatial information when tissue is broken apart, ...
Ultrafast and reference-free sequence discovery in single-cell data
Single-cell RNA sequencing has made it possible to measure gene activity in millions of individual cells. Large projects such as the Human Cell Atlas are using these technologies to build detailed maps of healthy and diseased tissues. However, most ...
ARCADIA combines RNA sequencing and spatial proteomics to reveal how tissue location shapes cell behavior
Cells are strongly influenced by their surroundings. Their behavior depends not only on which genes are active, but also on neighboring cells and the specific tissue environment they occupy. Single-cell RNA sequencing, or scRNA-seq, can measure gene activity in ...
An end-to-end computational framework for “Record-seq” transcriptional recording data
RNA sequencing, or RNA-seq, provides a snapshot of which genes are active in a biological sample at the time it is collected. Record-seq takes a different approach. Instead of measuring RNA directly at one moment, it allows engineered bacteria ...
A functionally integrated cross-tissue alternative splicing program during short-term calorie restriction
Aging is a major risk factor for chronic diseases, and calorie restriction (CR) is a robust non-pharmacological intervention that can extend health span in multiple species. Alternative splicing (AS) generates multiple RNA isoforms from a single pre-mRNA and becomes ...
ExoShorkie – predicting RNA-seq coverage of exogenous genomes in yeast by transfer learning
RNA sequencing, or RNA-seq, allows researchers to measure which parts of a genome are being transcribed into RNA and how strongly those regions are expressed. Being able to predict RNA-seq coverage directly from DNA sequence could help scientists better ...
Dietary oxidized plant sterol shifts macrophage state to fuel aortic inflammation
A new study published in Engineering uses single-cell RNA sequencing (scRNA-seq) to unpack how phytosterol oxidation products (POPs), common dietary lipid derivatives, alter vascular cell heterogeneity and drive atherosclerosis (AS) through defined inflammatory signaling pathways. Atherosclerosis is a chronic inflammatory cardiovascular ...
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Most Shared Posts
- Upcoming Conference – The Festival of Genomics & Biodata
- Gene trajectory inference for single-cell data by optimal transport metrics
- Upcoming Workshop – Advanced Topics in Single Cell RNA-Seq Analysis: Multiomics ATAC-Seq & RNA-Seq
- BAP-seq – bioorthogonal masked acylating agents for proximity-dependent RNA labelling
- Single-cell RNA-seq of the rare virosphere reveals the native hosts of giant viruses in the marine environment
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