Lung tissue from knock-in mice expressing common variants of human APOE (APOE2, APOE3 and APO4) showed differences in gene expression that causally impacted the outcome of COVID-19 infection. APOE2 and APOE4 knock-in mice had increased disease progression and mortality relative to APOE3 knock-in mice. Human data from the UK Biobank supports the finding that genetic variation in APOE partially explains the variation in severity of COVID-19 disease outcomes.
In a zebrafish model of progressive retinal degeneration, inflammation alone was not sufficient to trigger Müller glia reprogramming into multipotent retinal progenitors. Single cell RNA-seq showed that notch signaling remained active with progressive degeneration in contrast to what has been seen previously with acute injury.
A detailed performance evaluation of Evercode™ WT v2 that highlights improved gene and transcript detection, robustness across samples, and no bias in gene expression data. Multiple sample types were assessed, including cells and nuclei.
Introduces hdWGCNA, an analysis framework supporting system-level analysis of data from complex biological systems. Data was integrated from the 1M Evercode WT Mega v1 Type-1 Diabetes dataset from human PBMCs to demonstrate utility and scalability.
Gene expression studies on the brains of mice with prion disease identified shared gene signatures with human prion disease, providing clues to molecular mechanisms. Incorporation of a protein denaturation step allowed the removal of the samples from a BSL-3 to a BSL-2 lab for the library preparation and sequencing steps.
Two transcription factors required for the development of ovarian granulosa cells, (a necessary and previously lacking component of human ovary organoids) were identified. Human iPSCs were induced to differentiate into human ovary organoids, whose identities were confirmed based on differential gene expression.
Microglia are brain cells with a role in Alzheimer’s Disease development and progression. A knock-out mouse model revealed a role for microglia in protecting brains by removing calcium deposits.
Full length transcript isoforms were identified using long-read sequencing on the PacBio platform with a protocol modification described as LR-Split-Seq. Applying this approach in mouse muscle cell lines, previously known and novel alternatively spliced transcript isoforms were detected.