9 papers · ranked by Valyu relevance
Himanshu Goel, Miklos Sahin -Toth
Accurate interpretation of genomic variation is central to rare disease diagnosis. Since publication of the ACMG/AMP variant classification framework in 2015, clinical laboratories have adopted increasingly standardised approaches for assessing pathogenicity, improving consistency across institutions and enabling more…
Huihai Wu, Ashleigh Lister, Iain Macaulay, Katie Long + 10 more
Single-cell and spatial transcriptomics are transforming our understanding of cellular heterogeneity and tissue organization, yet their analytical complexity remains a major bottleneck. Here, we present EISCA and EISTA, two standardized, end-to-end pipelines for single-cell RNA- seq and imaging-based spatial…
Federico Vannuccini, Yari Ciani, Vera Mugoni, Orsetta Quaini + 20 more
Circulating analytes in cancer patients capture tumor-related signals. We profiled matched extracellular vesicle (EV) total RNA and cell-free DNA (cfDNA) from the same plasma aliquots of chemo-naive metastatic castration-resistant prostate cancer (mCRPC) patients treated with Enzalutamide (n=54 patients, n=119…
Alejandro Espinoza, Bruno J. de Andrade Silva, Matteo Pellegrini
Single-cell RNA sequencing technologies provide insights into gene expression at the cellular level, enabling detailed analysis of cellular heterogeneity. In this study, we systematically compared two scRNA-seq platforms,10X Genomics and Parse Biosciences, using human peripheral blood mononuclear cells (PBMCs) and…
Ru Yu, Min Gao, Lin Cai, Shuoxuan Wang + 8 more
Key message StERF87 directly activates StPR1a via GCC-box binding and integrates SA/ET signaling to enhance bacterial wilt resistance. Abstract Potato (Solanum tuberosum) is an important food crop worldwide, yet its yield is severely constrained by bacterial wilt caused by Ralstonia solanacearum. We used RNA-Seq to…
Débora Gonçalves Gouveia, Philipp Westhoff, Wesley E. B. Barrios, Mona Perrar + 7 more
Global warming is increasing the frequency and intensity of high-temperature episodes, limiting plant productivity. However, the molecular mechanisms integrating primary metabolism with the heat stress response remains poorly understood. Here, we show that lysine biosynthesis contributes to the coordination of…
Katie C. Sprinkel, Annika R. Geiger, Monique L. van Hoek
Pyrimidine biosynthesis is essential for bacterial growth, but its role in regulating biofilm formation in Francisella (F.) novicida remains poorly defined. In this study, we experimentally defined the carABpyrB operon in F. novicida and investigated how disruption of the de novo pyrimidine biosynthesis pathway affects…
Ondrej Kostov, Myriam Moreno Swanton, Katie R. Waldon, Autumn M. Matthews + 7 more
Programmed -1 ribosomal frameshifting (-1 PRF) is a conserved translational recoding mechanism that expands proteomic diversity and regulates gene expression through RNA structural elements, most notably stimulatory pseudoknots. This mechanism is common in viruses, where it is used to control stoichiometry of viral…
Yusuke Tsuruta, Hirotaka Inoue, Kenta Hagiwara, Charles S Hoffman + 1 more
An appropriate transcriptional response to external stresses is crucial for all organisms. Gene expression is regulated by transcription factors (TFs) binding to specific DNA cis-elements. However, how individual TFs achieve stress-specific binding remains elusive. Here we examine the molecular basis of the…