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Predictive data-driven modeling of C-terminal tyrosine function in the EGFR signaling networkThe site-specific function of EGFR’s C-terminal tyrosines is interrogated by phosphotyrosine phosphoproteomics to build a data-driven model that links cell response to signaling nodes and elucidates novel associations in the EGFR signaling network.
A practical comparison of the next-generation sequencing platform and assemblers using yeast genomeThis research analyzes the general and optimal de novo yeast assembly pipeline using the repetitive yeast genome assembly by benchmarking four different sequencing platforms and seven assembly programs.
Disease- and sex-specific differences in patients with heart valve disease: a proteome studyProteomics provide novel insights into molecular mechanisms and cardiac remodeling in heart failure because of pressure overload in aortic valve stenosis and volume overload in mitral valve regurgitation.
IARA: a complete and curated atlas of the biogenesis of spliceosome machinery during RNA splicingThe online atlas IARA is a curated and updated resource with genetic and molecular data on the biogenesis of human spliceosome machinery involved in RNA splicing.
Concordance of MERFISH spatial transcriptomics with bulk and single-cell RNA sequencingSingle-cell RNA-seq is an important technology for capturing gene expression in individual cells. It has limitations as spatial context and accurate representation of cell types in the tissue are lost. Here, we show that MERFISH is comparable to scRNA-seq.
Transcriptome analyses in infertile men reveal germ cell–specific expression and splicing patternsWe uncover extensive germ cell type–dependent transcriptome changes in human spermatogenesis and demonstrate the potential of alternative splicing in the regulation of spermatogenesis.
Protein and RNA ADP-ribosylation detection is influenced by sample preparation and reagents usedMono(ADP-ribosyl)ation is an emerging modification, for which recently detection reagents were generated. We cross-validated all reagents and observe remarkable differences in efficiency, depending on the substrate investigated and on the methods that are used.
Myeloma immunoglobulin rearrangement and translocation detection through targeted capture sequencingTargeted capture sequencing (CapIG-seq) is a novel, efficient, and effective approach to examine multiple genomic alterations in ctDNA and bone marrow aspirates of patients with multiple myeloma.
Intestinal single-cell atlas reveals novel lymphocytes in pigs with similarities to human cellsSingle-cell RNA sequencing of porcine ileal lymphocytes reveals similarities to human cells and discovery of porcine intestinal innate lymphoid cells.
Islet Gene View—a tool to facilitate islet researchIslet Gene View (IGW) is a web resource that makes information on gene expression in human islets from donors easily accessible to the scientific community. The relationship of global RNA expression from 188 donor-islets with islet phenotypes is explored.