Trends in Genetics

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Portals for Exploring Noncoding Variants in Pediatric Cancer

Zhou et al. present GenomePaint, a dynamic web-based data portal for exploring noncoding somatic alterations in cancer by genomic location. Multiple omics platforms – including whole-genome, whole-exome, transcriptome, and epigenome – can be visualized together. The portal incorporates data from >3800 pediatric tumors, and users may upload their...

Polycomb Gene Silencing Mechanisms: PRC2 Chromatin Targeting, H3K27me3 'Readout', and Phase Separation-Based Compaction

Modulation of chromatin structure and/or modification by Polycomb repressive complexes (PRCs) provides an important means to partition the genome into functionally distinct subdomains and to regulate the activity of the underlying genes. Both the enzymatic activity of PRC2 and its chromatin recruitment, spreading, and eviction are exquisitely regulated...

Tetracentron sinense (Trochodendraceae)

Tetracentron sinense is a deep-rooted, heliophilous, deciduous tree belonging to the Trochodendraceae family. T. sinense trees are beautifully shaped and are mainly distributed in the temperate and subtropical regions of East Asia. The tendency of T. sinense trees to grow on inaccessible, high-altitude hillsides (at 1100 m above sea level) may indicate...

Histone Ubiquitination: An Integrative Signaling Platform in Genome Stability

Complex mechanisms are in place to maintain genome stability. Ubiquitination of chromatin plays a central role in these mechanisms. The ever-growing complexity of the ubiquitin (Ub) code and of chromatin modifications and dynamics challenges our ability to fully understand how histone ubiquitination regulates genome stability. Here we review the current...

Piecing together the Pediatric Brain Tumor Puzzle

A recent study by Petralia et al. of 218 pediatric brain tumors across seven different entities applied an integrated approach incorporating proteomics, phosphoproteomics, whole-genome sequencing, and RNA sequencing. This elegant study unveiled new signaling pathways, the composition of tumor microenvironments, and functional effects of copy number...

The Genome Atlas: Navigating a New Era of Reference Genomes

The reference genome serves two distinct purposes within the field of genomics. First, it provides a persistent structure against which findings can be reported, allowing for universal knowledge exchange between users. Second, it reduces the computational costs and time required to process genomic data by creating a scaffold that can be relied upon...

Speed–Specificity Trade-Offs in the Transcription Factors Search for Their Genomic Binding Sites

Transcription factors (TFs) regulate gene expression by binding DNA sequences recognized by their DNA-binding domains (DBDs). DBD-recognized motifs are short and highly abundant in genomes. The ability of TFs to bind a specific subset of motif-containing sites, and to do so rapidly upon activation, is fundamental for gene expression in all eukaryotes....

BiasWatchIndia

Shruti Muralidhar

Biosensing Detection of the SARS-CoV-2 D614G Mutation

The emergence of a mutant strain of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) with an amino acid change from aspartate to a glycine residue at position 614 (D614G) has been reported and this mutant appears to be now dominant in the pandemic. Efficient detection of the SARS-CoV-2 D614G mutant by biosensing technologies is therefore...

Haemaphysalis longicornis

Geographical distribution and genomic features of H. longicornis. (A) Recorded locations of H. longicornis worldwide. Closed red circles represent the county-level regions, and open circles represent the prefecture-level regions. (B) H. longicornis genome analysis. From the outer circle to the inner circle including, chromosome size, Illumina data coverage,...

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