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Genome assembly in the telomere-to-telomere era
Genome assembly in the telomere-to-telomere era
Genome sequences largely determine the biology and encode the history of an organism, and de novo assembly — the pro...
Nuclear mRNA decay: regulatory networks that control gene expression
Nuclear mRNA decay: regulatory networks that control gene expression
Proper regulation of mRNA production in the nucleus is critical for the maintenance of cellular homoeostasis during adapta...
Natural antisense transcripts as versatile regulators of gene expression
Natural antisense transcripts as versatile regulators of gene expression
Long non-coding RNAs (lncRNAs) are emerging as a major class of gene products that have central roles in cell and developm...
Understanding human uniqueness in the pre-genomic era
In this Journal Club article, Jenny Tung reflects on a 1975 paper from King and Wilson that emphasized the importance of g...
A developmental exit from totipotency
A developmental exit from totipotency
A paper in Nature Genetics identifies a mechanism involving the transcription factor DUXBL that controls the development o...
SIMPLE-seq to decode DNA methylation dynamics in single cells
SIMPLE-seq to decode DNA methylation dynamics in single cells
In this Tools of the Trade article, Dongsheng Bai and Chenxu Zhu describe SIMPLE-seq, a scalable single-cell sequencing me...
Human embryonic genetic mosaicism and its effects on development and disease
Human embryonic genetic mosaicism and its effects on development and disease
Nearly every mammalian cell division is accompanied by a mutational event that becomes fixed in a daughter cell. When carr...
Pleiotropy, epistasis and the genetic architecture of quantitative traits
Pleiotropy, epistasis and the genetic architecture of quantitative traits
Pleiotropy (whereby one genetic polymorphism affects multiple traits) and epistasis (whereby non-linear interactions betwe...
Genetic variation across and within individuals
Genetic variation across and within individuals
Germline variation and somatic mutation are intricately connected and together shape human traits and disease risks. Germl...
AIRE targets poised promoters enriched for Z-DNA
AIRE targets poised promoters enriched for Z-DNA
A paper in Nature reports a ‘Z-DNA-anchored’ model for the target specificity of the transcription factor AIRE...
Building a catalogue of short tandem repeats in diverse populations
Reflecting on the importance of short tandem repeats (STRs) in population genetics, Ning Xie highlights a 2023 publication...
Global genomic diversity for All of Us
Global genomic diversity for All of Us
A publication in Nature reports the data release of around 245,000 clinical-grade whole-genome sequences as part of the NI...
The evolution of modifier genes
In this Journal Club, Yoav Ram recalls how he reconciled results from his own research with the reduction principle throug...
Dynamics of ER stress-induced gene regulation in plants
Dynamics of ER stress-induced gene regulation in plants
Endoplasmic reticulum (ER) stress is a potentially lethal condition that is induced by the abnormal accumulation of unfold...
The regulatory landscape of chromatin accessibility
The regulatory landscape of chromatin accessibility
A study in Nature Genetics identifies many regulators of genome-wide chromatin accessibility and then reports the mechanis...
Competition between sites of meiotic recombination in snakes
Competition between sites of meiotic recombination in snakes
A study in Science reports that corn snakes use both PRDM9 and promoter-like features to direct meiotic recombination, ind...
Short tandem repeats — how microsatellites became the currency of forensic genetics
Short tandem repeats (STRs), also known as microsatellites, are the primary markers of forensic genetics for developing in...
Sequence composition changes in short tandem repeats: heterogeneity, detection, mechanisms and clinical implications
Sequence composition changes in short tandem repeats: heterogeneity, detection, mechanisms and clinical implications
Short tandem repeats (STRs) are a class of repetitive elements, composed of tandem arrays of 1–6 base pair sequence ...
Genetics of chronic respiratory disease
Genetics of chronic respiratory disease
Chronic respiratory diseases, such as chronic obstructive pulmonary disease (COPD), asthma and interstitial lung diseases ...
How ancient genes form animal body plans
Hajk-Georg Drost recalls a 2010 publication that used a phylotranscriptomic approach to estimate the age of genes that con...
Changes in cell-cycle rate drive diverging cell fates
Kate Galloway highlights a paper by Kueh et al., who showed that the cell cycle indirectly influences concentrations of th...
Unveiling the expanding protein universe of life
In this Journal Club, Hajk-Georg Drost highlights a recent study by Pavlopoulos et al. that organizes proteins at tree-of-...
Targeting and engineering long non-coding RNAs for cancer therapy
Targeting and engineering long non-coding RNAs for cancer therapy
RNA therapeutics (RNATx) aim to treat diseases, including cancer, by targeting or employing RNA molecules for therapeutic ...
The continuum of transcription factor affinities
Carl G. de Boer highlights a recent paper by Lim et al. on the importance low-affinity transcription factor-binding sites ...
The origin and evolution of Wnt signalling
The origin and evolution of Wnt signalling
The Wnt signal transduction pathway has essential roles in the formation of the primary body axis during development, cell...
Plant pangenomes for crop improvement, biodiversity and evolution
Plant pangenomes for crop improvement, biodiversity and evolution
Plant genome sequences catalogue genes and the genetic elements that regulate their expression. Such inventories further r...
Single-cell sequencing of diverse microorganisms
Single-cell sequencing of diverse microorganisms
Lan et al. report a high-throughput method for single-cell sequencing of diverse microbial communities.
Fitness effects of mutations throughout evolution
Fitness effects of mutations throughout evolution
A study in Science uses bacteria from the Long-Term Evolution Experiment to report on how fitness effects of mutations cha...
Sequencing and characterizing short tandem repeats in the human genome
Sequencing and characterizing short tandem repeats in the human genome
Short tandem repeats (STRs) are highly polymorphic sequences throughout the human genome that are composed of repeated cop...
A TRIP to understand gene regulation
A study in Nature describes how single-cell expression data can be used to understand gene regulatory landscapes in bacteria.
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