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When the genome learned its own vocabulary
In this Journal Club article, Maria Brbić discusses DeepSEA, a pioneering deep convolutional neural network to predic...
Mechanisms of DNA specificity in chromatin remodelling
In this Journal Club, Lu Bai highlights a 2021 paper by Donovan et al. that brought mechanistic clarity to the question of...
The epigenetic nature of X chromosome inactivation
In this Journal Club, Claudia Keller Valsecchi recalls two seminal studies by Csankovszki et al. and by Wutz and Jaenisch ...
Nutrition signals the brain to reactivate quiescent neural stem cells
In this Journal Club article, Hongyan Wang highlights two papers that elucidated the signalling mechanisms and inter-organ...
Prime editing: redefining precision genome editing
In this Journal Club article, Qiupeng Lin recalls the 2019 paper by Anzalone et al. that introduced prime editing, and ref...
RNA design across eras: from covariance models to modern generative AI
In this Journal Club, Annalisa Marsico describes a 1994 paper by Eddy and Durbin that formalized RNA sequence analysis wit...
Resolving structural variants in pangenome graphs with Swave
Resolving structural variants in pangenome graphs with Swave
In this Tools of the Trade article, Songbo Wang introduces Swave, an AI-enhanced sequence-to-image method capable of detec...
Evolutionary genetics of ageing
Evolutionary genetics of ageing
Modern humans now routinely survive to advanced ages, in far greater proportions than ancestral populations, and thus expe...
Profiling the total transcriptome of single nuclei in archived samples with snRandom-seq
Profiling the total transcriptome of single nuclei in archived samples with snRandom-seq
In this Tools of the Trade article, Ziye Xu and Yongcheng Wang describe snRandom-seq, a high-throughput, high-sensitivity ...
Diversity and consequences of structural variation in the human genome
Diversity and consequences of structural variation in the human genome
The biomedical community is increasingly invested in capturing all genetic variants across human genomes, interpreting the...
The hidden diversity of tumours
In this Journal Club, Mariana Boroni recalls a 2012 study by Gerlinger et al. that revealed the complex and branched evolu...
Cytoplasmic mRNA decay and quality control machineries in eukaryotes
Cytoplasmic mRNA decay and quality control machineries in eukaryotes
mRNA degradation pathways have key regulatory roles in gene expression. The intrinsic stability of mRNAs in the cytoplasm ...
The early days of transcriptome sequencing and functional genomics
Ayako Suzuki recalls two papers published in the early 2000s by the Functional Annotation of the Mammalian Genome (FANTOM)...
Spatial metabolomics to unravel cellular metabolism
Spatial metabolomics to unravel cellular metabolism
In this Tools of the Trade article, Arafath Najumudeen and Johan Vande Voorde showcase the potential of mass spectrometry ...
Integrating ELSI study teams in paediatric genomic research efforts
Addressing ethical, legal and social implications (ELSI) in genomics requires early integration of specialized teams to en...
Spatial miRNomics: towards the integration of microRNAs in spatial biology
Spatial transcriptomics tools enable the detection and localization of hundreds to thousands of transcripts in biological ...
Decoding human genetic variation using a synthetic paradigm
Aashiq Kachroo highlights a recent paper by van Loggerenberg et al. that demonstrates the experimental power of &...
Divergence and conservation of the meiotic recombination machinery
Divergence and conservation of the meiotic recombination machinery
Sexually reproducing eukaryotes use recombination between homologous chromosomes to promote chromosome segregation during ...
Including diverse populations enhances the discovery of type 2 diabetes loci
Segun Fatumo highlights a paper by Mahajan et al. that uses a multi-ancestry genome-wide association studies approach to u...
Mouse genome rewriting with human DNA for disease modelling
Mouse genome rewriting with human DNA for disease modelling
Zhang et al. describe mSwAP-In, a platform for large-scale, efficient, biallelic and ‘scarless’ genome editing...
Weaponized genomics: potential threats to international and human security
Genetic technologies are revolutionizing human health. In parallel, geopolitical instability has prompted renewed discussi...
Context-specific functions of chromatin remodellers in development and disease
Context-specific functions of chromatin remodellers in development and disease
Chromatin remodellers were once thought to be highly redundant and nonspecific in their actions. However, recent human gen...
SWI/SNF function compensated by another chromatin remodeller
SWI/SNF function compensated by another chromatin remodeller
Martin et al. report that the EP400/TIP60 complex can compensate for function of the SWI/SNF complex to remodel chromatin ...
Translating genomic advances into biodiversity conservation
Translating genomic advances into biodiversity conservation
A key action of the new Global Biodiversity Framework is the maintenance of genetic diversity in all species to safeguard ...
Interrogating epigenetic mechanisms with chemically customized chromatin
Interrogating epigenetic mechanisms with chemically customized chromatin
Genetic and genomic techniques have proven incredibly powerful for identifying and studying molecular players implicated i...
Non-coding RNAs in disease: from mechanisms to therapeutics
Non-coding RNAs in disease: from mechanisms to therapeutics
Non-coding RNAs (ncRNAs) are a heterogeneous group of transcripts that, by definition, are not translated into proteins. S...
Controlling organoid gene expression with light
Controlling organoid gene expression with light
Legnini et al. report in Nature Methods their new optogenetic method for controlling gene expression in organoids that can...
De novo genes: from non-genic to genic
Li Zhao recalls a 2006 paper by Levine et al. that, by identifying a handful of de novo genes, outlined a potentially univ...
A genetic atlas of the human blood proteome
A genetic atlas of the human blood proteome
Three papers in Nature report on the largest open-access plasma proteomics dataset to date, a valuable resource for unders...
Scrambling the genome in cancer: causes and consequences of complex chromosome rearrangements
Scrambling the genome in cancer: causes and consequences of complex chromosome rearrangements
Complex chromosome rearrangements, known as chromoanagenesis, are widespread in cancer. Based on large-scale DNA sequencin...
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