Author Correction: INSERT-seq enables high-resolution mapping of genomically integrated DNA using Nanopore sequencing [0.03%]
作者勘误：INSERT-seq 使用纳米孔测序实现基因组整合DNA的高分辨率映射
Dimitrije Ivančić,Júlia Mir-Pedrol,Jessica Jaraba-Wallace et al.
Dimitrije Ivančić et al.
Published Erratum
Genome biology. 2023 Jun 9;24(1):137. DOI:10.1186/s13059-023-02979-w 2023
Yannis Nevers,Natasha M Glover,Christophe Dessimoz et al.
Yannis Nevers et al.
Background: In every living species, the function of a protein depends on its organization of structural domains, and the length of a protein is a direct reflection of this. Because every species evolved under different e...
Rui Yang,Arnav Das,Vianne R Gao et al.
Rui Yang et al.
Recent deep learning models that predict the Hi-C contact map from DNA sequence achieve promising accuracy but cannot generalize to new cell types and or even capture differences among training cell types. We propose Epiphany, a neural netw...
mutscan-a flexible R package for efficient end-to-end analysis of multiplexed assays of variant effect data [0.03%]
MutScan：一个用于有效分析变异效应多路复用测定数据的灵活的R软件包
Charlotte Soneson,Alexandra M Bendel,Guillaume Diss et al.
Charlotte Soneson et al.
Multiplexed assays of variant effect (MAVE) experimentally measure the effect of large numbers of sequence variants by selective enrichment of sequences with desirable properties followed by quantification by sequencing. mutscan is an R pac...
Kristoffer Sahlin,Thomas Baudeau,Bastien Cazaux et al.
Kristoffer Sahlin et al.
It has been over a decade since the first publication of a method dedicated entirely to mapping long-reads. The distinctive characteristics of long reads resulted in methods moving from the seed-and-extend framework used for short reads to ...
Pervasive tandem duplications and convergent evolution shape coral genomes [0.03%]
普遍的串联重复和趋同进化塑造珊瑚基因组
Benjamin Noel,France Denoeud,Alice Rouan et al.
Benjamin Noel et al.
Background: Over the last decade, several coral genomes have been sequenced allowing a better understanding of these symbiotic organisms threatened by climate change. Scleractinian corals are reef builders and are central...
Hierarchical Interleaved Bloom Filter: enabling ultrafast, approximate sequence queries [0.03%]
层次化交织Bloom过滤器：实现超快的大规模序列近似查找
Svenja Mehringer,Enrico Seiler,Felix Droop et al.
Svenja Mehringer et al.
We present a novel data structure for searching sequences in large databases: the Hierarchical Interleaved Bloom Filter (HIBF). It is extremely fast and space efficient, yet so general that it could serve as the underlying engine for many a...
Genomic and epigenomic determinants of heat stress-induced transcriptional memory in Arabidopsis [0.03%]
拟南芥热应力诱导的转录记忆的基因组和表观基因组决定因素
Christian Kappel,Thomas Friedrich,Vicky Oberkofler et al.
Christian Kappel et al.
Background: Transcriptional regulation is a key aspect of environmental stress responses. Heat stress induces transcriptional memory, i.e., sustained induction or enhanced re-induction of transcription, that allows plants...
Inferring cell-type-specific causal gene regulatory networks during human neurogenesis [0.03%]
人类神经发生过程中推断细胞类型特异性因果基因调控网络
Nil Aygün,Dan Liang,Wesley L Crouse et al.
Nil Aygün et al.
Background: Genetic variation influences both chromatin accessibility, assessed in chromatin accessibility quantitative trait loci (caQTL) studies, and gene expression, assessed in expression QTL (eQTL) studies. Genetic v...
Genomic hallmarks and therapeutic implications of G0 cell cycle arrest in cancer [0.03%]
癌症中G0细胞周期阻滞的基因组特征及治疗意义
Anna J Wiecek,Stephen J Cutty,Daniel Kornai et al.
Anna J Wiecek et al.
Background: Therapy resistance in cancer is often driven by a subpopulation of cells that are temporarily arrested in a non-proliferative G0 state, which is difficult to capture and whose mutational drivers remain largely...