Strobealign: flexible seed size enables ultra-fast and accurate read alignment [0.03%]
闪光对齐：灵活的种子大小实现了超快且精确的读取对齐
Kristoffer Sahlin
Kristoffer Sahlin
Read alignment is often the computational bottleneck in analyses. Recently, several advances have been made on seeding methods for fast sequence comparison. We combine two such methods, syncmers and strobemers, in a novel seeding approach f...
Automated assembly scaffolding using RagTag elevates a new tomato system for high-throughput genome editing [0.03%]
使用RagTag自动化组装支架提升新的番茄系统以实现高通量基因组编辑
Michael Alonge,Ludivine Lebeigle,Melanie Kirsche et al.
Michael Alonge et al.
Advancing crop genomics requires efficient genetic systems enabled by high-quality personalized genome assemblies. Here, we introduce RagTag, a toolset for automating assembly scaffolding and patching, and we establish chromosome-scale refe...
G-quadruplexes sense natural porphyrin metabolites for regulation of gene transcription and chromatin landscapes [0.03%]
G-四链体感应天然卟啉代谢物以调控基因转录和染色质景观
Conghui Li,Zhinang Yin,Ruijing Xiao et al.
Conghui Li et al.
Background: G-quadruplexes (G4s) are unique noncanonical nucleic acid secondary structures, which have been proposed to physically interact with transcription factors and chromatin remodelers to regulate cell type-specifi...
STRling: a k-mer counting approach that detects short tandem repeat expansions at known and novel loci [0.03%]
STRling：一种检测已知和新颖位点短串联重复序列扩增的k-mer计数方法
Harriet Dashnow,Brent S Pedersen,Laurel Hiatt et al.
Harriet Dashnow et al.
Expansions of short tandem repeats (STRs) cause many rare diseases. Expansion detection is challenging with short-read DNA sequencing data since supporting reads are often mapped incorrectly. Detection is particularly difficult for "novel" ...
Spatial omics technologies at multimodal and single cell/subcellular level [0.03%]
多模态和单细胞/亚细胞水平的空间组学技术
Jiwoon Park,Junbum Kim,Tyler Lewy et al.
Jiwoon Park et al.
Spatial omics technologies enable a deeper understanding of cellular organizations and interactions within a tissue of interest. These assays can identify specific compartments or regions in a tissue with differential transcript or protein ...
Structural variant analysis of a cancer reference cell line sample using multiple sequencing technologies [0.03%]
使用多种测序技术分析癌症参考细胞系样本的结构变异
Keyur Talsania,Tsai-Wei Shen,Xiongfong Chen et al.
Keyur Talsania et al.
Background: The cancer genome is commonly altered with thousands of structural rearrangements including insertions, deletions, translocation, inversions, duplications, and copy number variations. Thus, structural variant ...
Pathogen genomics study of an early medieval community in Germany reveals extensive co-infections [0.03%]
德国中世纪早期社区的病原体基因组研究揭示了广泛的共感染现象
Joanna H Bonczarowska,Julian Susat,Barbara Mühlemann et al.
Joanna H Bonczarowska et al.
Background: The pathogen landscape in the Early European Middle Ages remains largely unexplored. Here, we perform a systematic pathogen screening of the rural community Lauchheim "Mittelhofen," in present-day Germany, dat...
Distance-dependent inhibition of translation initiation by downstream out-of-frame AUGs is consistent with a Brownian ratchet process of ribosome scanning [0.03%]
下游框外出的AUG对翻译起始的距离依赖性抑制与核糖体扫描过程中的布朗棘轮过程一致。
Ke Li,Jinhui Kong,Shuo Zhang et al.
Ke Li et al.
Background: Eukaryotic ribosomes are widely presumed to scan mRNA for the AUG codon to initiate translation in a strictly 5'-3' movement (i.e., strictly unidirectional scanning model), so that ribosomes initiate translati...
The mutational dynamics of short tandem repeats in large, multigenerational families [0.03%]
大型多世代家庭中短串联重复序列的突变动力学
Cody J Steely,W Scott Watkins,Lisa Baird et al.
Cody J Steely et al.
Background: Short tandem repeats (STRs) compose approximately 3% of the genome, and mutations at STR loci have been linked to dozens of human diseases including amyotrophic lateral sclerosis, Friedreich ataxia, Huntington...
New roles for AP-1/JUNB in cell cycle control and tumorigenic cell invasion via regulation of cyclin E1 and TGF-β2 [0.03%]
AP-1 / JUNB在细胞周期控制和肿瘤生成细胞侵袭中通过调节cyclin E1 和TGF-β2的新角色
Beatriz Pérez-Benavente,Alihamze Fathinajafabadi,Lorena de la Fuente et al.
Beatriz Pérez-Benavente et al.
Background: JUNB transcription factor contributes to the formation of the ubiquitous transcriptional complex AP-1 involved in the control of many physiological and disease-associated functions. The roles of JUNB in the co...