Julien Hédou,Ivana Marić,Grégoire Bellan et al.
Julien Hédou et al.
Adoption of high-content omic technologies in clinical studies, coupled with computational methods, has yielded an abundance of candidate biomarkers. However, translating such findings into bona fide clinical biomarkers remains challenging....
Ultrafast bisulfite sequencing detection of 5-methylcytosine in DNA and RNA [0.03%]
超快速双硫代试剂测序检测DNA和RNA中的5-甲基胞嘧啶
Qing Dai,Chang Ye,Iryna Irkliyenko et al.
Qing Dai et al.
Bisulfite sequencing (BS-seq) to detect 5-methylcytosine (5mC) is limited by lengthy reaction times, severe DNA damage, overestimation of 5mC level and incomplete C-to-U conversion of certain DNA sequences. We present ultrafast BS-seq (UBS-...
Fast mass spectrometry search and clustering of untargeted metabolomics data [0.03%]
非靶向代谢组学数据的快速质谱搜索和聚类
Mihir Mongia,Tyler M Yasaka,Yudong Liu et al.
Mihir Mongia et al.
The throughput of mass spectrometers and the amount of publicly available metabolomics data are growing rapidly, but analysis tools such as molecular networking and Mass Spectrometry Search Tool do not scale to searching and clustering bill...
High-quality metagenome assembly from long accurate reads with metaMDBG [0.03%]
从长精确读数的高质量宏基因组组装与metaMDBG
Gaëtan Benoit,Sébastien Raguideau,Robert James et al.
Gaëtan Benoit et al.
We introduce metaMDBG, a metagenomics assembler for PacBio HiFi reads. MetaMDBG combines a de Bruijn graph assembly in a minimizer space with an iterative assembly over sequences of minimizers to address variations in genome coverage depth ...
Programmable protein expression using a genetically encoded m6A sensor [0.03%]
使用遗传编码的m6A传感器进行可编程蛋白质表达
Bahjat F Marayati,Matthew G Thompson,Christopher L Holley et al.
Bahjat F Marayati et al.
The N6-methyladenosine (m6A) modification is found in thousands of cellular mRNAs and is a critical regulator of gene expression and cellular physiology. m6A dysregulation contributes to several human diseases, and the m6A methyltransferase...
Yu-Lan Xiao,Yuan Wu,Weixin Tang
Yu-Lan Xiao
Adenine base editors (ABEs) are precise gene-editing agents that convert A:T pairs into G:C through a deoxyinosine intermediate. Existing ABEs function most effectively when the target A is in a TA context. Here we evolve the Escherichia co...
Inferring super-resolution tissue architecture by integrating spatial transcriptomics with histology [0.03%]
通过整合空间转录组学和组织学推断超分辨率组织结构
Daiwei Zhang,Amelia Schroeder,Hanying Yan et al.
Daiwei Zhang et al.
Spatial transcriptomics (ST) has demonstrated enormous potential for generating intricate molecular maps of cells within tissues. Here we present iStar, a method based on hierarchical image feature extraction that integrates ST data and hig...
Large-scale evaluation of the ability of RNA-binding proteins to activate exon inclusion [0.03%]
RNA结合蛋白激活外显子包含的能力的大规模评估
Jonathan C Schmok,Manya Jain,Lena A Street et al.
Jonathan C Schmok et al.
RNA-binding proteins (RBPs) modulate alternative splicing outcomes to determine isoform expression and cellular survival. To identify RBPs that directly drive alternative exon inclusion, we developed tethered function luciferase-based splic...