A convenient single-cell assay for the newly synthesized transcriptome reveals FLI1 regulon downregulation during T cell activation [0.03%]
一种便捷的单细胞新转录组测定方法揭示了T细胞活化过程中FLI1调控子的下调作用
Jun Lyu,Xiaoyan Xu,Chongyi Chen
Jun Lyu
Understanding transcription dynamics in rapidly changing systems requires separating information about newly synthesized transcripts from bulk transcript data. Here, we developed newly synthesized transcriptome on 10× expression sequencing...
DVOUG enables robust DNA sequence assembly and reconstruction with a dynamic, variable-order graph [0.03%]
一种动态可变顺序图使DNA序列装配和重建更稳健
Zhiqiang Liu,Xue Li,Lei Xie et al.
Zhiqiang Liu et al.
Under low-coverage or error-prone sequencing conditions, existing assembly frameworks often fail to simultaneously preserve genome integrity and biological variation. To address these, this work introduces a dynamic variable-order unitig-le...
A signature-protein-based approach for accurate and efficient profiling of the human gut virome [0.03%]
一种基于签名蛋白的精确而高效的 profiling 人类肠道病毒组的方法
Fangming Yang,Liwen Xiong,Min Li et al.
Fangming Yang et al.
The human gut virome represents a critical yet underexplored component that regulates bacterial communities and maintains gut health. However, virome analysis remains challenging due to the vast diversity and genomic variability. Existing p...
Nicholas J Russell,Paulo B Belato,Lilijana Sarabia Oliver et al.
Nicholas J Russell et al.
Polyploidy (whole-genome duplication) is a common yet under-surveyed property of tissues across multicellular organisms. Polyploidy plays a critical role during tissue development, following acute stress, and during disease progression. Com...
Approaches for identification of 5' UTR mutations impacting translation and protein production from neurodevelopmental disorder genes [0.03%]
鉴定神经发育障碍基因5'-UTR突变以影响翻译和蛋白质生成的方法
Stephen P Plassmeyer,Colin P Florian,Rebecca Chase et al.
Stephen P Plassmeyer et al.
Coding mutations can cause neurodevelopmental disorders (NDDs), including autism. Yet, predicting which non-coding (e.g., 5' untranslated region [UTR]) mutations are functional is challenging. We tested assays of various throughput for the ...
FAME-CRISPR improves CRISPR-Cas9 genome editing via HDAC inhibition and engineered virus-like particle delivery [0.03%]
组蛋白去乙酰化酶抑制和工程病毒类似颗粒递送改善CRISPR-Cas9基因编辑技术功效
Mahbod Djamshidi,Alexander Hill,Katayoun Heshmatzad et al.
Mahbod Djamshidi et al.
CRISPR-mediated gene editing using engineered virus-like particles (eVLPs) can achieve high efficiency, but performance varies with reduced effectiveness often seen in primary cells or when generating polyclonal models at scale. We develope...
Development and application of a barcoded rabies viral tracing method for mapping brain-wide inputs to single neurons [0.03%]
条形码狂犬病病毒追踪方法的开发及应用：绘制单神经元全脑输入图谱
Kang Tan,Ya-Qian Wang,Rong-Rong Yang et al.
Kang Tan et al.
Mapping the input connections of a single neuron, or the "inputome," is crucial for constructing mesoscopic connectomes at the cellular resolution of the brain. By combining retrograde viral tracing with single-cell RNA sequencing, we devel...
OSCAR is an online ML-powered tool for organoid cell counting using bright-field images [0.03%]
OSCAR：一种使用明场图像进行类器官细胞计数的在线机器学习工具
Stephanie E A Burnell,Lorenzo Capitani,Chloe A Harris et al.
Stephanie E A Burnell et al.
Numerous software tools have been published to aid organoid quantification. These tools generate estimates of total organoid number and morphological characteristics in images. However, there remains a need to estimate the number of organoi...
Computational modeling reveals cognitive processes in simple rodent depression tests [0.03%]
计算模型揭示了简单啮齿类动物抑郁试验中的认知过程
Zhihan Li,Tianyu Lu,Jiaozhao Yan et al.
Zhihan Li et al.
Simple behavioral tests like the forced swim test (FST) and tail suspension test (TST) are widely used to assess depression-like behaviors in rodents, primarily measuring immobility time. However, this approach can oversimplify behavioral r...
One-step approach producing barcoded rabies virus with optimized diversity [0.03%]
一步法构建优化多样性的条形码狂犬病病毒体系
Kang Tan,Zi-Xuan Shen,Ya-Qian Wang et al.
Kang Tan et al.
Mapping brain-wide neuronal connectivity is essential for understanding brain function, and barcoded rabies virus offers a powerful tool for this purpose. However, their application has been hindered by challenges in achieving sufficient ba...