Trainable subnetworks reveal insights into structure knowledge organization in protein language models [0.03%]
可训练子网络揭示了蛋白质语言模型中结构知识组织的见解
Ria Vinod,Ava P Amini,Lorin Crawford et al.
Ria Vinod et al.
Protein language models (PLMs) pretrained via a masked language modeling objective have proven effective across a range of structure-related tasks, including high-resolution structure prediction. However, it remains unclear to what extent t...
Transcriptomic-guided whole-slide image classification for molecular subtype identification [0.03%]
基于转录组的全片图像分类以识别分子亚型
Weiwen Wang,Xiwen Zhang,Yuanyan Xiong
Weiwen Wang
Recent advancements in computational pathology have greatly improved automated histopathological analysis. A compelling question in the field is how morphological traits are associated with genetic characteristics or molecular phenotypes. H...
Zimin patterns in genomes [0.03%]
基因组中的齐米因模式
Nikol Chantzi,Ioannis Mouratidis,Ilias Georgakopoulos-Soares
Nikol Chantzi
Zimin words are words that have the same prefix and suffix. They are unavoidable patterns, with all sufficiently large strings encompassing them. Here, we examine for the first time the presence of k-mers not containing any Zimin patterns, ...
Introducing gold-standard essential gene datasets for Pseudomonas aeruginosa to enhance Tn-Seq analyses [0.03%]
用于铜绿假单胞菌的黄金标准必需基因数据集可增强Tn-Seq分析
Cléophée Van Maele,Ségolène Caboche,Nathan Nicolau-Guillaumet et al.
Cléophée Van Maele et al.
Transposon Sequencing (Tn-Seq) is a high-throughput technique that utilizes transposon mutant libraries to assess gene fitness or essentiality under specific conditions potentially identifying novel therapeutic targets. However, the diversi...
FKSUDDAPre: A drug-disease association prediction framework based on F-TEST feature selection and AMDKSU resampling with interpretability analysis [0.03%]
基于F-测试特征选择和AMDKSU重采样的药物疾病关联预测框架（含可解释性分析）
Yun Zuo,Chenyi Zhang,Ge Hua et al.
Yun Zuo et al.
In drug discovery and therapeutic research, the prediction of drug-disease associations (DDAs) holds significant scientific and clinical value. Drug molecules exert their effects by precisely identifying disease-related biological targets, ...
SHADE: A multilevel Bayesian framework for modeling directional spatial interactions in tissue microenvironments [0.03%]
基于组织微环境方向性空间相互作用的多层次贝叶斯框架
Joel Eliason,Michele Peruzzi,Arvind Rao
Joel Eliason
Motivation: Understanding how different cell types interact spatially within tissue microenvironments is critical for deciphering immune dynamics, tumor progression, and tissue organization. Many current spatial analysis ...
Modeling human visuomotor adaptation with a disturbance observer framework [0.03%]
基于扰动观测器的人类视觉运动适应行为的建模研究
Gaurav Sharma,Bernard Marius &#x;t Hart,Jean-Jacques Orban de Xivry et al.
Gaurav Sharma et al.
A fundamental problem of visuomotor adaptation research is to understand how the brain is capable to asymptotically remove a predictable exogenous disturbance from a visual error signal using limited sensor information by re-calibration of ...
Phase resetting in human stem cell derived cardiomyocytes explains complex cardiac arrhythmias [0.03%]
人类干细胞源性心肌细胞的相位重置解释了复杂的心律失常
Khady Diagne,Thomas M Bury,Morgan E Pettebone et al.
Khady Diagne et al.
Phase resetting of cardiac oscillators underlies some complex arrhythmias. Here we use optogenetic stimulation to construct phase response curves (PRC) for spheroids of human induced pluripotent stem cell derived cardiomyocytes (hiPSC-CM) a...
TARPON-A Telomere Analysis and Research Pipeline Optimized for Nanopore [0.03%]
一种优化纳米孔测序的端粒分析和研究管线(TARPON)
Nathaniel Deimler,David V Ho,Norbert Paul et al.
Nathaniel Deimler et al.
Long-read sequencing has transformed many areas of biology and holds significant promise for telomere research by enabling analysis of nucleotide-level resolution chromosome arm-specific telomere length in both model organisms and humans. H...
BiCLUM: Bilateral contrastive learning for unpaired single-cell multi-omics integration [0.03%]
基于双边对比学习的未配对单细胞多组学数据整合方法(BiCLUM)
Yin Guo,Izaskun Mallona,Mark D Robinson et al.
Yin Guo et al.
The integration of single-cell multi-omics data provides a powerful approach for understanding the complex interplay between different molecular modalities, such as RNA expression, chromatin accessibility and protein abundance, measured thr...