Mixing features of transcription factors and genes enable accurate prediction of gene regulation relationships for unknown transcription factors [0.03%]
转录因子和基因的混合特征能够使未知转录因子的基因调控关系预测更准确
Risa Okubo,Takashi Morikura,Yusuke Hiki et al.
Risa Okubo et al.
Identifying regulatory relationships between transcription factors (TFs) and genes is essential to understand diverse biological phenomena related to gene expression. Recently, deep learning-based models to predict TFs that bind to genes fr...
Maahil Arshad,Matthew Uchmanowicz,Vanshika Rana et al.
Maahil Arshad et al.
Although the genetic code is degenerate, codon selection is nonrandom and reflects significant functional constraints. Codon-usage bias (CUB) acts as a layer of post-transcriptional regulation, influencing messenger RNA (mRNA) stability, tr...
Recurrence plot reconstruction reveals chromosomal reorganization before territory formation [0.03%]
递归图重建揭示了染色体在形成之前的空间重组
Yuki Kitanishi,Hiroki Sugishita,Yukiko Gotoh et al.
Yuki Kitanishi et al.
Chromatin conformation capture methods such as Hi-C have improved understanding of nuclear architecture. However, reconstruction from single-cell Hi-C (scHi-C) data is challenging due to limited DNA contacts per cell. We have previously dev...
Unraveling IGK locus in dog breeds: IMGT® new insights into canine immunogenetics [0.03%]
犬品种IGH基因座的解析：IMGT在犬免疫遗传学的新进展
Taismara Kustro Garnica,Ariadni Papadaki,Maria Georga et al.
Taismara Kustro Garnica et al.
Over thousands of years, selective breeding of domestic dogs (Canis lupus familiaris) has led to extensive genetic diversity, underscoring the need for refined genomic and immunogenetic investigations. This study presents a comprehensive an...
DoBSeqWF: a framework for sensitive detection of individual genetic variation in pooled sequencing data [0.03%]
pooling测序数据中个体遗传变异的敏感检测框架
Mads Cort Nielsen,Christian Munch Hagen,Ulrik Kristoffer Stoltze et al.
Mads Cort Nielsen et al.
Population screening for rare genetic diseases has the potential to increase early diagnosis and treatment, but the high cost of next-generation sequencing limits widespread implementation. Double-batched sequencing (DoBSeq) is a cost-effec...
FragmentFinder-a user-friendly, Windows-based tool for identifying and characterizing short RNAs excised from any noncoding RNA [0.03%]
片段寻找者-一个用户友好的基于Windows操作系统的鉴定和表征从任何非编码RNA中切割的短RNA的工具
Jeffrey D DeMeis,Courtlyn M Breaux,Allison H Powell et al.
Jeffrey D DeMeis et al.
Noncoding RNAs
DEprot: a comprehensive R-package for the analysis of label-free quantitation mass spectrometry data [0.03%]
DEprot：一个用于分析无标签定量质谱数据的全面R包
Nils Eickhoff,Liesbeth Hoekman,Onno Bleijerveld et al.
Nils Eickhoff et al.
In recent years, studies investigating protein-protein interactions on a proteome-wide scale have increased exponentially. These developments were achieved through implementation of new techniques, as well as improvements in mass spectromet...
An ELIXIR scoping review on domain-specific evaluation metrics for synthetic data in life sciences [0.03%]
ELIXIR范围审查：生命科学合成数据领域特定评估指标
Styliani-Christina Fragkouli,Somya Iqbal,Lisa Crossman et al.
Styliani-Christina Fragkouli et al.
Synthetic data (SD) has become an increasingly important asset in the life sciences, helping address data scarcity, privacy concerns, and barriers to data access. Creating artificial datasets that mirror the characteristics of real data all...
Accelerating rare disease diagnostics by linking DNA and RNA through an explainable and interactive RNA-guided workflow [0.03%]
通过可解释的和交互式的RNA引导的工作流程连接DNA和RNA加速罕见病诊断
Willem T K Maassen,Charlotte C E T Pape,Carlos G Urzua-Traslavina et al.
Willem T K Maassen et al.
Challenges preventing mainstream use of RNA-sequencing (RNA-seq) in genome diagnostics are sources of biological and technical variation, typically caused by intrinsic differences in gene expression between tissue types, cellular conditions...
A comprehensive annotation of conserved protein domains in human endogenous retroviruses [0.03%]
人类内源性逆转录病毒保守蛋白质域的全面注释
Tomàs Montserrat-Ayuso,Aurora Pujol,Anna Esteve-Codina
Tomàs Montserrat-Ayuso
Human endogenous retroviruses (HERVs) occupy nearly 8% of the human genome, yet their protein-coding potential remains largely unexplored. Originating from ancestral retroviruses that infected germline cells, HERVs typically follow the cano...