STARGATE-X: a Python package for statistical analysis on the REACTOME network [0.03%]
基于REACTOME网络的统计分析Python工具包STARGATE-X
Andrea Marino,Blerina Sinaimeri,Enrico Tronci et al.
Andrea Marino et al.
Many important aspects of biological knowledge at the molecular level can be represented by pathways. Through their analysis, we gain mechanistic insights and interpret lists of interesting genes from experiments (usually omics and function...
RNAcode_Web - Convenient identification of evolutionary conserved protein coding regions [0.03%]
RNAcode_Web：方便识别进化保守的蛋白质编码区
John Anders,Peter F Stadler
John Anders
The differentiation of regions with coding potential from non-coding regions remains a key task in computational biology. Methods such as RNAcode that exploit patterns of sequence conservation for this task have a substantial advantage in c...
SnakeLines: integrated set of computational pipelines for sequencing reads [0.03%]
SnakeLines：面向测序读段的计算流程集成工具集
Jaroslav Budiš,Werner Krampl,Marcel Kucharík et al.
Jaroslav Budiš et al.
With the rapid growth of massively parallel sequencing technologies, still more laboratories are utilising sequenced DNA fragments for genomic analyses. Interpretation of sequencing data is, however, strongly dependent on bioinformatics pro...
Discovering NDM-1 inhibitors using molecular substructure embeddings representations [0.03%]
基于分子亚结构嵌入表示的NDM-1抑制剂的发现
Thomas Papastergiou,Jérôme Azé,Sandra Bringay et al.
Thomas Papastergiou et al.
NDM-1 (New-Delhi-Metallo-β-lactamase-1) is an enzyme developed by bacteria that is implicated in bacteria resistance to almost all known antibiotics. In this study, we deliver a new, curated NDM-1 bioactivities database, along with a set o...
Enhanced identification of membrane transport proteins: a hybrid approach combining ProtBERT-BFD and convolutional neural networks [0.03%]
改进的膜转运蛋白识别方法：结合ProtBERT-BFD和卷积神经网络的混合方法
Hamed Ghazikhani,Gregory Butler
Hamed Ghazikhani
Transmembrane transport proteins (transporters) play a crucial role in the fundamental cellular processes of all organisms by facilitating the transport of hydrophilic substrates across hydrophobic membranes. Despite the availability of num...
Carlos A C Bastos,Vera Afreixo,João M O S Rodrigues et al.
Carlos A C Bastos et al.
This work aims to describe the observed enrichment of inverted repeats in the human genome; and to identify and describe, with detailed length profiles, the regions with significant and relevant enriched occurrence of inverted repeats. The ...
Haoyu Chao,Shilong Zhang,Yueming Hu et al.
Haoyu Chao et al.
Crop plant breeding involves selecting and developing new plant varieties with desirable traits such as increased yield, improved disease resistance, and enhanced nutritional value. With the development of high-throughput technologies, such...
Artificial Bee Colony algorithm in estimating kinetic parameters for yeast fermentation pathway [0.03%]
人工蜂群算法在酵母发酵途径中估计动力学参数方面的应用
Ahmad Muhaimin Ismail,Muhammad Akmal Remli,Yee Wen Choon et al.
Ahmad Muhaimin Ismail et al.
Analyzing metabolic pathways in systems biology requires accurate kinetic parameters that represent the simulated in vivo processes. Simulation of the fermentation pathway in the Saccharomyces cerevisiae kinetic model help saves much time i...
Specifications of standards in systems and synthetic biology: status and developments in 2022 and the COMBINE meeting 2022 [0.03%]
系统与合成生物学中的标准规范：2022年标准规范工作组的现状与发展及COMBINE会议2022
Matthias König,Padraig Gleeson,Martin Golebiewski et al.
Matthias König et al.
This special issue of the Journal of Integrative Bioinformatics contains updated specifications of COMBINE standards in systems and synthetic biology. The 2022 special issue presents three updates to the standards: CellML 2.0.1, SBML Level ...
Study of NAD-interacting proteins highlights the extent of NAD regulatory roles in the cell and its potential as a therapeutic target [0.03%]
NAD互作蛋白的研究揭示了NAD在细胞中的调控作用及其作为治疗靶点的潜力
Sara Duarte-Pereira,Sérgio Matos,José Luís Oliveira et al.
Sara Duarte-Pereira et al.
Nicotinamide adenine dinucleotide (NAD) levels are essential for the normal physiology of the cell and are strictly regulated to prevent pathological conditions. NAD functions as a coenzyme in redox reactions, as a substrate of regulatory p...