Kyle R Allison
Kyle R Allison
Multicellular self-organization drives development in biological organisms, yet a comprehensive theory is lacking as basic properties of cells can complicate common approaches. Framing such properties by dynamic graphs led to new theoretica...
Emergence of Sprouty role from the signaling interplay of DUSP1 and DUSP4 interactions in NSCLC pathogenesis [0.03%]
DUSP1和DUSP4相互作用在非小细胞肺癌发生发展中的Sprouty功能角色的初次显现
Manasi Tukrul,Pooja Gulhane,Shailza Singh
Manasi Tukrul
Non-small cell lung cancer (NSCLC), the predominant subtype of lung cancer, remains a major global health challenge due to its complex etiology and resistance to therapy. Aberrant signaling through receptor tyrosine kinases (RTKs) and mitog...
tugMedi: simulator of cancer-cell evolution for personalized medicine based on the genomic data of patients [0.03%]
基于患者基因组数据的个性化癌症医疗模拟器Tug Medi
Iurii Nagornov,Eisaku Furukawa,Momoko Nagai et al.
Iurii Nagornov et al.
Cancer comprehensive genomic profiling tests are increasingly used, but drug response rates to matched therapies remain limited, indicating a gap between genomic data and clinical benefit. However, existing cancer evolution simulations focu...
Inferring absolute counts from proportions by constraining multivariate normal distributions [0.03%]
通过约束多元正态分布从比例推断绝对计数
Jeffrey Hage,Devin Koestler,Brock Christensen
Jeffrey Hage
Biological measurements often result in proportional data, which are derived from underlying biological counts. Proportion data are lacking a dimension of information as compared to counts, restricting available analysis methods and separat...
Bacterial gene regulatory neural network as a biocomputing library of mathematical solvers [0.03%]
细菌基因调控神经网络作为数学解题的生物计算库
Adrian Ratwatte,Samitha Somathilaka,Ngoc Dan Thanh Cao et al.
Adrian Ratwatte et al.
Current biocomputing approaches predominantly rely on engineered circuits with fixed logic, offering limited stability and reliability under diverse environmental conditions. Here, we use the gene regulatory neural network (GRNN) framework ...
Interpreting MALDI imaging data for rare types of ampullary cancer using machine learning [0.03%]
利用机器学习解读罕见的壶腹癌MALDI成像数据
Patrick M Jensen,Jan Lellmann,Christian Sperling et al.
Patrick M Jensen et al.
Rare tumor diseases are difficult to diagnose and there is a lack of routine diagnostic procedures. Approaches must be found that allow comprehensive identification and evaluation of prognostic relevant target proteins or transcripts. Analy...
Decoupling the chemical and physical origins of the seed spectral manifold in sorghum [0.03%]
从高粱中解耦种子光谱通系的化学和物理起源
Insuck Baek,Seunghyun Lim,Lalit M Kandpal et al.
Insuck Baek et al.
Biological structures interact with light as complex manifolds, yet genomic studies often reduce these phenotypes to scalar traits. Here we resolve the sorghum seed spectral manifold into separable axes corresponding primarily to pigment-as...
CT-TADB predicts TAD boundaries without Hi-C by integrating DNA sequences and epigenomic features [0.03%]
CT-TADB：通过整合DNA序列和表观基因特征预测TAD边界（无需Hi-C）
Tong Chen,Shuaibin Wang,Yuyu Jin et al.
Tong Chen et al.
Topologically associating domains (TADs) are fundamental units of three-dimensional genome organization, and their boundaries play important roles in gene regulation and genomic stability. However, accurate computational prediction of TAD b...
Flux sampling and graph neural networks for improved gene essentiality prediction in mammalian genome-scale metabolic models [0.03%]
基于流采样和图神经网络的改进型哺乳动物基因组规模代谢模型基因必需性预测方法
Kieren Sharma,Lucia Marucci,Zahraa S Abdallah
Kieren Sharma
Gene essentiality, the requirement of a gene for survival or proliferation, is central to understanding cellular processes and identifying drug targets. Experimental determination requires large growth screens that are time-consuming and ex...
A rule-based simulation model illuminates the role of asymmetric mitochondrial fission on beta-cell health [0.03%]
基于规则的模拟模型阐明线粒体非对称分裂在β细胞健康中的作用
Philipp Henning,Julia Schultz,Simone Baltrusch et al.
Philipp Henning et al.
Mitochondrial dynamics play a critical role in the development of aging-related diseases such as type 2 diabetes mellitus. To investigate how mitochondrial dynamics influence cellular behavior in pancreatic beta-cells, we developed a rule-b...