Kevin P Greenman,Ava P Amini,Kevin K Yang
Kevin P Greenman
Machine learning sequence-function models for proteins could enable significant advances in protein engineering, especially when paired with state-of-the-art methods to select new sequences for property optimization and/or model improvement...
Lucas Böttcher,Maria R D&#x;Orsogna,Tom Chou
Lucas Böttcher
Gathering observational data for medical decision-making often involves uncertainties arising from both type I (false positive) and type II (false negative) errors. In this work, we develop a statistical model to study how medical decision-...
Philip Cherian,Jayanta Kshirsagar,Bhavesh Neekhra et al.
Philip Cherian et al.
BharatSim is an open-source agent-based modelling framework for the Indian population. It can simulate populations at multiple scales, from small communities to states. BharatSim uses a synthetic population created by applying statistical m...
Remy Ben Messaoud,Vincent Le Du,Camile Bousfiha et al.
Remy Ben Messaoud et al.
Identifying the driver nodes of a network has crucial implications in biological systems from unveiling causal interactions to informing effective intervention strategies. Despite recent advances in network control theory, results remain in...
Orchard: Building large cancer phylogenies using stochastic combinatorial search [0.03%]
果园：利用随机组合搜索构建大型癌症系统发生树
Ethan Kulman,Rui Kuang,Quaid Morris
Ethan Kulman
Phylogenies depicting the evolutionary history of genetically heterogeneous subpopulations of cells from the same cancer, i.e., cancer phylogenies, offer valuable insights about cancer development and guide treatment strategies. Many method...
Prioritization of causal genes from genome-wide association studies by Bayesian data integration across loci [0.03%]
通过跨越位点的贝叶斯数据整合对全基因组关联研究中的病因基因进行优先级划分
Zeinab Mousavi,Marios Arvanitis,ThuyVy Duong et al.
Zeinab Mousavi et al.
Motivation: Genome-wide association studies (GWAS) have identified genetic variants, usually single-nucleotide polymorphisms (SNPs), associated with human traits, including disease and disease risk. These variants (or cau...
A genome-scale metabolic model for the denitrifying bacterium Thauera sp. MZ1T accurately predicts degradation of pollutants and production of polymers [0.03%]
模式产碱菌株MZ1T的基因组代谢模型准确预测污染物降解和聚合物生成
Diego Tec-Campos,Juan D Tibocha-Bonilla,Celina Jiang et al.
Diego Tec-Campos et al.
The denitrifying bacterium Thauera sp. MZ1T, a common member of microbial communities in wastewater treatment facilities, can produce different compounds from a range of carbon (C) and nitrogen (N) sources under aerobic and anaerobic condit...
Marked point process variational autoencoder with applications to unsorted spiking activities [0.03%]
具有未排序的尖峰活动的应用标记点过程变分自动编码器
Ryohei Shibue,Tomoharu Iwata
Ryohei Shibue
Spike train modeling across large neural populations is a powerful tool for understanding how neurons code information in a coordinated manner. Recent studies have employed marked point processes in neural population modeling. The marked po...
Excitatory-inhibitory homeostasis and bifurcation control in the Wilson-Cowan model of cortical dynamics [0.03%]
Wilson-Cowan皮层动力学模型中的兴奋-抑制稳态和分岔控制
Francisco Páscoa Dos Santos,Paul F M J Verschure
Francisco Páscoa Dos Santos
Although the primary function of excitatory-inhibitory (E-I) homeostasis is the maintenance of mean firing rates, the conjugation of multiple homeostatic mechanisms is thought to be pivotal to ensuring edge-of-bifurcation dynamics in cortic...
Ensemble learning-based predictor for driver synonymous mutation with sequence representation [0.03%]
基于集成学习的驾驶员同义突变预测方法及序列表示法
Chuanmei Bi,Yong Shi,Junfeng Xia et al.
Chuanmei Bi et al.
Synonymous mutations, once considered neutral, are now understood to have significant implications for a variety of diseases, particularly cancer. It is indispensable to identify these driver synonymous mutations in human cancers, yet curre...