23 papers · ranked by Valyu relevance
Eran Eden, Roy Navon, Israel Steinfeld, Doron Lipson + 1 more
Background Since the inception of the GO annotation project, a variety of tools have been developed that support exploring and searching the GO database. In particular, a variety of tools that perform GO enrichment analysis are currently available. Most of these tools require as input a target set of genes and a…
David Martin, Christine Brun, Elisabeth Remy, Pierre Mouren + 2 more
'Denis Thieffry' 'Bernard Jacq'] Tools are presented to identify Gene Ontology terms that are over- or under-represented in a dataset, to cluster genes by function and to find genes with similar annotations.
Zongliang Yue, Robert S. Welner, Christopher D. Willey, Rajesh Amin + 1 more
Gene Ontologies (GOs) are standardized descriptions of gene functions in terms of biological processes, molecular functions, and cellular components, capturing their Parent-Child relationships in a structured framework and advancing cancer biological modeling to provide consistent and meaningful insights into…
Hala Ali, Andrew Case, Irfan Ahmed
The Go programming language has become increasingly popular among malware developers due to its ability to produce statically linked, cross-platform executables that challenge traditional analysis techniques. These binaries embed a substantial runtime and compiler-generated metadata and are compiled with aggressive…
Mario Fruzangohar, Esmaeil Ebrahimie, David L. Adelson
Gene Ontology (GO) classification of statistically significant over/under expressed genes is a common method for interpreting transcriptomics data as a first step in functional genomic analysis. In this approach, all significant genes contribute equally to the final GO classification regardless of their actual…
Priyanka Mahajan, Oliver Fiehn, Dinesh Barupal
Biological interpretation of metabolomic datasets often ends at a pathway analysis step to find the over-represented metabolic pathways in the list of statistically significant metabolites. However, definitions of biochemical pathways and metabolite coverage vary among different curated databases, leading to missed…
Chongxin Zhong, Qidong Zhao, Xu Liu
Golang (also known as Go for short) has become popular in building concurrency programs in distributed systems. As the unique features, Go employs lightweight Goroutines to support highly parallelism in user space. Moreover, Go leverages channels to enable explicit communication among threads. However, recent studies…
Yifan Gao
—Lee Sedol is on a winning streak—does this legend rise again after the competition with AlphaGo? Ke Jie is invincible in the world championship—can he still win the title this time? Go is one of the most popular board games in East Asia, with a stable professional sports system that has lasted for decades in China…
Yifan Gao, Danni Zhang, Haoyue Li
—The game of Go has been highly under-researched due to the lack of game records and analysis tools. In recent years, the increasing number of professional competitions and the advent of AlphaZero-based algorithms provide an excellent opportunity for analyzing human Go games on a large scale. In this paper, we present…
Hongmei Sun, Hong Fang, Tao Chen, Roger Perkins + 1 more
Background Gene Ontology (GO) characterizes and categorizes the functions of genes and their products according to biological processes, molecular functions and cellular components, facilitating interpretation of data from high-throughput genomics and proteomics technologies. The most effective use of GO information is…
Kalifa Manjang, Shailesh Tripathi, Olli Yli-Harja, Matthias Dehmer + 1 more
'Frank Emmert-Streib'] Gene ontology (GO) is an eminent knowledge base frequently used for providing biological interpretations for the analysis of genes or gene sets from biological, medical and clinical problems. Unfortunately, the interpretation of such results is challenging due to the large number of GO terms…
Tao Xu, JianLei Gu, Yan Zhou, LinFang Du
Background Gene set analysis based on Gene Ontology (GO) can be a promising method for the analysis of differential expression patterns. However, current studies that focus on individual GO terms have limited analytical power, because the complex structure of GO introduces strong dependencies among the terms, and some…
Zuozhou Chen, Weilin Wang, Xuefeng Bruce Ling, Jane Jijun Liu + 1 more
'Liangbiao Chen'] Background Large-scale sequencing efforts produced millions of Expressed Sequence Tags (ESTs) collectively representing differentiated biochemical and functional states. Analysis of these EST libraries reveals differential gene expressions, and therefore EST data sets constitute valuable resources for…
Antonio Monleon-Getino, Andreu Paytuví-Gallart, Walter Sanseverino, Javier Méndez
High-throughput experimental techniques, such as metagenomics or metatranscriptomics, produce large amounts of data, which interpretation and conversion into understandable knowledge can be challenging and out of reach. We present GANGO, a new algorithm based on the ecological concept of consortium (groups biologically…
Alejandro Rodriguez, Antonio Monleon Getino
A comprehensive application designed for the interpretation and visualization of the functional analysis related to KEGG pathways and gene ontologies gives researchers and specialists a tool to get detailed functional information about their data, specifically going deep into biological pathways and gene functions…
Artur Rodrigues, Leon Newman, Neus Lozano, Sourav Prasanna Mukherjee + 3 more
We report the reproducible production of graphene oxide flakes of controlled lateral dimensions under endotoxin free conditions for biomedical and hazard assessment investigations. In addition, we report the thorough characterisation of those materials, using optical, atomic force, electron microcopies; fluorescence…
Frank Koopmans
Geneset enrichment analysis is foundational to the interpretation of high throughput biology. We here present GOAT (https://github.com/ftwkoopmans/goat), a parameter-free permutation-based algorithm for geneset enrichment analysis of preranked genelists. Estimated geneset p-values are well calibrated under the null…
Gbolahan A. Reis, Matthew L. Forister, Lauren K. Lucas, Arthur M. Shapiro + 3 more
Genomic offset (GO) is increasingly used to predict population maladaptation risk under climate change, with larger offsets assumed to indicate greater vulnerability. Despite rapid adoption in conservation planning, it remains unclear how sensitive GO estimates are to key methodological choices, including SNP set…
Nicky Savjani, Vicente Orts Mercadillo, Darren Hodgeman, Yubao Deng + 3 more
Applications of copper coatings on steel switching mechanisms are abundant owing to their high conductivities and corrosion resistance that they impart on the engineered assemblies. However, applications of these coatings on such moving parts are limited due to their poor tribological properties; tendencies to generate…
Moyassar Meshhal, Oliver Kuehn
Among the carbon-based two-dimensional materials, graphene oxide (GO) has been attracting a growing interest due to its capability to be utilized in the field of water remediation. Therefore, an atomistic understanding of the transport properties of water in layered GO is pivotal for the development of novel GO…
Authors not listed
The development of advanced relative humidity (r.h.) sensors holds immense potential for wearable applications where precise monitoring of environmental or physiological conditions is crucial. In this study, we explore the tunability of graphene oxide/reduced graphene oxide/titania nanocrystal (GO/rGO/TNC) hybrid films…
Xiaoheng Xie, Gang Fan, Xiaojun Lin, Ang Zhou + 20 more
'Xunjin Zheng' 'Yinan Liang' 'Yu Zhang' 'Na Yu' 'Haokun Li' 'Xinyu Chen' 'Yingzhuang Chen' 'Yi Zhen' 'Dejun Dong' 'Xianjin Fu' 'Jinzhou Su' 'Fuxiong Pan' 'Pengshuai Luo' 'Youzheng Feng' 'Ruoxiang Hu' 'Jing Fan' 'Jinguo Zhou' 'Xiao Xiao' 'Peng Di'] CODEFUSE-QUERY reimagines code analysis as a data computation task…
Gayathri Athavan, François-Xavier Coudert, Robin Bedford
A re-examination of recent claims of room temperature colossal superparamagnetic behaviour of a material based on graphene oxide (GO) modified by well-known aminoferrocene has been undertaken. The synthetic claims of the well-known and commercially available aminoferrocene do not bear scrutiny, neither from new data…