Bridging the Divide between Manual Gating and Bioinformatics with the Bioconductor Package flowFlowJo [0.03%]
利用Bioconductor软件包flowFlowJo弥合手动门控和计算生物学之间的差距
John J Gosink,Gary D Means,William A Rees et al.
John J Gosink et al.
In flow cytometry, different cell types are usually selected or "gated" by a series of 1- or 2-dimensional geometric subsets of the measurements made on each cell. This is easily accomplished in commercial flow cytometry packages but it is ...
Nafeh Fananapazir,Alexander Statnikov,Constantin F Aliferis
Nafeh Fananapazir
Within clinical proteomics, mass spectrometry analysis of biological samples is emerging as an important high-throughput technology, capable of producing powerful diagnostic and prognostic models and identifying important disease biomarkers...
A combinatory approach for selecting prognostic genes in microarray studies of tumour survivals [0.03%]
基因筛选的组合分析方法在肿瘤预后研究中的应用
Qihua Tan,Mads Thomassen,Kirsten M Jochumsen et al.
Qihua Tan et al.
Different from significant gene expression analysis which looks for genes that are differentially regulated, feature selection in the microarray-based prognostic gene expression analysis aims at finding a subset of marker genes that are not...
Errol Strain,Florian Hahne,Ryan R Brinkman et al.
Errol Strain et al.
Flow cytometry (FCM) software packages from R/Bioconductor, such as flowCore and flowViz, serve as an open platform for development of new analysis tools and methods. We created plateCore, a new package that extends the functionality in the...
The KM-Algorithm Identifies Regulated Genes in Time Series Expression Data [0.03%]
The KM-算法在时间序列表达数据中识别受调节的基因
Martina Bremer,R W Doerge
Martina Bremer
We present a statistical method to rank observed genes in gene expression time series experiments according to their degree of regulation in a biological process. The ranking may be used to focus on specific genes or to select meaningful su...
FlowFP: A Bioconductor Package for Fingerprinting Flow Cytometric Data [0.03%]
FlowFP：用于表征流式细胞仪数据指纹的生物信息学工具包
Wade T Rogers,Herbert A Holyst
Wade T Rogers
A new software package called flowFP for the analysis of flow cytometry data is introduced. The package, which is tightly integrated with other Bioconductor software for analysis of flow cytometry, provides tools to transform raw flow cytom...
Automated quantitative assessment of proteins' biological function in protein knowledge bases [0.03%]
蛋白质知识库中蛋白质生物功能的自动化定量评估方法研究
Gabriele Mayr,Günter Lepperdinger,Peter Lackner
Gabriele Mayr
Primary protein sequence data are archived in databases together with information regarding corresponding biological functions. In this respect, UniProt/Swiss-Prot is currently the most comprehensive collection and it is routinely cross-exa...
NCR-PCOPGene: An Exploratory Tool for Analysis of Sample-Classes Effect on Gene-Expression Relationships [0.03%]
NCR-PCOP基因：分析样本类别对基因表达关系影响的探索工具
Juan Cedano,Mario Huerta,Enrique Querol
Juan Cedano
Background. Microarray technology is so expensive and powerful that it is essential to extract maximum value from microarray data. Our tools allow researchers to test and formulate from a hypothesis to entire models. Results. The objective ...
Bing Han,Naomi S Altman,Jessica A Mong et al.
Bing Han et al.
We develop methods to compare the positions of quantitative trait loci (QTL) with a set of genes selected by other methods, such as microarray experiments, from a sequenced genome. We apply our methods to QTL for addictive behavior in mouse...
A pathway analysis tool for analyzing microarray data of species with low physiological information [0.03%]
一种用于分析生理信息匮乏的物种的基因表达谱数据的通路分析工具
M F W Te Pas,S van Hemert,B Hulsegge et al.
M F W Te Pas et al.
Pathway information provides insight into the biological processes underlying microarray data. Pathway information is widely available for humans and laboratory animals in databases through the internet, but less for other species, for exam...