ArrayTrack protocols

View ArrayTrack computational protocol

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chevron_left Gene expression microarray data visualization Bioinformatics workflows Differential expression detection Normalization Gene expression clustering Raw data import Over-representation analysis chevron_right
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ArrayTrack specifications

Information


Unique identifier OMICS_00851
Name ArrayTrack
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes
Wikipedia https://en.wikipedia.org/wiki/ArrayTrack

Maintainer


  • person_outline Dr. Weida Tong <>

Publications for ArrayTrack

ArrayTrack in pipelines

 (4)
2017
PMCID: 5610037
PMID: 28942197
DOI: 10.1016/j.redox.2017.09.006

[…] was exported as a custom report using the ‘arrayexpress data submission report plug-in v2.0.0’. the average probe signal (on the unlogged scale), probe id and detection p value were imported into arraytrack, a software system developed by the fda for the management, analysis, visualisation and interpretation of microarray data . within arraytrack normalisation, correlation analysis, cluster […]

2017
PMCID: 5650373
PMID: 29088818
DOI: 10.18632/oncotarget.20345

[…] genes were defined as potential hub genes. the unsupervised hierarchical clustering analysis (hca) and principal component analysis (pca) were used to explore the gene expression profiles in arraytrack (the national center for toxicological research, u.s. food and drug administration)., a total of 25,761 genes were detected and 17,055 genes were differentially expressed (fdr ≤ 0.05 […]

2011
PMCID: 3090758
PMID: 21554758
DOI: 10.1186/1753-6561-5-S2-S10

[…] viewed such analysis as distinct applications as opposed to data manipulation within the gene expression “database” in its traditional sense., lims systems such as base [], mimas [], ezarray [], and arraytrack [] process raw expression data to bring it to the level where differential expression analysis can be performed. this step is usually called the pre-expression analysis. in the expression […]

2011
PMCID: 3140411
PMID: 21792293
DOI: 10.4137/GRSB.S7457

[…] performed according to the standard procedures at the genomic center at beth israel deaconess medical center in boston., the microarray data analysis and data interpretation were performed using arraytrack. a list of differentially expressed genes (degs) were identified using a t-test with a combination of cut off p-value (p < 0.05) and fold change (fc > 2). the array-track gene […]


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ArrayTrack in publications

 (107)
PMCID: 5877424
PMID: 29543773
DOI: 10.3390/s18030878

[…] on the los, our self-adaptive algorithm can accurately detect the los, and the detection error is 1∘, which shown in b. at the same time, the impact of nlos is eliminated. compared to phaser [] and arraytrack [], we use fewer antenna arrays and achieve the total average error of 6.3∘; accurately enhancing 5.6∘ compared to traditional algorithms. similarly, compared with the spotfi [] […]

PMCID: 5809479
PMID: 29434260
DOI: 10.1038/s41598-018-21113-6

[…] usa) and then analyzed by t test. the mirnas with an absolute fold change greater than 1.5-fold and p value less than 0.05 between the control and fmt groups were defined as the dems. the hca within arraytrack® 3.5.0 was performed based on the expression levels of dems for visualizing the cluster of fmt-treated and the control samples., real-time quantitative pcr was performed on an eppendorf […]

PMCID: 5610037
PMID: 28942197
DOI: 10.1016/j.redox.2017.09.006

[…] quality and reproducibility of the microarrays and identify outliers, pearson's correlation coefficient of pair-wise log2 intensity correlation was calculated, using the correlation matrix tool in arraytrack. the entire normalised data set was used (a total of 22,519 probes), without a specific cut-off. samples from the same tissue origin were analysed together and arrays were considered […]

PMCID: 5599616
PMID: 28912502
DOI: 10.1038/s41467-017-00607-3

[…] analysis for dream data was performed using the statistical software package r. all p-values are two-sided with a p < 0.05 considered to be significant. hierarchical clustering was performed by arraytrack software available at http://edkb.fda.gov/webstart/arraytrack/ using ward’s method. p-values for comparisons between sample groups based on age/caloric status in each species were obtained […]

PMCID: 5556347
PMID: 28810910
DOI: 10.1186/s12906-017-1911-0

[…] or score = log(2(1 − p)) if p-value >0.5. the score more than 0.3, equivalent to p-value less than 0.5, was considered to be statistically significant. a total of 352 pathways was extracted from arraytrack (http://www.fda.gov/scienceresearch/bioinformaticstools/arraytrack) and used in this analysis. the scores of pathways were then displayed using tigr multiexperiment viewer […]


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ArrayTrack institution(s)
Z-Tech Corporation, an ICF International Company at the National Center for Toxicological Research, US Food and Drug Administration, Jefferson, AR, USA; Center for Bioinformatics, Division of Systems Biology, National Center for Toxicological Research, US Food and Drug Administration, Jefferson, AR, USA

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