Agilent Feature Extraction statistics

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Citations per year

Number of citations per year for the bioinformatics software tool Agilent Feature Extraction
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Tool usage distribution map

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Protocols

Agilent Feature Extraction specifications

Information


Unique identifier OMICS_23697
Name Agilent Feature Extraction
Software type Pipeline/Workflow
Interface Command line interface, Graphical user interface
Restrictions to use None
Input data A microarray image.
Input format TIFF
Output data A text file.
Output format TXT
Biological technology Agilent Technologies
Operating system Windows
Programming languages C
Database management system MySQL, MSSQL Server, PostgreSQL
License Commercial
Computer skills Advanced
Version 12.0
Stability No
Free trial Yes
Registration required Yes
Maintained No

Taxon


  • Primates
    • Homo sapiens
  • Rodents
    • Rattus norvegicus

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Publication for Agilent Feature Extraction

Agilent Feature Extraction citations

 (897)
library_books

Transcriptome Analysis of Circulating PBMCs to Understand Mechanism of High Altitude Adaptation in Native Cattle of Ladakh Region

2018
Sci Rep
PMCID: 5955995
PMID: 29769561
DOI: 10.1038/s41598-018-25736-7

[…] s of Ladakhi cows and Sahiwal cows, the yield of cRNA was >1.65 μg and specific activity was >9.0 pmol Cy3 per μg cRNA, indicating the good quality of cRNA obtained. The scanned images analysed using Agilent feature extraction software showed successful hybridization of the cRNA samples. The microarray raw data files were subjected for quantile normalization to remove unwanted technical variation. […]

library_books

Derivative chromosomes involving 5p large rearranged segments went unnoticed with the use of conventional cytogenetics

2018
PMCID: 5941813
PMID: 29760780
DOI: 10.1186/s13039-018-0374-4

[…] scanned using a microarray scanner with Surescan High Resolution Technology (Agilent, Santa Clara, USA). Image quantification, array quality control and aberration detection were performed using the Agilent Feature Extraction and DNA Analytics software (Agilent, Santa Clara, USA) according to the manufacturer’s instructions. Changes identified in the samples were visualized using the UCSC Genome […]

library_books

Serum miR 22 as potential non invasive predictor of poor clinical outcome in newly diagnosed, uniformly treated patients with diffuse large B cell lymphoma: an explorative pilot study

2018
PMCID: 5930939
PMID: 29716630
DOI: 10.1186/s13046-018-0768-5

[…] nner (P/N G2565BA) equipped with extended dynamic range (XDR) software according to the Agilent miRNA Microarray System. Signals from miRNA’s arrays were verified for quality control and extracted by Agilent Feature Extraction 10.7.3.1 software. All values lower than 1 were considered below detection and thresholded to 1. The signal of each sample was z-score transformed. Bioinformatic analyses we […]

library_books

The senescence associated secretory phenotype is potentiated by feedforward regulatory mechanisms involving Zscan4 and TAK1

2018
Nat Commun
PMCID: 5928226
PMID: 29712904
DOI: 10.1038/s41467-018-04010-4

[…] ere incubated for 17 h at 65 °C in an Agilent hybridization oven. The hybridized arrays were washed, fixed and scanned using the Agilent DNA microarray scanner (G2565BA), with data extracted with the Agilent Feature Extraction software (v11.0.1.1). Resulting single channel raw data were analyzed with Agilent GeneSpring GX software (v12.1). Raw datasets were imported and log2-transformed according […]

library_books

Identifying circRNA associated ceRNA networks in the hippocampus of Aβ1 42 induced Alzheimer's disease like rats using microarray analysis

2018
PMCID: 5940119
PMID: 29706607
DOI: 10.18632/aging.101427

[…] As were hybridized onto the Arraystar Rat circRNA Array (8x15K, Arraystar). After washing the slides, the arrays were scanned using the Agilent Scanner G2505C. All data collection was performed using Agilent Feature Extraction software (version 11.0.1.1). KangChen Bio-tech (Shanghai, China) performed all microarray analyses. […]

library_books

Reduced oxidative capacity in macrophages results in systemic insulin resistance

2018
Nat Commun
PMCID: 5908799
PMID: 29674655
DOI: 10.1038/s41467-018-03998-z

[…] RNA was applied microarray (Agilent technologies, 8 × 60 K) using Agilent’s Gene Expression Hybridization Kit (Agilent Technologies). Data were extracted on a G2565CA DNA Microarray Scanner using the Agilent Feature Extraction Software (Agilent Technologies) with default settings. […]


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Agilent Feature Extraction institution(s)
Johns Hopkins University School of Medicine, Oncology Biostatistics, Baltimore, MD, USA; Johns Hopkins School of Medicine, Baltimore, MD, USA; Johns Hopkins Bloomberg School of Public Health, Baltimore, MD, USA; Johns Hopkins University School of Medicine, Baltimore, MD, USA; Johns Hopkins University School of Medicine, Baltimore, MD, USA; Johns Hopkins University School of Medicine, Baltimore, MD, USA
Agilent Feature Extraction funding source(s)
Supported by the bioinformatics and microarray core resources provided for by NCI grant P30 CA06973-44 and by NSF grant DMS034211.

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