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Genomic workbench software v7

Manufactured by Agilent Technologies
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The Genomic Workbench software v7.0.4.0 is a bioinformatics software suite developed by Agilent Technologies. The core function of this software is to provide a platform for the analysis and visualization of genomic data.

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Lab products found in correlation

Sureprint g3 mouse cgh 240k, by Agilent Technologies (2 mentions) Custom 60k microarray, by Agilent Technologies (2 mentions)

Spelling variants of this product

Genomic Workbench software (30 citations) Agilent Genomic Workbench software v7.0 (4 citations) Genomic Workbench v7.0 (3 citations) Genomic Workbench software (v7.0) (3 citations)

2 protocols using genomic workbench software v7

1

Agilent aCGH Microarray Analysis

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Agilent oligonucleotide aCGH (SurePrint G3 Mouse CGH 240K or custom 60K microarray) was performed according to manufactures instructions. Agilent Genomic Workbench software v7.0.4.0 was used for aCGH data preprocessing. Legacy centralization option was used for re-centralization of raw log ratios to the most common ploidy state. ADM-2 algorithm was applied for aberration calling. Segments coordinates were reported for GRCm37 reference genome. Aberrations on chromosome 6 between positions 148719747 and 149503634 were excluded in further downstream analysis as this region resulted likely from an artefact. Normalized and curated data was imported into R.
Mueller S., Engleitner T., Maresch R., Zukowska M., Lange S., Kaltenbacher T., Konukiewitz B., Öllinger R., Zwiebel M., Strong A., Yen H.Y., Banerjee R., Louzada S., Fu B., Seidler B., Götzfried J., Schuck K., Hassan Z., Arbeiter A., Schönhuber N., Klein S., Veltkamp C., Friedrich M., Rad L., Barenboim M., Ziegenhain C., Hess J., Dovey O.M., Eser S., Parekh S., Constantino-Casas F., de la Rosa J., Sierra M.I., Fraga M., Mayerle J., Klöppel G., Cadiñanos J., Liu P., Vassiliou G., Weichert W., Steiger K., Enard W., Schmid R.M., Yang F., Unger K., Schneider G., Varela I., Bradley A., Saur D, & Rad R. (2018). Evolutionary routes and KRAS dosage define pancreatic cancer phenotypes. Nature, 554(7690), 62-68.
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2

Agilent aCGH Microarray Analysis

Check if the same lab product or an alternative is used in the 5 most similar protocols
Agilent oligonucleotide aCGH (SurePrint G3 Mouse CGH 240K or custom 60K microarray) was performed according to manufactures instructions. Agilent Genomic Workbench software v7.0.4.0 was used for aCGH data preprocessing. Legacy centralization option was used for re-centralization of raw log ratios to the most common ploidy state. ADM-2 algorithm was applied for aberration calling. Segments coordinates were reported for GRCm37 reference genome. Aberrations on chromosome 6 between positions 148719747 and 149503634 were excluded in further downstream analysis as this region resulted likely from an artefact. Normalized and curated data was imported into R.
Mueller S., Engleitner T., Maresch R., Zukowska M., Lange S., Kaltenbacher T., Konukiewitz B., Öllinger R., Zwiebel M., Strong A., Yen H.Y., Banerjee R., Louzada S., Fu B., Seidler B., Götzfried J., Schuck K., Hassan Z., Arbeiter A., Schönhuber N., Klein S., Veltkamp C., Friedrich M., Rad L., Barenboim M., Ziegenhain C., Hess J., Dovey O.M., Eser S., Parekh S., Constantino-Casas F., de la Rosa J., Sierra M.I., Fraga M., Mayerle J., Klöppel G., Cadiñanos J., Liu P., Vassiliou G., Weichert W., Steiger K., Enard W., Schmid R.M., Yang F., Unger K., Schneider G., Varela I., Bradley A., Saur D, & Rad R. (2018). Evolutionary routes and KRAS dosage define pancreatic cancer phenotypes. Nature, 554(7690), 62-68.
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