A framework for oligonucleotide microarray preprocessing

By Benilton S. Carvalho, Rafael A. Irizarry. Bioinform., 2010

1,444 citations recorded by the source corpus.

Subfields: Genetics, Molecular Biology

View Paper: https://www.semanticscholar.org/paper/03e7f5081f73e5dd43bb02939e10b648fa8a91a8

How researchers see this paper

The researchers whose trusted networks rank it highest, strongest advocate first. Every researcher gets a different order.

In Genetics

1. Eric E. Schadt
2. Mikhail Pachkov
3. Gabriel E. Hoffman
4. E. van Nimwegen

In Molecular Biology

1. Eric E. Schadt
2. Piotr J. Balwierz
3. Mikhail Pachkov
4. Mihaela Zavolan
5. Gabriel E. Hoffman
6. Phil Arnold
7. Andreas J. Gruber
8. E. van Nimwegen

Citations in the corpus

• ISMARA: automated modeling of genomic signals as a democracy of regulatory motifs (2014, methodology): “When using expression data from oligonucleotide microarrays, the raw probe intensities are corrected for background and unspecific binding using the Bioconductor packages affy[19], oligo[20], and gcrma[21], depending on the type of the particular microarray used.”
• variancePartition: interpreting drivers of variation in complex gene expression studies (2016, methodology): “ImmVar Expression array data was downloaded from GEO (GSE56035) and normalized with RMA [11] in the oligo Bioconductor package [12].”
• Resetting Transcription Factor Control Circuitry toward Ground-State Pluripotency in Human (2014, neutral): “0 ST arrays were processed with the oligo Bioconductor package (Carvalho and Irizarry, 2010) to summarize probe-set transcript clusters.”