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Benjamin M. Bolstad
Researcher at University of California, Berkeley
Publications - 16
Citations - 31949
Benjamin M. Bolstad is an academic researcher from University of California, Berkeley. The author has contributed to research in topics: Affymetrix GeneChip Operating Software & Gene chip analysis. The author has an hindex of 13, co-authored 16 publications receiving 30171 citations. Previous affiliations of Benjamin M. Bolstad include Affymetrix.
Papers
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Book ChapterDOI
Preprocessing High-density Oligonucleotide Arrays
TL;DR: This chapter begins by describing how to import probe-level data into the system and how these data can be examined using the facilities of the AffyBatch class, and describes background adjustment, normalization, and summarization methods.
Journal ArticleDOI
Mitochondrial related gene expression changes are sensitive to agonal-pH state
Marquis P. Vawter,Hiroaki Tomita,Fan Meng,Benjamin M. Bolstad,Jin Billy Li,Simon J. Evans,Prabhakara V. Choudary,Mary Atz,Ling Shao,Charles R. Neal,D. M. Walsh,Margit Burmeister,Terence P. Speed,Richard M. Myers,Edward G. Jones,Stanley J. Watson,Huda Akil,William E. Bunney +17 more
TL;DR: This study presents a probabilistic procedure to construct a “spatially checkpoints” for the response of the immune system to foreign substance abuse.
FROZEN ROBUST MULTI-ARRAY ANALYSIS (fRMA)
TL;DR: A preprocessing algorithm, frozen RMA (fRMA), is proposed, which allows one to analyze microarrays individually or in small batches and then combine the data for analysis, and is comparable to RMA when the data are analyzed as a single batch and outperforms R MA when analyzing multiple batches.
Posted Content
Quality assessment for short oligonucleotide microarray data
TL;DR: Several new quality measures are introduced based on probe-level and probeset-level information, all obtained as a byproduct of the low-level analysis algorithms RMA/fitPLM for Affymetrix GeneChips, which help to spatially localize chip or hybridization problems.