Results 61 to 70 of about 149,559 (187)

Error, reproducibility and sensitivity : a pipeline for data processing of Agilent oligonucleotide expression arrays [PDF]

, 2010
Background Expression microarrays are increasingly used to obtain large scale transcriptomic information on a wide range of biological samples. Nevertheless, there is still much debate on the best ways to process data, to design experiments and analyse ...
AR Dabney, AR Dabney, Benjamin Chain, BM Bolstad, BP Durbin, BS Everitt, CR Hampton, D Wang, E Birney, Helen Bowen, J Fan, J Rasaiyaah, J Rasaiyaah, Jane Rasaiyaah, Jhen Tsang, John Hammond, JP Hammond, L Shi, M Noursadeghi, M Sultan, Mahdad Noursadeghi, MN McCall, PA 't Hoen, TA Patterson, TC Kroll, WE Johnson, Wilfried Posch   +26 more
core   +2 more sources

Representational oligonucleotide microarray analysis: a high-resolution method to detect genome copy number variation.

Genome Research, 2003
We have developed a methodology we call ROMA (representational oligonucleotide microarray analysis), for the detection of the genomic aberrations in cancer and normal humans. By arraying oligonucleotide probes designed from the human genome sequence, and
R. Lucito, J. Healy, Joan Alexander, Andrew Reiner, D. Esposito, M. Chi, L. Rodgers, Amy Brady, J. Sebat, J. Troge, Joseph West, S. Rostan, K. Nguyen, S. Powers, Kenneth Q Ye, A. Olshen, E. Venkatraman, L. Norton, M. Wigler   +18 more
semanticscholar   +1 more source

ReseqChip: Automated integration of multiple local context probe data from the MitoChip array in mitochondrial DNA sequence assembly

BMC Bioinformatics, 2009
Background The Affymetrix MitoChip v2.0 is an oligonucleotide tiling array for the resequencing of the human mitochondrial (mt) genome. For each of 16,569 nucleotide positions of the mt genome it holds two sets of four 25-mer probes each that match the ...
Spang Rainer, Parson Walther, Niederstätter Harald, Lottaz Claudio, Thieme Marian, Oefner Peter J   +5 more
doaj   +1 more source

A high-resolution, nucleosome position map of C. elegans reveals a lack of universal sequence-dictated positioning.

Genome Research, 2008
Using the massively parallel technique of sequencing by oligonucleotide ligation and detection (SOLiD; Applied Biosystems), we have assessed the in vivo positions of more than 44 million putative nucleosome cores in the multicellular genetic model ...
Anton Valouev, J. Ichikawa, T. TonThat, Jeremy R Stuart, S. Ranade, H. Peckham, K. Zeng, J. Malek, G. Costa, K. McKernan, A. Sidow, A. Fire, Steven M. Johnson   +12 more
semanticscholar   +1 more source

Motif effects in Affymetrix GeneChips seriously affect probe intensities [PDF]

, 2012
An Affymetrix GeneChip consists of an array of hundreds of thousands of probes (each a sequence of 25 bases) with the probe values being used to infer the extent to which genes are expressed in the biological material under investigation. In this article,
Andrew P. Harrison, Arteaga-Salas, Arteaga-Salas, Barrett, Binder, Binder, Burden, Do, Fasold, Friedman, Geller, Gharaibeh, Graham J. G. Upton, Irizarry, Irizarry, Kerkhoven, Langdon, McCall, Mei, Memon, Memon, Mulders, Naef, Shanahan, Upton, Upton, Upton, Wanke   +27 more
core   +1 more source

Encrypted Oligonucleotide Arrays for Molecular Authentication.

ACS Combinatorial Science, 2019
Counterfeiting is an incredibly widespread problem, with some estimates placing its economic impact above 2% of worldwide GDP. The scale of the issue suggests that current preventive measures are either technologically insufficient or too impractical and
Matthew T. Holden, Lloyd M. Smith
semanticscholar   +1 more source

A simple optimization can improve the performance of single feature polymorphism detection by Affymetrix expression arrays

BMC Genomics, 2010
Background High-density oligonucleotide arrays are effective tools for genotyping numerous loci simultaneously. In small genome species (genome size: < ~300 Mb), whole-genome DNA hybridization to expression arrays has been used for various applications ...
Fujisawa Hironori, Harushima Yoshiaki, Horiuchi Youko, Mochizuki Takako, Kawakita Masanori, Sakaguchi Takayuki, Kurata Nori   +6 more
doaj   +1 more source

An ultrasensitive photoelectrochemical nucleic acid biosensor [PDF]

, 2005
A simple and ultrasensitive procedure for non-labeling detection of nucleic acids is described in this study. It is based on the photoelectrochemical detection of target nucleic acids by forming a nucleic acid/photoreporter adduct layer on an ITO ...
Gao, Zhiqiang, Tansil, Natalia C.
core   +3 more sources

Alternative mapping of probes to genes for Affymetrix chips

BMC Bioinformatics, 2004
Background Short oligonucleotide arrays have several probes measuring the expression level of each target transcript. Therefore the selection of probes is a key component for the quality of measurements.
Friis-Hansen Lennart, Møller Morten, Gautier Laurent, Knudsen Steen   +3 more
doaj   +1 more source

Affymetrix probes containing runs of contiguous guanines are not gene-specific [PDF]

, 2008
High Density Oligonucleotide arrays (HDONAs), such as the Affymetrix HG-U133A GeneChip, use sets of probes chosen to match specified genes, with the expectation that if a particular gene is highly expressed then all the probes in the designated probe set
Andrew P. Harrison, Graham J. Upton, William B. Langdon   +2 more
core   +1 more source