Capturing genomic signatures of DNA sequence variation using a standard anonymous microarray platform

CH Cannon, CS Kua, EK Lobenhofer… - Nucleic Acids …, 2006 - academic.oup.com
Comparative genomics, using the model organism approach, has provided powerful insights
into the structure and evolution of whole genomes. Unfortunately, only a small fraction of …

[HTML][HTML] Comparing whole genomes using DNA microarrays

D Gresham, MJ Dunham, D Botstein - Nature Reviews Genetics, 2008 - nature.com
The rapid accumulation of complete genomic sequences offers the opportunity to carry out
an analysis of inter-and intra-individual genome variation within a species on a routine …

[HTML][HTML] Extracting population genetics information from a diploid genome sequence

N Osada - Frontiers in Ecology and Evolution, 2014 - frontiersin.org
Due to advances in sequencing technologies, large-scale genomic research has become
feasible for many biologists who study organisms that are not traditionally used as model …

DNA chip analysis in diverse organisms with unsequenced genomes

RN Nazar, P Chen, D Dean, J Robb - Molecular biotechnology, 2010 - Springer
Whether for basic research or biotechnology, DNA microarrays have become indispensable
tools for studying the transcriptome. Normally, analyses begin with a set of known cDNA …

A perfect match genomic landscape provides a unified framework for the precise detection of variation in natural and synthetic haploid genomes

K Palacios-Flores, J García-Sotelo, A Castillo… - Genetics, 2018 - academic.oup.com
At the heart of genomics lies the precise determination of an organism's DNA sequence.
Palacios-Flores et al. present a simple, sensitive, precise, and essentially non-statistical …

A case for evolutionary genomics and the comprehensive examination of sequence biodiversity

DD Pollock, JA Eisen, NA Doggett… - Molecular Biology and …, 2000 - academic.oup.com
Comparative analysis is one of the most powerful methods available for understanding the
diverse and complex systems found in biology, but it is often limited by a lack of …

Rapid transcriptome characterization for a nonmodel organism using 454 pyrosequencing

JC Vera, CW Wheat, HW Fescemyer… - Molecular …, 2008 - Wiley Online Library
We present a de novo assembly of a eukaryote transcriptome using 454 pyrosequencing
data. The Glanville fritillary butterfly (Melitaea cinxia; Lepidoptera: Nymphalidae) is a …

KARMA: a web server application for comparing and annotating heterogeneous microarray platforms

KH Cheung, J Hager, D Pan, R Srivastava… - Nucleic acids …, 2004 - academic.oup.com
We have developed a universal web server application (KARMA) that allows comparison
and annotation of user-defined pairs of microarray platforms based on diverse types of …

Diversity arrays: a solid state technology for sequence information independent genotyping

D Jaccoud, K Peng, D Feinstein… - Nucleic acids research, 2001 - academic.oup.com
Here we present the successful application of the microarray technology platform to the
analysis of DNA polymorphisms. Using the rice genome as a model, we demonstrate the …

Galaxy tools to study genome diversity

OC Bedoya-Reina, A Ratan, R Burhans, HL Kim… - …, 2013 - academic.oup.com
Background Intra-species genetic variation can be used to investigate population structure,
selection, and gene flow in non-model vertebrates; and due to the plummeting costs for …