ArticleComparative and functional genomics2002
Studying the functional genomics of stress responses in loblolly pine with the Expresso microarray experiment management system.
Article in Comparative and functional genomics, 2002. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 10 papers.
What it found
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Who cites it
10 citing papers in PubMed, 51 citations in OpenAlex.
- Characterization and Analysis of the Full-Length Transcriptomes of Multiple Organs inInternational journal of molecular sciences · 2020Article
- Article
- Identification of drought tolerant progenies in tea by gene expression analysis.Functional & integrative genomics · 2012Article
- A shared response of thaumatin like protein, chitinase, and late embryogenesis abundant protein3 to environmental stresses in tea [Camellia sinensis (L.) O. Kuntze].Functional & integrative genomics · 2012Article
- Microarray analysis and scale-free gene networks identify candidate regulators in drought-stressed roots of loblolly pine (P. taeda L.).BMC genomics · 2011Article
- Forest tree genomics: growing resources and applications.Nature reviews. Genetics · 2011Review
- Response diversity of Arabidopsis thaliana ecotypes in elevated [CO2] in the field.Plant molecular biology · 2006Article
- The statistics of identifying differentially expressed genes in Expresso and TM4: a comparison.BMC bioinformatics · 2006Article
- Photosynthetic acclimation is reflected in specific patterns of gene expression in drought-stressed loblolly pine.Plant physiology · 2003Article
- Oxidative stress and acclimation mechanisms in plants.The arabidopsis book · 2002Article
Corrections and comments
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Authors and funding
10 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Conception, design, and implementation of cDNA microarray experiments present a variety of bioinformatics challenges for biologists and computational scientists. The multiple stages of data acquisition and analysis have motivated the design of Expresso, a system for microarray experiment management. Salient aspects of Expresso include support for clone replication and randomized placement; automatic gridding, extraction of expression data from each spot, and quality monitoring; flexible methods of combining data from individual spots into information about clones and functional categories; and the use of inductive logic programming for higher-level data analysis and mining. The development of Expresso is occurring in parallel with several generations of microarray experiments aimed at elucidating genomic responses to drought stress in loblolly pine seedlings. The current experimental design incorporates 384 pine cDNAs replicated and randomly placed in two specific microarray layouts. We describe the design of Expresso as well as results of analysis with Expresso that suggest the importance of molecular chaperones and membrane transport proteins in mechanisms conferring successful adaptation to long-term drought stress.
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.