ArticleBMC proceedings2009
IMAD: flexible annotation of microarray sequences.
Article in BMC proceedings, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
6 citing papers in PubMed, 6 citations in OpenAlex.
- SigReannot-mart: a query environment for expression microarray probe re-annotations.Database : the journal of biological databases and curation · 2011Article
- Article
- The EADGENE and SABRE post-analyses workshop.BMC proceedings · 2009Article
- Comparison of three microarray probe annotation pipelines: differences in strategies and their effect on downstream analysis.BMC proceedings · 2009Article
- Methods for interpreting lists of affected genes obtained in a DNA microarray experiment.BMC proceedings · 2009Article
- Use of GenMAPP and MAPPFinder to analyse pathways involved in chickens infected with the protozoan parasite Eimeria.BMC proceedings · 2009Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
2 authors at 1 institution in 1 country.
Funding
Abstract
backgroundAccurate and current functional annotation of microarray probes is essential for the analysis and interpretation of the biological processes involved. As gene structures and functional annotation are updated in genome databases, the annotation attached to microarray probes must be updated so that scientists have access to the latest information with which to analyse their data.
resultsWe have designed a pipeline and database for the annotation of microarray probes using publically available databases. The pipeline is based on NCBI BLAST, Perl and MySQL. The pipeline was used to annotate a subset of 791 differentially expressed ArkGenomics chicken probes from an experiment involving chickens infected with the protozoan parasite Eimeria. Using our pipeline, 770 of the probes were assigned at least one entry in either the Ensembl, UniGene or the DFCI gene indices databases.
conclusionThe pipeline described here provides a simple and robust way of maintaining up-to-date and accurate annotation for microarray probes. The pipeline is designed in such a way as to be flexible and easy to update with new information.
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.