Evidence map›Paper›PMID 14728212›Full record

ArticleAMIA ... Annual Symposium proceedings. AMIA Symposium2003

Expression array annotation using the BioMediator biological data integration system and the BioConductor analytic platform.

H Mei, P Tarczy-Hornoch, P Mork, A J Rossini, R Shaker, L Donelson

Abstract read
PubMed Full text at PMC
In one paragraph

Article in AMIA ... Annual Symposium proceedings. AMIA Symposium, 2003. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.

0numbers the graph read from it
0cells of the map it votes in
3citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

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.

2 · The registry

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.

3 · Its place in the literature

Who cites it

3 citing papers in PubMed.

  1. Article
  2. Article
  3. Issues in biomedical research data management and analysis: needs and barriers.Journal of the American Medical Informatics Association : JAMIA
    Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

6 authors.

H MeiBiomedical & Health Informatics, University of Washington, Seattle, WA, USA.
P Tarczy-Hornoch
P Mork
A J Rossini
R Shaker
L Donelson

Funding

University of Washington Biomedical Informatics and Data Science Research Training ProgramT15LM007442 · NLM · UNIVERSITY OF WASHINGTON · PI JOHN H. GENNARI, Andrea L. Hartzler · 2002 to 2026
$19.6M
GENESEEK: DATA INTEGRATION SYSTEM FOR GENETIC DATABASESR01HG002288 · NHGRI · UNIVERSITY OF WASHINGTON · PI TARCZY-HORNOCH, PETER · 2000 to 2005
$2.0M
NHGRI NIH HHS R01 HG002288NHGRI NIH HHS R01HG02288NLM NIH HHS T15 LM007442NLM NIH HHS T15LM07442
6 · The paper itself

Abstract

This paper presents the implementation of a model for expression array annotation (EAA) using the BioMediator biological data integration system along with BioConductor, an analytic tools platform. The model presented addresses the need for annotation sources identified during BioConductor inverted exclamation mark s development. Annotation provides us with well-curated genomic background knowledge for expression array analysis and interpretation. Annotation requests are constructed and posted to the query interface of the EAA package (the EAA model implemented as a component of BioConductor). The software enumerates all possible annotation paths for queries. These are then transformed to PQL queries and processed by BioMediator. Annotation entities returned from the EAA package answer the annotation request.

Indexed as

Computational BiologyDatabases, GeneticGene Expression ProfilingSoftwareInformation Storage and RetrievalOligonucleotide Array Sequence Analysis

Identifiers

PMID14728212
PMCPMC1479993

What OpenQuestion holds

Textmetadata
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Registered trials

None linked

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.