The DOI matches its Crossref record; 11 of the 11 references it cites were found in a registry or an index.
ArrayExpress update--an archive of microarray and high-throughput sequencing-based functional genomics experiments
Open accessAbstract
The ArrayExpress Archive (http://www.ebi.ac.uk/arrayexpress) is one of the three international public repositories of functional genomics data supporting publications. It includes data generated by sequencing or array-based technologies. Data are submitted by users and imported directly from the NCBI Gene Expression Omnibus. The ArrayExpress Archive is closely integrated with the Gene Expression Atlas and the sequence databases at the European Bioinformatics Institute. Advanced queries provided via ontology enabled interfaces include queries based on technology and sample attributes such as disease, cell types and anatomy.
Overview
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Integrity signals
Registry
Cites
Statistics
Verification
Claims the paper makes
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Self-check
Percentages, sums and reported differences re-computed from the paper’s own numbers.
The self-check needs the paper’s full text.
Citations
Cites
Bioinformatics and Computational Biology Solutions Using R and Bioconductor
(2005) · Statistics for Biology and Health · doi:10.1007/0-387-29362-0 · Cited by 3,289
ArrayExpress--a public repository for microarray gene expression data at the EBI
Parkinson, H. (2004) · Nucleic Acids Research · doi:10.1093/nar/gki056 · Cited by 1,075
Self-citationNCBI GEO: archive for high-throughput functional genomic data
Barrett, T., Troup, D. B., Wilhite, S. E., Ledoux, P., Rudnev, D., Evangelista, C., Kim, I. F., Soboleva, A., Tomashevsky, M., Marshall, K. A., et al. (2009) · Nucleic Acids Research · doi:10.1093/nar/gkn764 · Cited by 1,041
ArrayExpress--a public repository for microarray gene expression data at the EBI
Brazma, A. (2003) · Nucleic Acids Research · doi:10.1093/nar/gkg091 · Cited by 774
Self-citationHubbard, T. J. P., Aken, B. L., Ayling, S., Ballester, B., Beal, K., Bragin, E., Brent, S., Chen, Y., Clapham, P., Clarke, L., et al. (2009) · Nucleic Acids Research · doi:10.1093/nar/gkn828 · Cited by 670
Modeling sample variables with an Experimental Factor Ontology
Malone, J., Holloway, E., Adamusiak, T., Kapushesky, M., Zheng, J., Kolesnikov, N., Zhukova, A., Brazma, A., & Parkinson, H. (2010) · Bioinformatics · doi:10.1093/bioinformatics/btq099 · Cited by 568
Self-citationDesign and implementation of microarray gene expression markup language (MAGE-ML)
Spellman, P. T., Miller, M., Stewart, J., Troup, C., Sarkans, U., Chervitz, S., Bernhart, D., Sherlock, G., Ball, C., Lepage, M., et al. (2002) · Genome Biology · doi:10.1186/gb-2002-3-9-research0046 · Cited by 439
Self-citationGene Expression Atlas at the European Bioinformatics Institute
Kapushesky, M., Emam, I., Holloway, E., Kurnosov, P., Zorin, A., Malone, J., Rustici, G., Williams, E., Parkinson, H., & Brazma, A. (2010) · Nucleic Acids Research · doi:10.1093/nar/gkp936 · Cited by 256
Self-citationA simple spreadsheet-based, MIAME-supportive format for microarray data: MAGE-TAB
Rayner, T. F., Rocca-Serra, P., Spellman, P. T., Causton, H. C., Farne, A., Holloway, E., Irizarry, R. A., Liu, J., Maier, D. S., Miller, M., et al. (2006) · BMC Bioinformatics · doi:10.1186/1471-2105-7-489 · Cited by 217
Self-citationPetabyte-scale innovations at the European Nucleotide Archive
Cochrane, G., Akhtar, R., Bonfield, J., Bower, L., Demiralp, F., Faruque, N., Gibson, R., Hoad, G., Hubbard, T., Hunter, C., et al. (2008) · Nucleic Acids Research · doi:10.1093/nar/gkn765 · Cited by 105
Cited by
NCBI GEO: archive for functional genomics data sets—update
Barrett, T., Wilhite, S. E., Ledoux, P., Evangelista, C., Kim, I. F., Tomashevsky, M., Marshall, K. A., Phillippy, K. H., Sherman, P. M., Holko, M., et al. (2012) · Nucleic Acids Research · doi:10.1093/nar/gks1193 · Cited by 10,418
Disease Ontology: a backbone for disease semantic integration
Schriml, L. M., Arze, C., Nadendla, S., Chang, Y.-W. W., Mazaitis, M., Felix, V., Feng, G., & Kibbe, W. A. (2012) · Nucleic Acids Research · doi:10.1093/nar/gkr972 · Cited by 929
The sequence read archive: explosive growth of sequencing data
Kodama, Y., Shumway, M., Leinonen, R., & on behalf of the International Nucleotide Sequence Database Collaboration (2012) · Nucleic Acids Research · doi:10.1093/nar/gkr854 · Cited by 894
Computational tools for prioritizing candidate genes: boosting disease gene discovery
Moreau, Y., & Tranchevent, L.-C. (2012) · Nature Reviews Genetics · doi:10.1038/nrg3253 · Cited by 417
Evaluation of methods for modeling transcription factor sequence specificity
DREAM5 Consortium, Weirauch, M. T., Cote, A., Norel, R., Annala, M., Zhao, Y., Riley, T. R., Saez-Rodriguez, J., Cokelaer, T., Vedenko, A., et al. (2013) · Nature Biotechnology · doi:10.1038/nbt.2486 · Cited by 381
Metadata
- Authors
- Parkinson, H., Sarkans, U., Kolesnikov, N., Abeygunawardena, N., Burdett, T., Dylag, M., Emam, I., Farne, A., Hastings, E., Holloway, E., Kurbatova, N., Lukk, M., Malone, J., Mani, R., Pilicheva, E., Rustici, G., Sharma, A., Williams, E., Adamusiak, T., Brandizi, M., Sklyar, N., & Brazma, A.
- Venue
- Nucleic Acids Research
- Publisher
- Oxford University Press (OUP)
- Published
- 2010-11-10
- Volume
- 39
- Issue
- Database
- Pages
- D1002-D1004
- ISSN
- 0305-1048 (ISSN-L)
- 1362-4962
- OpenAlex
- W2024858956
- Cited by
- 337
- References
- 11
- FWCI
- 21.50
- Type
- journal article
- Language
- en
- Open access
- gold
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
Are you an author, or do you see a problem with this page? Request a review
How to cite
Cite CoChat for the checks on this page, and the paper for its own findings.
- This page
- CoChat. (2026). Citation check: ArrayExpress update--an archive of microarray and high-throughput sequencing-based functional genomics experiments. https://app.cochat.ai/papers/10.1093/nar/gkq1040
- The paper
- Parkinson, H., Sarkans, U., Kolesnikov, N., Abeygunawardena, N., Burdett, T., Dylag, M., Emam, I., Farne, A., Hastings, E., Holloway, E., Kurbatova, N., Lukk, M., Malone, J., Mani, R., Pilicheva, E., Rustici, G., Sharma, A., Williams, E., Adamusiak, T., . . . Brazma, A. (2011). ArrayExpress update--an archive of microarray and high-throughput sequencing-based functional genomics experiments. Nucleic Acids Research. https://doi.org/10.1093/nar/gkq1040
Data sources
Bibliographic data: Semantic Scholar, OpenAlex, Crossref.
Contains information from the Semantic Scholar Academic Graph Datasets, made available under the ODC Attribution License (ODC-BY 1.0).
Semantic Scholar’s data is described in: Kinney, R., et al. (2023). The Semantic Scholar Open Data Platform. arXiv:2301.10140.
