The Bgee suite: integrated curated expression atlas and comparative transcriptomics in animals Article Swipe
Frederic Bastian
,
Julien Roux
,
Anne Niknejad
,
Aurélie Comte
,
Sara Simões Costa
,
Tarcisio Mendes de Farias
,
Sébastien Moretti
,
Gilles Parmentier
,
Valentine Rech de Laval
,
Marta Rosikiewicz
,
Julien Wollbrett
,
Amina Echchiki
,
Angélique Escoriza
,
Walid H. Gharib
,
Mar Gonzales-Porta
,
Yohan Jarosz
,
Balazs Laurenczy
,
Philippe Moret
,
Emilie Person
,
Patrick Roelli
,
Komal Sanjeev
,
Mathieu Seppey
,
Marc Robinson‐Rechavi
·
YOU?
·
· 2020
· Open Access
·
· DOI: https://doi.org/10.1093/nar/gkaa793
YOU?
·
· 2020
· Open Access
·
· DOI: https://doi.org/10.1093/nar/gkaa793
Bgee is a database to retrieve and compare gene expression patterns in multiple animal species, produced by integrating multiple data types (RNA-Seq, Affymetrix, in situ hybridization, and EST data). It is based exclusively on curated healthy wild-type expression data (e.g., no gene knock-out, no treatment, no disease), to provide a comparable reference of normal gene expression. Curation includes very large datasets such as GTEx (re-annotation of samples as ‘healthy’ or not) as well as many small ones. Data are integrated and made comparable between species thanks to consistent data annotation and processing, and to calls of presence/absence of expression, along with expression scores. As a result, Bgee is capable of detecting the conditions of expression of any single gene, accommodating any data type and species. Bgee provides several tools for analyses, allowing, e.g., automated comparisons of gene expression patterns within and between species, retrieval of the prefered conditions of expression of any gene, or enrichment analyses of conditions with expression of sets of genes. Bgee release 14.1 includes 29 animal species, and is available at https://bgee.org/ and through its Bioconductor R package BgeeDB.
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Metadata
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- OA Status
- gold
- Cited By
- 182
- References
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- Related Works
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- OpenAlex ID
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All OpenAlex metadata
Raw OpenAlex JSON
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https://openalex.org/W3091866222Canonical identifier for this work in OpenAlex
- DOI
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https://doi.org/10.1093/nar/gkaa793Digital Object Identifier
- Title
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The Bgee suite: integrated curated expression atlas and comparative transcriptomics in animalsWork title
- Type
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articleOpenAlex work type
- Language
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enPrimary language
- Publication year
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2020Year of publication
- Publication date
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2020-09-15Full publication date if available
- Authors
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Frederic Bastian, Julien Roux, Anne Niknejad, Aurélie Comte, Sara Simões Costa, Tarcisio Mendes de Farias, Sébastien Moretti, Gilles Parmentier, Valentine Rech de Laval, Marta Rosikiewicz, Julien Wollbrett, Amina Echchiki, Angélique Escoriza, Walid H. Gharib, Mar Gonzales-Porta, Yohan Jarosz, Balazs Laurenczy, Philippe Moret, Emilie Person, Patrick Roelli, Komal Sanjeev, Mathieu Seppey, Marc Robinson‐RechaviList of authors in order
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https://doi.org/10.1093/nar/gkaa793Publisher landing page
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https://academic.oup.com/nar/article-pdf/49/D1/D831/35364714/gkaa793.pdfDirect link to full text PDF
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YesWhether a free full text is available
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goldOpen access status per OpenAlex
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https://academic.oup.com/nar/article-pdf/49/D1/D831/35364714/gkaa793.pdfDirect OA link when available
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Biology, Suite, Computational biology, Atlas (anatomy), Transcriptome, Evolutionary biology, Genetics, Gene expression, Gene, Anatomy, History, ArchaeologyTop concepts (fields/topics) attached by OpenAlex
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182Total citation count in OpenAlex
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2025: 22, 2024: 48, 2023: 47, 2022: 39, 2021: 25Per-year citation counts (last 5 years)
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76Number of works referenced by this work
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10Other works algorithmically related by OpenAlex
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| referenced_works | https://openalex.org/W2899616402, https://openalex.org/W2988240595, https://openalex.org/W6806115372, https://openalex.org/W1512337699, https://openalex.org/W2052250375, https://openalex.org/W2167898988, https://openalex.org/W2342127666, https://openalex.org/W1981849943, https://openalex.org/W2769591387, https://openalex.org/W2792450944, https://openalex.org/W1853435833, https://openalex.org/W2890662912, https://openalex.org/W2142678031, https://openalex.org/W2103017472, https://openalex.org/W2950595506, https://openalex.org/W2766510537, https://openalex.org/W2143742443, https://openalex.org/W971865635, https://openalex.org/W2068309352, https://openalex.org/W2095723013, https://openalex.org/W2037382435, https://openalex.org/W2105731904, https://openalex.org/W6769086666, https://openalex.org/W2745070627, https://openalex.org/W2898440040, https://openalex.org/W2118258530, https://openalex.org/W1973234126, https://openalex.org/W2165446840, https://openalex.org/W2898321887, https://openalex.org/W2110528934, https://openalex.org/W2116015974, https://openalex.org/W2158092584, https://openalex.org/W2898204371, https://openalex.org/W2917411498, https://openalex.org/W2765797013, https://openalex.org/W2055961987, https://openalex.org/W2149146453, https://openalex.org/W6607054263, https://openalex.org/W2138776746, https://openalex.org/W2156357245, https://openalex.org/W2323326409, https://openalex.org/W2952975344, https://openalex.org/W1973614663, https://openalex.org/W2162871532, https://openalex.org/W2055043387, https://openalex.org/W2170648600, https://openalex.org/W2146007051, https://openalex.org/W2109453886, https://openalex.org/W2135724909, https://openalex.org/W2146516445, https://openalex.org/W2142430722, https://openalex.org/W2045729458, https://openalex.org/W2546848075, https://openalex.org/W2120024428, https://openalex.org/W2222434377, https://openalex.org/W2210537348, https://openalex.org/W589337139, https://openalex.org/W1980402014, https://openalex.org/W2050287321, https://openalex.org/W1510603674, https://openalex.org/W1973094248, https://openalex.org/W2557110550, https://openalex.org/W2983941894, https://openalex.org/W2091940856, https://openalex.org/W4244393794, https://openalex.org/W2942967593, https://openalex.org/W2315579478, https://openalex.org/W2950184306, https://openalex.org/W2800028441, https://openalex.org/W2166682872, https://openalex.org/W6674690273, https://openalex.org/W2059328178, https://openalex.org/W2981657561, https://openalex.org/W2097360425, https://openalex.org/W2118451750, https://openalex.org/W1583996255 |
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| abstract_inverted_index.Bgee | 1, 107, 126, 165 |
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| corresponding_author_ids | https://openalex.org/A5039477407, https://openalex.org/A5054250703 |
| countries_distinct_count | 1 |
| institutions_distinct_count | 23 |
| corresponding_institution_ids | https://openalex.org/I12708293, https://openalex.org/I97565354 |
| sustainable_development_goals[0].id | https://metadata.un.org/sdg/15 |
| sustainable_development_goals[0].score | 0.6600000262260437 |
| sustainable_development_goals[0].display_name | Life in Land |
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| citation_normalized_percentile.is_in_top_10_percent | True |