ArticleNucleic acids research2016
MEPD: medaka expression pattern database, genes and more.
Article in Nucleic acids research, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers.
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Who cites it
6 citing papers in PubMed.
- The landscape of transcription factor promoter activity during vegetative development in Marchantia.The Plant cell · 2024Article
- Visualisation of gene expression within the context of tissues using an X-ray computed tomography-based multimodal approach.Scientific reports · 2024Article
- Igf signaling couples retina growth with body growth by modulating progenitor cell division.Development (Cambridge, England) · 2021Article
- QDPR homologues in Danio rerio regulate melanin synthesis, early gliogenesis, and glutamine homeostasis.PloS one · 2019Article
- Automatic Segmentation of Drosophila Neural Compartments Using GAL4 Expression Data Reveals Novel Visual Pathways.Current biology : CB · 2016Article
- Representation of anatomy in online atlases and databases: a survey and collection of patterns for interface design.BMC developmental biology · 2016Article
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Authors and funding
4 authors.
Funding
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Abstract
The Medaka Expression Pattern Database (MEPD; http://mepd.cos.uni-heidelberg.de/) is designed as a repository of medaka expression data for the scientific community. In this update we present two main improvements. First, we have changed the previous clone-centric view for in situ data to a gene-centric view. This is possible because now we have linked all the data present in MEPD to the medaka gene annotation in ENSEMBL. In addition, we have also connected the medaka genes in MEPD to their corresponding orthologous gene in zebrafish, again using the ENSEMBL database. Based on this, we provide a link to the Zebrafish Model Organism Database (ZFIN) to allow researches to compare expression data between these two fish model organisms. As a second major improvement, we have modified the design of the database to enable it to host regulatory elements, promoters or enhancers, expression patterns in addition to gene expression. The combination of gene expression, by traditional in situ, and regulatory element expression, typically by fluorescence reporter gene, within the same platform assures consistency in terms of annotation. In our opinion, this will allow researchers to uncover new insights between the expression domain of genes and their regulatory landscape.
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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.