Advanced data curation in GTRD database: hierarchical dictionaries of cell types and experimental factors

Poster (download)

354

Video (download)

Mikhail A. Kulyashov1, Semyon K. Kolmykov2, Ivan S. Yevshin3, Fedor A. Kolpakov4
1BIOSOFT.RU,LLC, Institute of Computational Technologies, SB RAS FRC Institute of Cytology and Genetics SB RAS, m.kulyashov@mail.ru
2BIOSOFT.RU,LLC, Institute of Computational Technologies, SB RAS FRC Institute of Cytology and Genetics SB RAS, kolmykovsk@gmail.com
3BIOSOFT.RU,LLC, Institute of Computational Technologies, SB RAS FRC Institute of Cytology and Genetics SB RAS, ivan@developmentontheedge.com
4BIOSOFT.RU,LLC, Institute of Computational Technologies, SB RAS FRC Institute of Cytology and Genetics SB RAS, fkolpakov@gmail.com

Abstract GEO database contains a lot of different experiments about transcription regulation. Most part of such experiments (ChIP-seq, DNase-seq and Histone-ChIP-seq) for 9 species (Homo sapiens, Mus musculus, Rattus norvegicus, Danio rerio, Caenorhabditis elegans, Drosophila melanogaster, Saccharomyces cerevisiae, Schizosaccharomyces pombe and Arabidopsis thaliana) were annotated and uniformly processed in GTRD database. Here we are describing the latest advances in these data annotations for GTRD database to formalise experimental data: hierarchical dictionaries of cell types and experimental factors. This approach helps us to integrate experimental data by cell lines (cell types and tissues) and experimental conditions as well as simplifies searching for relevant information for a user.

0 0 vote
Article Rating
Subscribe
Notify of
guest
12 Comments
Inline Feedbacks
View all comments
autumn jazz work
5 months ago

autumn jazz work

relaxing autumn afternoon jazz

relaxing autumn afternoon jazz

relax cafe music
5 months ago

relax cafe music

heavenly music
5 months ago

heavenly music

bossa nova jazz
5 months ago

bossa nova jazz

cafe music
5 months ago

cafe music

Sleep
5 months ago

Sleep

soft jazz piano music
5 months ago

soft jazz piano music

healing meditation
5 months ago

healing meditation

spa music
4 months ago

spa music

stress relief
3 months ago

stress relief

outdoor cafe
1 month ago

outdoor cafe