|
| Status |
Public on Jan 23, 2018 |
| Title |
The coding and noncoding transcriptome of Neurospora crassa |
| Organism |
Neurospora crassa |
| Experiment type |
Expression profiling by high throughput sequencing
Non-coding RNA profiling by high throughput sequencing
|
| Summary |
We present the NEUTRA database, a catalogue of the Neurospora transcriptome, based on RNA-Seq, RNAPII ChIP-Seq and ribosome fractionation studies.
The database also includes genome-wide binding sites of transcription factors involved in regulation of circadian gene expression.
In a comprehensive analysis of the transcriptome we identified and characterized 1478 long intergenic non-coding RNAs (lincRNAs) and 1056 natural antisense transcripts.
Both classes of long non-coding RNAs accumulate at lower levels than protein-coding mRNAs and they are considerably shorter.
We also confirmed annotated splice sites and identified new splice junctions and alternative splice sites, which are rare in Neurospora.
Our analysis revealed that the vast majority of lincRNAs and antisense transcripts do not contain introns.
NEUTRA is the first database to provide a collection of genome-wide deep sequencing data for the model organism Neurospora crassa and thus provides a tool that facilitates future research.
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| |
|
| Overall design |
RNA-seq of Neurospora crassa.
|
| |
|
| Contributor(s) |
Cemel IA, Ha N, Schermann G, Yonekawa S, Brunner M |
| Citation(s) |
29258423 |
| |
| Submission date |
May 24, 2017 |
| Last update date |
Jul 25, 2021 |
| Contact name |
Michael Brunner |
| Organization name |
BZH
|
| Street address |
Im Neuenheimer Feld 328
|
| City |
Heidelberg |
| ZIP/Postal code |
69120 |
| Country |
Germany |
| |
|
| Platforms (3) |
| GPL16164 |
Illumina HiSeq 2000 (Neurospora crassa) |
| GPL17918 |
Illumina Genome Analyzer IIx (Neurospora crassa) |
| GPL20705 |
Illumina HiSeq 2500 (Neurospora crassa) |
|
| Samples (8)
|
|
| Relations |
| BioProject |
PRJNA387687 |
| SRA |
SRP107924 |
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