Nippostrongylus brasiliensis - public RNASeq studies
Table of Contents
Analysed
ERP023010: Nippostrongylus brasiliensis Genome & Transcriptome sequencing and assembly
Malaghan Institute of Medical Research
Providing a high-quality reference genome, transcriptome and predicted proteome for Nippostrongylus brasiliensis. The assembly process uses MinION long reads for initial contig generation, with Illumina reads for subsequent error correction.
Annotated mitochondrial genome with Nanopore R9 signal for Nippostrongylus brasiliensis. (Chandler .. Eccles, 2017)
De novo assembly of the complex genome of Nippostrongylus brasiliensis using MinION long reads. (Eccles .. Ewbank, 2018)
Downloads
Characteristics and conditions per run
Counts of aligned reads per run (HTSeq2)
Gene expression (TPM) per run
Gene expression (TPM) per condition as median across runs
Differential expression
Design: 3 conditions
| Condition | num. replicates | Culture conditions | Developmental stage |
|---|---|---|---|
| L3 larvae, activated incubation | 3 | activated incubation (37°C) | L3 |
| L3 larvae, infective incubation | 3 | infective incubation (20°C) | L3 |
| L3 larvae, red-blood cell feeding | 3 | red-blood cell feeding (37°C) | L3 |
Other
These studies are available in ENA, and the reads successfully align to our genomes.
They have not been included in our analysis for one of the following reasons:
Failed to meet minimal criteria for differential expression analysis, failure to pass data quality filters, or we were unable to interpret accompanying metadata.
ERP017922: Nippostrongylus brasiliensis transcriptome
Wellcome Sanger Institute
6 runs in ENA
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