Differential expression
This page summarises a number of differential transcriptomic experiments that have been carried out as part of the Phaeoexplorer project.
The experiments analysed several different parameters: life cycle generation, sex, vegetative versus fertile individuals, freshwater compared to seawater culture and monoicous versus dioicous species.
In almost all cases the experiments involved triplicate samples of each condition. For each species, all the RNA-seq data was mapped to the same reference genome and read counts generated using Salmon (version 1.3.0).
Hover over icons to view corresponding captions (
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Sea / Fresh Water
| Species | Genes quantification |
|---|---|
| Pleurocladia lacustris
Sequencing: Illumina, Nanopore
Good quality assembly
|
Pleurocladia-lacustris_mRNAexpression_Salmon-quant.tab.gz |
| Porterinema fluviatile
Sequencing: Illumina, Nanopore
Near chromosome scale assembly
|
Porterinema-fluviatile_mRNAexpression_Salmon-quant.tab.gz |
Reproductive / Vegetative
| Species | Genes quantification |
|---|---|
| Fucus distichus
Sequencing: Illumina
Draft genome
|
Fucus-distichus_mRNAexpression_Salmon-quant.tab.gz |
| Fucus serratus
Sequencing: Illumina, Nanopore
Good quality assembly
|
Fucus-serratus_MALE_mRNAexpression_Salmon-quant.tab.gz |
Male / Female
| Species | Genes quantification |
|---|---|
| Desmarestia herbacea
Sequencing: Illumina, Nanopore
Good quality assembly
|
Desmarestia-herbacea_MALE_mRNAexpression_Salmon-quant.tab.gz |
| Dictyota dichotoma
Sequencing: Illumina, Nanopore
Good quality assembly
|
Dictyota-dichotoma_MALE_mRNAexpression_Salmon-quant.tab.gz |
| Fucus serratus
Sequencing: Illumina, Nanopore
Good quality assembly
|
Fucus-serratus_MALE_mRNAexpression_Salmon-quant.tab.gz |
| Myriotrichia clavaeformis
Sequencing: Illumina
Draft genome
|
Myriotrichia-clavaeformis_MALE_mRNAexpression_Salmon-quant.tab.gz |
| Saccorhiza polyschides
Sequencing: Illumina
Draft genome
|
Saccorhiza-polyschides_MALE_mRNAexpression_Salmon-quant.tab.gz |
| Sphaerotrichia firma
Sequencing: Illumina
Draft genome
|
Sphaerotrichia-firma_MALE_mRNAexpression_Salmon-quant.tab.gz |
Gametophyte / Sporophyte
| Species | Genes quantification |
|---|---|
| Dictyota dichotoma
Sequencing: Illumina, Nanopore
Good quality assembly
|
Dictyota-dichotoma_MALE_mRNAexpression_Salmon-quant.tab.gz |
| Myriotrichia clavaeformis
Sequencing: Illumina
Draft genome
|
Myriotrichia-clavaeformis_MALE_mRNAexpression_Salmon-quant.tab.gz |