SGN-TEA

SGN-CEA

Cassava Expression Atlas

Expression Search

Paste a gene name or metabolite compound or agronomic trait (Eg: D-glucose_6-phosphate_ER). This will auto-complete based on the project you have selected.

BLAST Info

Paste a fasta sequence, a gene ID or just a sequence.

Both nucleotide or protein sequences are valid.

Custom List Info

Paste a list of gene IDs.

BLAST Search

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Hit number

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Custom List

Paste a list of gene IDs or metabolite compound IDs or agronomic trait IDs

Parameters and Filters

Select the data set (Project) you want to query.
Set the minimum correlation value (0.65 - 1.0) to display co-expressed genes with similar expression profiles.
Read help page for more information.
Filter the conditions to display: Stage, tissues, treatments, etc. Note that when no conditions are selected for filtering all the samples from the data set will be display.
Read help page for more information.

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Expression Viewer

Define Expression Parameters

Project Options

Opt1: Correlate metabolite and enzyme data for all accessions across all conditions: 'age of plant', 'time of day collected', and 'tissue'. Does not include agronomic data because the agronomic data does not include 'tissue' or 'time of day collected' conditions.

Opt2: Correlate metabolite, enzyme, and agronomic data for all accessions across the following conditions: 'age of plant', and 'tissue'. To accommodate the agronomic data, 'time of day collected' is not represented, and the metabolite and enzyme data is paired with its 'tissue'.

Opt3: Correlate metabolite, enzyme, and agronomic data for all accessions across the following specific conditions: 'week_16' for metabolites and enzymes, 'week_16' for agronomic data, and 'tissue'. As in Opt2 to accommodate the agronomic data, 'time of day collected' is not represented, and the metabolite and enzyme data is paired with its 'tissue'.

Opt4: Correlate metabolite, enzyme, and agronomic data for all accessions across the following specific conditions: 'week_16' for metabolites and enzymes, 'week_52' for agronomic data, and 'tissue'. As in Opt2 to accommodate the agronomic data, 'time of day collected' is not represented, and the metabolite and enzyme data is paired with its 'tissue'.

Opt5: Correlate metabolite, enzyme, and agronomic data for all accessions EXCEPT TMEB419 across the following specific conditions: 'week_16' for metabolites and enzymes, 'week_52' for agronomic data, and 'tissue'. As in Opt2 to accommodate the agronomic data, 'time of day collected' is not represented, and the metabolite and enzyme data is paired with its 'tissue'. TMEB419 is excluded because agronomic traits were not collected for it in week_52 in some projects.

Projects

CASS_6Genotypes_Sampling_2015_Opt1

CASS_6Genotypes_Sampling_2015_Opt2

CASS_6Genotypes_Sampling_2015_Opt3

CASS_6Genotypes_Sampling_2015_Opt4

CASS_6Genotypes_Sampling_2015_Opt5

CASS_6genotypes_GH_2015_Opt1

CASS_6genotypes_GH_2015_Opt2

CASS_6genotypes_GH_2015_Opt4

End_of_night-mid_day-end_of_day-young_vs_old-TMEB419_Opt1

End_of_night-mid_day-end_of_day-young_vs_old-TMEB419_Opt2

End_of_night-mid_day-end_of_day-young_vs_old-TMEB419_GH_Opt1

End_of_night-mid_day-end_of_day-young_vs_old-TMEB419_GH_Opt2

RNA_Nigeria_June_2016

RNA_Andreas

End_of_night-mid_day-end_of_day-young_vs_old-TMEB419_5_1_17_Opt1

CASS_6Genotypes_Sampling_2015_HEATMAP

CASS_4Geno_Monit_2017

CASS_4Geno_Monit_2017_TMEB693

CASS_2018_Proteomics_Combined

CASS_2018_DEglobal

CASS_2018_DEglobal_Proteomics_Combined

CBSD_150_Accessions_Cassava_Project

Correlation filter: 0.

Expression color scale: -

Developmental Stages

Organs

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