ProteoMill | Differential expression pathway and network analysis tool

Welcome! Click on Upload a dataset in the task menu or download one our demo datasets to learn about accepted file formats.

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Identifier type

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Accepted filetypes are csv, tsv and txt.

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Select a file

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Accepted filetypes are csv, tsv and txt.

Select a dataset

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Mapped IDs

Include/exclude samples

Deselect a sample to exclude it

Expression levels

By condition By sample

Missing values cutoff

Set maximum number allowed missing values for each condition.
To proceed without removing any proteins with missing values, set the cutoff to a value higher than the number of samples / conditions

Validate IDs

Please note: Depending on the number of IDs, this process may take a long time to run.

Convert IDs

Insert a list of identifiers. Separators are automatically detected.

Assess goodness-of-fit

Fit to distribution

Select gene

Find closest human homologue using BLAST.

Generate report

Exports generated content to an Rmarkdown document

Generate report

PCA settings

Number of contributors:

Ellipse level:

Please review pairing mode under Settings

PCA 2D
PCA 3D

Heatmap settings

Sample correlation

Set contrasts

Which treatments should be compared?

Condition 1

Condition 2

Please review pairing mode under Settings

Download

Display only proteins that have:

Abs. log2 fold-change greater than or equal to

Adj. P-value less than

Pathway settings

Pathway database

Min log2 fold change

Max adj. P-value

Volcano plot
Sankey diagram

Network settings

Subset by up- or down-regulation

Up-regulated

Down-regulated

Both

Minimum abs. log2FC

Interaction confidence

Selection criteria

Selection subset

Strict Extended

Select proteins

Protein info

Contact

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Settings

Display options

Preferred color scheme

Normal Colorblind friendly

Text size

Small Medium Large

Target organism

Select species

Identifier type

Display ID labels as

Differential expression

Set engine

Pairing

Paired Unpaired