News

Unipept 4.3 has just been released and contains these major additions:

• Load and process multiple samples at once with the metaproteomics analysis tool.
• Compare multiple samples with each other using the new heatmap.
• Functional analysis has been expanded with support for InterPro annotations.
• UniProt updated to version 2020.01

Unipept 4.3 consists of 1221 commits and 265 changed files with 22,851 additions and 13,029 deletions. This includes these updates:

added

support for processing multiple samples at once for Metaproteomics Analysis

added

a completely new comparative analysis for Metaproteomics Analysis

added

support for InterPro annotations in functional analysis

improved

Tryptic Peptide Analysis with new matched proteins overview.

improved

Completely rewritten Metaproteomics Analysis in TypeScript with Vue and Vuetify.

improved

Completely rewritten Tryptic Peptide Analysis in TypeScript with Vue and Vuetify.

improved

error handling and user notification in case network requests fail

improved

functional analysis overview with new, interactive, data tables.

removed

external links to PeptideAtlas and PRIDE for proteins in Tryptic Peptide Analysis

4.3.2 - 20-04-2020

improved

form validation for peptide in Tryptic Peptide Analysis

fixed

filtering by rank / namespace in heatmap wizards

fixed

positioning of table in heatmap wizards

fixed

crash in backend when looking up specific proteins in Tryptic Peptide Analysis

fixed

crash in backend when processing data without equateIl-parameter

4.3.3 - 20-04-2020

API/CLI related update

4.3.4 - 20-04-2020

API/CLI related update

4.3.5 - 29-04-2020

fixed

crash when reloading datasets from local storage

fixed

crash when exporting images in Firefox or Safari

Unipept 4.0 includes these major updates:

• A completely new functional analysis tool
• An updated database based on UniProt 2018.06

update 4.1.0: add extra functional information to the API.
Check the release notes for a full list of changes.

Unipept 4.0 consists of 272 commits and 91 changed files with 7,882 additions and 1,026 deletions. This includes these updates:

added

a completely new functional analysis view for Metaproteomics

added

a completely new functional analysis view for Tryptic peptide analysis

improved

the waiting expirience of a Metaproteomics Analysis

improved

strain names in peptidome analysis to be more clear

fixed

an issue that caused some proteome names to be cut off at a certain length

improved

the confidentiality of your metaproteomics datasets

improved

the test coverage of our frontend code

improved

the pipeline to work for larger Uniprot releases

updated

various dependencies

updated

to UniProt 2018.06

4.1.0 - 2019-01-21

added

extra functional information to the API

Unipept 3.3 includes these major updates:

• a complete rewrite of the metaproteomics analysis
• an updated database based on UniProt 2017.10

Check the release notes for a full list of changes.

Unipept 3.3 consists of 137 commits and 128 changed files with 9,244 additions and 3,820 deletions. This includes these updates:

improved

completely rewrite the metaproteome analysis

improved

restructure all javascript code

fixed

an issue with the copy to clipboard button

fixed

a crash when searching for an empty query

updated

to rails 5.1

updated

to UniProt 2017.10

3.3.1 - 2017-11-14

fixed

An issue with an incompatible JavaScript file

3.3.2 - 2017-11-14

fixed

An issue with the API "try it" feature

3.3.3 - 2017-11-15

improved

query performance of proteome loading

improved

the proteome preload scripts

improved

faster and more correct missed cleavage handling

improved

the MPA progress indication

removed

the obsolete export checkbox on the MPA form

fixed

An issue with the form help tooltips on the MPA result page

fixed

An issue with the treemap colors

3.3.4 - 2017-11-15

fixed

An issue with the sunburst visualisation

3.3.5 - 2017-12-11

fixed

An issue by adding a fetch polyfill

Unipept 3.2 includes these major updates:

• https and rails 5 support
• an updated database based on UniProt 2017.05

update 3.2.1: update to UniProt 2017.07
Check the release notes for a full list of changes.

Unipept 3.2 consists of 147 commits and 150 changed files with 1,983 additions and 1,350 deletions. This includes these updates:

added

a configure script for the make file

added

ec number and go term information to the database

improved

the performance of downloading proteome data

improved

the error resilience of the make file and scripts

fixed

an issue where not all type strains were added to the proteomes

fixed

an issue where the unique peptide finder could crash when requesting 0 sequences

updated

the publications section and about page

updated

to https and http2

updated

to rails 5

updated

to ruby 2.4

updated

to UniProt 2017.05

Unipept 3.1 includes these major updates:

• a faster peptidome analysis based on UniProt proteomes
• an updated database based on UniProt 2015.12

update 3.1.3: update to UniProt 2016.05
Check the release notes for a full list of changes.

Unipept 3.1 consists of 84 commits and 75 changed files with 1,158 additions and 921 deletions. This includes these updates:

added

UniProt proteomes as data source for the peptidome analysis instead of assemblies

added

Type strains and reference proteomes markers in the proteome selector

improved

The loading speed of proteomes by 3 to 5 times

improved

The unique peptidome calculation speed of proteomes by 5 to 25 times

improved

The sequence download speed of peptidomes by 3 to 5 times

improved

The taxon invalidation rules for viruses

fixed

an issue where virus names were abbreviated in the peptidome analysis where they shouldn't

fixed

a bug where the API could return an error 500 in an obscure case

fixed

a bug where the invalid input would result in an error 500 when converting peptides

fixed

a bug where the TPA would crash for non-ascii input

updated

rails to 4.2.5

3.1.1 - 2016-02-01

added

Our Bioinformatics publication

improved

The peptidome clustering to improve speed up to 30 times

fixed

An issue with the "Download Data" button of the unique peptide finder

updated

UniProt to 2016.01

3.1.2 - 2016-02-23

updated

UniProt to 2016.02

3.1.3 - 2016-06-08

added

Protein download from the Unique Peptide Finder

updated

UniProt to 2016.05