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  • team
  • department
  • center
  • program_project
  • nrc
  • whocc
  • project
  • software
  • tool
  • patent
  • Administrative Staff
  • Assistant Professor
  • Associate Professor
  • Clinical Research Assistant
  • Clinical Research Nurse
  • Clinician Researcher
  • Department Manager
  • Dual-education Student
  • Full Professor
  • Honorary Professor
  • Lab assistant
  • Master Student
  • Non-permanent Researcher
  • Nursing Staff
  • Permanent Researcher
  • Pharmacist
  • PhD Student
  • Physician
  • Post-doc
  • Prize
  • Project Manager
  • Research Associate
  • Research Engineer
  • Retired scientist
  • Technician
  • Undergraduate Student
  • Veterinary
  • Visiting Scientist
  • Deputy Director of Center
  • Deputy Director of Department
  • Deputy Director of National Reference Center
  • Deputy Head of Facility
  • Director of Center
  • Director of Department
  • Director of Institute
  • Director of National Reference Center
  • Group Leader
  • Head of Facility
  • Head of Operations
  • Head of Structure
  • Honorary President of the Departement
  • Labex Coordinator
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Starting Date
01
May 2014
Keywords
7 Keywords
Ending Date
01
May 2020
Status
Ongoing
Members
4
Structures
3
Publications
2

About

Scans a set of protein sequences for type IV secretion systems and relaxases using HMM profiles. See Guglielmini et al. (2011) for our criteria to class loci on the basis of this output. Except when it makes sense biologically, we recommend ignoring the hits covering less than half of the profile.
This software is now part of two modules for MacSyFinder. The T4SS for protein secretion can be identified using TXSScan. The CONJscan part is now a module in MacSyFinder.
Authors: Eduardo Rocha, Julien Guglielmini (for the original version), Jean Cury (for the MacSyFinder version). Bertrand Néron and Olivia Doppelt-Azeroual have made the Galaxy version. Sophie Abby for MacSyFinder and TXSScan.
Availability on Galaxy (CONJscan):https://galaxy.pasteur.fr/root?tool_id=toolshed.pasteur.fr/repos/odoppelt/conjscan/ConjScan/1.0.2
Availability on Galaxy (TXSScan):https://galaxy.pasteur.fr/root?tool_id=toolshed.pasteur.fr/repos/odoppelt/txsscan/TXSScan/1.0.2
MacSyFinder (standalone): https://github.com/gem-pasteur/macsyfinder

 

Fundings