TraFiC statistics

To access cutting-edge analytics on consensus tools, life science contexts and associated fields, you will need to subscribe to our premium service.

Subscribe
info

Citations per year

Citations chart
info

Popular tool citations

chevron_left Transposable element prediction chevron_right
Popular tools chart
info

Tool usage distribution map

Tool usage distribution map
info

Associated diseases

Associated diseases

TraFiC specifications

Information


Unique identifier OMICS_18091
Name TraFiC
Alternative name Transposon Finder in Cancer
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages Perl, Shell (Bash)
License GNU Affero General Public License version 3
Computer skills Advanced
Version 1.0
Stability Stable
Requirements
PCAP-core, RepeatMasker, Bedtools
Source code URL https://codeload.github.com/cancerit/TraFiC/tar.gz/1.0.0
Maintained Yes

Download


Versioning


Add your version

Publication for Transposon Finder in Cancer

TraFiC in publications

 (9)
PMCID: 5047699
PMID: 27466378
DOI: 10.1242/jcs.190330

[…] university, sapporo, japan) (), rho1-g19v from yoshikazu ohya (department of integrated biosciences, university of tokyo, tokyo, japan) (), and jen1–gfp and sec7–rfp from sebastien léon (equipe trafic membranaire, ubiquitine et signalisation, institut jacques monod, université paris diderot, paris, france) (). plactc2-gfp was provided by addgene. bik1–rfp was obtained by replacement […]

PMCID: 5012770
PMID: 27642468
DOI: 10.11604/pamj.2016.24.130.6512

[…] et larges au niveau des membres inferieurs, supérieurs et de l'abdomen (). le patient, âgé de 38 ans, est un père de famille qui travaille comme menuisier. il est détenu depuis 18 mois pour usage et trafic de cannabis. la revue de ses antécédents a objectivé une consommation régulière de cette substance psychoactive depuis une vingtaine d'année, avec un sevrage forcée durant la période de son […]

PMCID: 4696183
PMID: 26719777
DOI: 10.1186/s13100-015-0055-3

[…] coordinates via liftover. insertion coordinates were padded by +/- 100 bp and compared via bedtools v2.23. lee et al. [] (tea) and helman et al. [] (transposeq) share 7 samples, tubio et al. [] (trafic) and helman et al. (transposeq) share 15 samples. no samples are shared between lee et al. and helman et al. the overall jaccard distance between transposeq and tea results across shared […]

PMCID: 4498532
PMID: 26159513
DOI: 10.1186/s12864-015-1685-z

[…] of junction fragments by hybridization [, , ]; others have used illumina whole genome sequencing and bioinformatic tools such as tea and transposeq (which rely on presence of l1 sequence) [, ] and trafic (which also detects transductions that lack l1 sequence) [] to identify likely l1 insertion and transduction [] events; while rodic et al. [] used staining with well-validated polyclonal […]

PMCID: 3984222
PMID: 24531056
DOI: 10.1289/ehp.1306497

[…] salud (rediapp) rd 06/0018, and a fellowship to m.f.; agence nationale de sécurité sanitaire de l’alimentation, de l’environnement et du travail (anses) creal 0966c0331 for the “projet tri-national trafic, air, bruit et santé” (tri-tabs) study; and the young researchers exchange programme of the european network on noise and health (ennah)., the authors declare they have no actual or potential […]


To access a full list of publications, you will need to upgrade to our premium service.

TraFiC institution(s)
Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, UK; Department of Physiology, School of Medicine–Center for Resesarch in Molecular Medicine and Chronic Diseases, Instituto de Investigaciones Sanitarias, University of Santiago de Compostela, Spain; [etc…]
TraFiC funding source(s)
This work was is supported by a Marie Curie Fellowship FP7-PEOPLE-2012-IEF (project number 328264), the Wellcome Trust, the Chordoma Foundation, the Skeletal Cancer Action Trust, the European Molecular Biology Organization long-term fellowships (LTF 1203-2012 and 1287-2012), the Wellcome Trust Senior Clinical Fellows, the Research Foundation Flanders (FWO), the Wellcome Trust Intermediate Clinical Research Fellowship (WT100183MA), the CRUK Clinician Scientist fellowship, the National Institute for Health Research, the University College London Hospitals Biomedical Research Centre, the Cancer Research UK University College London Experimental Cancer Centre, the Brussels Region–Impulse Programme Life Sciences, the NIHR Cambridge Biomedical Resource Centre, the European Union (BASIS), the Wellcome Trust, CRUK grant C5047/A14835, the Dallaglio Foundation, the Bob Champion Trust, the Orchid Cancer appeal, the RoseTrees Trust, the North West Cancer Research Fund, Big C, the Grand Charity of Freemasons, the Biomedical Research Centre at the Institute of Cancer Research and the Royal Marsden NHS Foundation Trust, the NIHR, Hutchison Whampoa Limited, Human Research Tissue Bank (Addenbrookes Hospital), CRUK Cambridge Research Institute Histopathology, In-situ Hybridisation Core Facility, Genomics Core Facility Cambridge, and Cambridge University Hospitals Media Studio.

TraFiC reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review TraFiC