OTP protocols

View OTP computational protocol

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OTP specifications

Information


Unique identifier OMICS_23094
Name OTP
Alternative name One Touch Pipeline
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Registration required Yes
Maintained Yes

Maintainers


  • person_outline Jurgen Eils <>
  • person_outline Eva Reisinger <>
  • person_outline Team OTP <>

Publication for One Touch Pipeline

OTP in pipeline

2017
PMCID: 5650322
PMID: 29088767
DOI: 10.18632/oncotarget.18200

[…] usa) using the bigdye terminator v1.1 cycle sequencing kit (thermo fisher scientific, waltham, usa) as described previously []., sequence data analysis and mutation calling was performed using the one touch pipeline (otp), a fully automated computational platform for sequence analysis. briefly, raw fastq data files and metadata were loaded into otp. after quality score estimation using fastqc, […]


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OTP in publications

 (2)
PMCID: 5805678
PMID: 29422656
DOI: 10.1038/s41467-018-03025-1

[…] 100 bp dna sequencing reads were subsequently generated on a hiseq 4000 system (illumina), achieving an average coverage of 180 × (supplementary table ). data preprocessing was performed using the one touch pipeline (otp) platform. reads were then mapped to the human reference genome build hs37d5 (phase ii reference of the 1000 genomes project including decoy sequences) using […]

PMCID: 5650322
PMID: 29088767
DOI: 10.18632/oncotarget.18200

[…] usa) using the bigdye terminator v1.1 cycle sequencing kit (thermo fisher scientific, waltham, usa) as described previously []., sequence data analysis and mutation calling was performed using the one touch pipeline (otp), a fully automated computational platform for sequence analysis. briefly, raw fastq data files and metadata were loaded into otp. after quality score estimation using fastqc, […]


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OTP institution(s)
Department of Theoretical Bioinformatics, German Cancer Research Center (DKFZ), Germany; Heidelberg Center for Personalized Oncology, DKFZ-HIPO, DKFZ, Heidelberg, Germany; Institute of Pharmacy and Molecular Biotechnology and Bioquant Center, University of Heidelberg, Heidelberg, Germany; Translational Lung Research Center Heidelberg (TLRC), German Center for Lung Research (DZL), University of Heidelberg, Heidelberg, Germany
OTP funding source(s)
Supported, in part, via grants by the German Federal Ministry of Education and Research (BMBF) projects LungSys (0315415A), ICGC PedBrainTumor (01KU1201A), CancerSys LungSysII (0316042A), CancerSys MYCeNET (0316076B), ICGC: The Genomes of Early Onset Prostate Cancers (01KU1001A), ICGC Malignant Lymphoma (01KU1002B), e:BIO: ImmunoQuant (0316170A), e:MED − PANC-STRAT (01ZX1305A), Deutsches Epigenom-Projekt DEEP (01KU1216B) and German Cancer Aid ICGC PedBrainTumor (109252), from the Initiative and Networking Fund of the Helmholtz Association within the Helmholtz Alliance on Systems Biology and from the Heidelberg Center for Personalized Oncology (DKFZ-HIPO).

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