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Journal of Dermatology Research and Skin Care | Volume 2
May 14-15, 2018 | Montreal, Canada
Spring Dermatology &
Skin Care Expo Conference
I
n tailor-made therapeutic cancer vaccines, individual
patient’s genomics and transcriptomics tumor profiling
is used to optimize the design of the therapy. In case of
dendritic cell-based immunotherapy, tumor epitopes
targeting patient’s specific mutations are selected and
loaded on mature dendritic cells to stimulate cytotoxic
T cell mediated anticancer immunity. Here, we present
a bioinformatics framework for detection of patient
specific tumor neoepitopes using patient’s genomics and
transcriptomics profile. In the framework proposed, whole
exome sequencing data from patient’s tumor material are
analyzed to identify tumor mutations. This information is
combined with patient’s haplotype information to predict
tumor neoepitopes. Tumor transcriptomics data are used to
predict expression of the mutations. Next, tumor peptides
are classified and ranked based on their tumor and peptide
features using machine learning methods. Lastly, docking
and molecular dynamics simulations are used to select the
most promising tumor neoepitopes for vaccination. This
computational workflow allows personalized selection of
tumor neoepitopes for cancer immunotherapy. We illustrate
the use of the method in a cutaneous melanoma patient.
Speaker Biography
Tanushree Jaitly is a doctoral candidate working on bioinformatics applied to dendritic
cell based cancer immunotherapy. She is developing computational pipelines for
high-throughput data-based (genomic and transcriptomics data) prediction of tumor
neoepitopes under the supervision of Prof Dr Julio Vera-González and Prof Dr Leila
Taher at Friedrich-Alexander-University Erlangen-Nuremberg, Germany. Her interests
are on next generation sequencing data analysis, cancer immunotherapy, 3D docking
and simulation and machine learning methods.
e:
Tanushree.jaitly@uk-erlangen.deA bioinformatics framework for personalized detection of tumor neoepitopes
Tanushree Jaitly
University of Erlangen-Nuremberg, Germany