University of Connecticut

University of California

Ion Mandoiu

Pramod K Srivastava

Andrew B Kahng

Christoph Albrecht

Marmar Moussa

Alexander Z Zelikovsky

Cory A Brennick

Fei Duan

Mariam M George

Described herein is an unbiased method of identifying tumor rejection mediating neoepitopes (TRMNs). Putative neoepitopes from a cancer cell exome sequence from a cancer patient are putative neoepitopes are unbiased by MHC binding and/or CD8T* reactivity. By plotting the putative neoepitope ICs on one axis, and the non-mutated amino acid sequence ICs on a perpendicular axis to provide a bivariate scatter plot, novel TRMNs are identified TRMNs the neoepitopes in the bivariate scatter plot which are in the space greater than 501 nM on the x-axis and greater than 501 nM on the y-axis. Peptides and nucleic acids for expressing peptides including the TRMNs are also described.

Unbiased identification of tumor rejection mediating neoepitopes

Described herein are methods of identifying tumor-specific epitopes from the cancer tissue DNA of cancer patients using both DNA sequencing and bioinformatics techniques. The identification of tumor-specific epitopes provides pharmaceutical compositions with a limited number of tumor-specific peptides suitable for personalized genomics-driven immunotherapy of human cancer. Specifically disclosed herein is a novel index called the Differential Agretopic Index (DAI) for the epitope which allows prediction of whether immunization with a particular epitope will be protective against the tumor. Pharmaceutical compositions and methods of administration are also included.

Identification of tumor-protective epitopes for the treatment of cancers

A method and system for evaluating a floorplan and for defining a global buffered routing for an integrated circuit including constructing a graphical representation of the integrated circuit floorplan, including wire capacity and buffer capacity; formulating an integer linear program from said graphical representation; finding a solution to said integer linear program.

Floorplan evaluation, global routing, and buffer insertion for integrated circuits

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Storrs, CT, United States of America

Ion Mandoiu