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1. Genomic alterations in head and neck squamous cell carcinoma determined by cancer gene-targeted sequencing

2. High-throughput prediction of MHC Class I and Class II neoantigens with MHCnuggets

4. Comprehensive Characterization of Cancer Driver Genes and Mutations

5. Perspective on Oncogenic Processes at the End of the Beginning of Cancer Genomics

6. Pan-cancer proteogenomics connects oncogenic drivers to functional states.

7. Tutorial: integrative computational analysis of bulk RNA-sequencing data to characterize tumor immunity using RIMA.

8. Discovery of Targets for Immune-Metabolic Antitumor Drugs Identifies Estrogen-Related Receptor Alpha.

9. Machine Learning Modeling of Protein-intrinsic Features Predicts Tractability of Targeted Protein Degradation.

10. Genetic fusions favor tumorigenesis through degron loss in oncogenes.

11. In vivo CRISPR screens identify the E3 ligase Cop1 as a modulator of macrophage infiltration and cancer immunotherapy target.

12. Cross-Site Concordance Evaluation of Tumor DNA and RNA Sequencing Platforms for the CIMAC-CIDC Network.

13. Therapeutically Increasing MHC-I Expression Potentiates Immune Checkpoint Blockade.

14. Systematic characterization of mutations altering protein degradation in human cancers.

15. The Genetic Evolution of Treatment-Resistant Cutaneous, Acral, and Uveal Melanomas.

16. Clonal tracing reveals diverse patterns of response to immune checkpoint blockade.

17. Determinants of transcription factor regulatory range.

18. High-Throughput Prediction of MHC Class I and II Neoantigens with MHCnuggets.

19. Integrated Informatics Analysis of Cancer-Related Variants.

20. CHASMplus Reveals the Scope of Somatic Missense Mutations Driving Human Cancers.

21. Comprehensive Characterization of Cancer Driver Genes and Mutations.

22. Perspective on Oncogenic Processes at the End of the Beginning of Cancer Genomics.

23. Systematic Functional Annotation of Somatic Mutations in Cancer.

24. CRAVAT 4: Cancer-Related Analysis of Variants Toolkit.

25. Matching phenotypes to whole genomes: Lessons learned from four iterations of the personal genome project community challenges.

26. Exome-Scale Discovery of Hotspot Mutation Regions in Human Cancer Using 3D Protein Structure.

27. Whole-Genome Sequencing of Salivary Gland Adenoid Cystic Carcinoma.

28. The genomic landscape of response to EGFR blockade in colorectal cancer.

29. PrimerSeq: Design and visualization of RT-PCR primers for alternative splicing using RNA-seq data.

30. Identifying differential alternative splicing events from RNA sequencing data using RNASeq-MATS.

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