Arpad Danos

2023

CIViCdb 2022: evolution of an open-access cancer variant interpretation knowledgebase

Krysiak, K., Danos, A. M., Saliba, J., McMichael, J. F., Coffman, A. C., Kiwala, S., Barnell, E. K., Sheta, L., Grisdale, C. J., Kujan, L., Pema, S., Lever, J., Ridd, S., Spies, N. C., Andric, V., Chiorean, A., Rieke, D. T., Clark, K. A., Reisle, C. & Venigalla, A. C. & 45 others, Evans, M., Jani, P., Takahashi, H., Suda, A., Horak, P., Ritter, D. I., Zhou, X., Ainscough, B. J., Delong, S., Kesserwan, C., Lamping, M., Shen, H., Marr, A. R., Hoang, M. H., Singhal, K., Khanfar, M., Li, B. V., Lin, W. H., Terraf, P., Corson, L. B., Salama, Y., Campbell, K. M., Farncombe, K. M., Ji, J., Zhao, X., Xu, X., Kanagal-Shamanna, R., King, I., Cotto, K. C., Skidmore, Z. L., Walker, J. R., Zhang, J., Milosavljevic, A., Patel, R. Y., Giles, R. H., Kim, R. H., Schriml, L. M., Mardis, E. R., Jones, S. J. M., Raca, G., Rao, S., Madhavan, S., Wagner, A. H., Griffith, M. & Griffith, O. L., Jan 6 2023, In: Nucleic acids research. 51, 1 D, p. D1230-D1241

Research output: Contribution to journal › Article › peer-review

Open Access

8 Scopus citations

2022

Large scale genotype- and phenotype-driven machine learning in Von Hippel-Lindau disease

Chiorean, A., Farncombe, K. M., Delong, S., Andric, V., Ansar, S., Chan, C., Clark, K., Danos, A. M., Gao, Y., Giles, R. H., Goldenberg, A., Jani, P., Krysiak, K., Kujan, L., Macpherson, S., Maher, E. R., McCoy, L. G., Salama, Y., Saliba, J. & Sheta, L. & 5 others, Griffith, M., Griffith, O. L., Erdman, L., Ramani, A. & Kim, R. H., Sep 2022, In: Human mutation. 43, 9, p. 1268-1285 18 p.

Research output: Contribution to journal › Article › peer-review

Open Access

7 Scopus citations

Standardized evidence-based approach for assessment of oncogenic and clinical significance of NTRK fusions

Saliba, J., Church, A. J., Rao, S., Danos, A., Furtado, L. V., Laetsch, T., Zhang, L., Nardi, V., Lin, W. H., Ritter, D. I., Madhavan, S., Li, M. M., Griffith, O. L., Griffith, M., Raca, G. & Roy, A., Jun 2022, In: Cancer Genetics. 264-265, p. 50-59 10 p.

Research output: Contribution to journal › Article › peer-review

Open Access

6 Scopus citations

Standards for the classification of pathogenicity of somatic variants in cancer (oncogenicity): Joint recommendations of Clinical Genome Resource (ClinGen), Cancer Genomics Consortium (CGC), and Variant Interpretation for Cancer Consortium (VICC)

Horak, P., Griffith, M., Danos, A. M., Pitel, B. A., Madhavan, S., Liu, X., Chow, C., Williams, H., Carmody, L., Barrow-Laing, L., Rieke, D., Kreutzfeldt, S., Stenzinger, A., Tamborero, D., Benary, M., Rajagopal, P. S., Ida, C. M., Lesmana, H., Satgunaseelan, L. & Merker, J. D. & 27 others, Tolstorukov, M. Y., Campregher, P. V., Warner, J. L., Rao, S., Natesan, M., Shen, H., Venstrom, J., Roy, S., Tao, K., Kanagal-Shamanna, R., Xu, X., Ritter, D. I., Pagel, K., Krysiak, K., Dubuc, A., Akkari, Y. M., Li, X. S., Lee, J., King, I., Raca, G., Wagner, A. H., Li, M. M., Plon, S. E., Kulkarni, S., Griffith, O. L., Chakravarty, D. & Sonkin, D., May 2022, In: Genetics in Medicine. 24, 5, p. 986-998 13 p.

Research output: Contribution to journal › Article › peer-review

Open Access

92 Scopus citations

2019

CIViCpy: A Python Software Development and Analysis Toolkit for the CIViC Knowledgebase

Wagner, A. H., Kiwala, S., Coffman, A. C., McMichael, J. F., Cotto, K. C., Mooney, T. B., Barnell, E. K., Krysiak, K., Danos, A. M., Walker, J., Griffith, O. L. & Griffith, M., 2019, In: JCO Clinical Cancer Informatics. 3, p. 245-253 9 p.

Research output: Contribution to journal › Article › peer-review

Open Access

8 Scopus citations

Open-sourced CIViC annotation pipeline to identify and annotate clinically relevant variants using single-molecule molecular inversion probes

Barnell, E. K., Waalkes, A., Mosior, M. C., Penewit, K., Cotto, K. C., Danos, A. M., Sheta, L. M., Campbell, K. M., Krysiak, K., Rieke, D., Spies, N. C., Skidmore, Z. L., Pritchard, C. C., Fehniger, T. A., Uppaluri, R., Govindan, R., Griffith, M., Salipante, S. J. & Griffith, O. L., 2019, In: JCO Clinical Cancer Informatics. 3, p. 1-12 12 p.

Research output: Contribution to journal › Article › peer-review

Open Access

3 Scopus citations

Standard operating procedure for curation and clinical interpretation of variants in cancer

Danos, A. M., Krysiak, K., Barnell, E. K., Coffman, A. C., McMichael, J. F., Kiwala, S., Spies, N. C., Sheta, L. M., Pema, S. P., Kujan, L., Clark, K. A., Wollam, A. Z., Rao, S., Ritter, D. I., Sonkin, D., Raca, G., Lin, W. H., Grisdale, C. J., Kim, R. H. & Wagner, A. H. & 3 others, Madhavan, S., Griffith, M. & Griffith, O. L., Nov 29 2019, In: Genome medicine. 11, 1, 76.

Research output: Contribution to journal › Article › peer-review

Open Access

16 Scopus citations

Standard operating procedure for somatic variant refinement of sequencing data with paired tumor and normal samples

Barnell, E. K., Ronning, P., Campbell, K. M., Krysiak, K., Ainscough, B. J., Sheta, L. M., Pema, S. P., Schmidt, A. D., Richters, M., Cotto, K. C., Danos, A. M., Ramirez, C., Skidmore, Z. L., Spies, N. C., Hundal, J., Sediqzad, M. S., Kunisaki, J., Gomez, F., Trani, L. & Matlock, M. & 4 others, Wagner, A. H., Swamidass, S. J., Griffith, M. & Griffith, O. L., Apr 1 2019, In: Genetics in Medicine. 21, 4, p. 972-981 10 p.

Research output: Contribution to journal › Article › peer-review

Open Access

54 Scopus citations

Text-mining clinically relevant cancer biomarkers for curation into the CIViC database

Lever, J., Jones, M. R., Danos, A. M., Krysiak, K., Bonakdar, M., Grewal, J. K., Culibrk, L., Griffith, O. L., Griffith, M. & Jones, S. J. M., Dec 3 2019, In: Genome medicine. 11, 1, 78.

Research output: Contribution to journal › Article › peer-review

Open Access

29 Scopus citations

2018

Adapting crowdsourced clinical cancer curation in CIViC to the ClinGen minimum variant level data community-driven standards

Clinical Genome Resource Somatic Working Group and Clinical Interpretation of Variants in Cancer team members, Nov 2018, In: Human mutation. 39, 11, p. 1721-1732 12 p.

Research output: Contribution to journal › Article › peer-review

Open Access

12 Scopus citations

2013

Functional inactivation of Rb sensitizes cancer cells to TSC2 inactivation induced cell death

Danos, A. M., Liao, Y., Li, X. & Du, W., Jan 1 2013, In: Cancer Letters. 328, 1, p. 36-43 8 p.

Research output: Contribution to journal › Article › peer-review

8 Scopus citations

2009

Altering PPAR γ ligand selectivity impairs adipogenesis by thiazolidinediones but not hormonal inducers

Samarasinghe, S. P., Sutanto, M. M., Danos, A. M., Johnson, D. N., Brady, M. J. & Cohen, R. N., May 2009, In: Obesity. 17, 5, p. 965-972 8 p.

Research output: Contribution to journal › Article › peer-review

Open Access

11 Scopus citations

Differential regulation of glycogenolysis by mutant protein phosphatase-1 glycogen-targeting subunits

Danos, A. M., Osmanovic, S. & Brady, M. J., Jul 17 2009, In: Journal of Biological Chemistry. 284, 29, p. 19544-19553 10 p.

Research output: Contribution to journal › Article › peer-review

Open Access

5 Scopus citations

2007

Transgenic overexpression of protein targeting to glycogen markedly increases adipocytic glycogen storage in mice

Jurczak, M. J., Danos, A. M., Rehrmann, V. R., Allison, M. B., Greenberg, C. C. & Brady, M. J., Mar 2007, In: American Journal of Physiology - Endocrinology and Metabolism. 292, 3, p. E952-E963

Research output: Contribution to journal › Article › peer-review

34 Scopus citations

2006

Central role for protein targeting to glycogen in the maintenance of cellular glycogen stores in 3T3-L1 adipocytes

Greenberg, C. C., Danos, A. M. & Brady, M. J., Jan 2006, In: Molecular and cellular biology. 26, 1, p. 334-342 9 p.

Research output: Contribution to journal › Article › peer-review

Open Access

28 Scopus citations

2005

Gene expression profiles in HEK-293 cells with low or high store-operated calcium entry: Can regulatory as well as regulated genes be identified?

Zagranichnaya, T. K., Wu, X., Danos, A. M. & Villereal, M. L., Jul 2005, In: Physiological genomics. 21, p. 14-33 20 p.

Research output: Contribution to journal › Article › peer-review

26 Scopus citations

Arpad Danos

Research output

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