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Items: 14

1.

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

Lever J, Jones MR, Danos AM, Krysiak K, Bonakdar M, Grewal JK, Culibrk L, Griffith OL, Griffith M, Jones SJM.

Genome Med. 2019 Dec 3;11(1):78. doi: 10.1186/s13073-019-0686-y.

2.

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

Danos AM, Krysiak K, Barnell EK, Coffman AC, McMichael JF, Kiwala S, Spies NC, Sheta LM, Pema SP, Kujan L, Clark KA, Wollam AZ, Rao S, Ritter DI, Sonkin D, Raca G, Lin WH, Grisdale CJ, Kim RH, Wagner AH, Madhavan S, Griffith M, Griffith OL.

Genome Med. 2019 Nov 29;11(1):76. doi: 10.1186/s13073-019-0687-x.

3.

Open-Sourced CIViC Annotation Pipeline to Identify and Annotate Clinically Relevant Variants Using Single-Molecule Molecular Inversion Probes.

Barnell EK, Waalkes A, Mosior MC, Penewit K, Cotto KC, Danos AM, Sheta LM, Campbell KM, Krysiak K, Rieke D, Spies NC, Skidmore ZL, Pritchard CC, Fehniger TA, Uppaluri R, Govindan R, Griffith M, Salipante SJ, Griffith OL.

JCO Clin Cancer Inform. 2019 Oct;3:1-12. doi: 10.1200/CCI.19.00077.

4.

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

Danos AM, Ritter DI, Wagner AH, Krysiak K, Sonkin D, Micheel C, McCoy M, Rao S, Raca G, Boca SM, Roy A, Barnell EK, McMichael JF, Kiwala S, Coffman AC, Kujan L, Kulkarni S, Griffith M, Madhavan S, Griffith OL; Clinical Genome Resource Somatic Working Group and Clinical Interpretation of Variants in Cancer team members.

Hum Mutat. 2018 Nov;39(11):1721-1732. doi: 10.1002/humu.23651.

5.

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

Barnell EK, Ronning P, Campbell KM, Krysiak K, Ainscough BJ, Sheta LM, Pema SP, Schmidt AD, Richters M, Cotto KC, Danos AM, Ramirez C, Skidmore ZL, Spies NC, Hundal J, Sediqzad MS, Kunisaki J, Gomez F, Trani L, Matlock M, Wagner AH, Swamidass SJ, Griffith M, Griffith OL.

Genet Med. 2019 Apr;21(4):972-981. doi: 10.1038/s41436-018-0278-z. Epub 2018 Oct 5.

6.

CIViC is a community knowledgebase for expert crowdsourcing the clinical interpretation of variants in cancer.

Griffith M, Spies NC, Krysiak K, McMichael JF, Coffman AC, Danos AM, Ainscough BJ, Ramirez CA, Rieke DT, Kujan L, Barnell EK, Wagner AH, Skidmore ZL, Wollam A, Liu CJ, Jones MR, Bilski RL, Lesurf R, Feng YY, Shah NM, Bonakdar M, Trani L, Matlock M, Ramu A, Campbell KM, Spies GC, Graubert AP, Gangavarapu K, Eldred JM, Larson DE, Walker JR, Good BM, Wu C, Su AI, Dienstmann R, Margolin AA, Tamborero D, Lopez-Bigas N, Jones SJ, Bose R, Spencer DH, Wartman LD, Wilson RK, Mardis ER, Griffith OL.

Nat Genet. 2017 Jan 31;49(2):170-174. doi: 10.1038/ng.3774. No abstract available.

7.

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

Danos AM, Liao Y, Li X, Du W.

Cancer Lett. 2013 Jan 1;328(1):36-43. doi: 10.1016/j.canlet.2012.09.016. Epub 2012 Sep 27.

8.

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

Danos AM, Osmanovic S, Brady MJ.

J Biol Chem. 2009 Jul 17;284(29):19544-53. doi: 10.1074/jbc.M109.015073. Epub 2009 Jun 1.

9.

Altering PPARgamma ligand selectivity impairs adipogenesis by thiazolidinediones but not hormonal inducers.

Samarasinghe SP, Sutanto MM, Danos AM, Johnson DN, Brady MJ, Cohen RN.

Obesity (Silver Spring). 2009 May;17(5):965-72. doi: 10.1038/oby.2008.629. Epub 2009 Jan 22.

10.

The role of protein translocation in the regulation of glycogen metabolism.

Jurczak MJ, Danos AM, Rehrmann VR, Brady MJ.

J Cell Biochem. 2008 May 15;104(2):435-43. Review.

PMID:
18022842
11.

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

Jurczak MJ, Danos AM, Rehrmann VR, Allison MB, Greenberg CC, Brady MJ.

Am J Physiol Endocrinol Metab. 2007 Mar;292(3):E952-63. Epub 2006 Nov 28.

12.

Glycogen branches out: new perspectives on the role of glycogen metabolism in the integration of metabolic pathways.

Greenberg CC, Jurczak MJ, Danos AM, Brady MJ.

Am J Physiol Endocrinol Metab. 2006 Jul;291(1):E1-8. Epub 2006 Feb 14. Review.

13.
14.

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 TK, Wu X, Danos AM, Villereal ML.

Physiol Genomics. 2005 Mar 21;21(1):14-33. Epub 2004 Dec 28.

PMID:
15623568

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