Research Output 1978 2020

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Comment/debate
Comment/debate
93 Citations (Scopus)

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

Griffith, M., Spies, N. C., Krysiak, K., McMichael, J. F., Coffman, A. C., Danos, A. M., Ainscough, B. J., Ramirez, C. A., Rieke, D. T., Kujan, L., Barnell, E. K., Wagner, A. H., Skidmore, Z. L., Wollam, A., Liu, C. J., Jones, M. R., Bilski, R. L., Lesurf, R., Feng, Y. Y., Shah, N. M. & 25 others, Bonakdar, M., Trani, L., Matlock, M., Ramu, A., Campbell, K. M., Spies, G. C., Graubert, A. P., Gangavarapu, K., Eldred, J. M., Larson, D. E., Walker, J. R., Good, B. M., Wu, C., Su, A. I., Dienstmann, R., Margolin, A., Tamborero, D., Lopez-Bigas, N., Jones, S. J. M., Bose, R., Spencer, D. H., Wartman, L. D., Wilson, R. K., Mardis, E. R. & Griffith, O. L., Jan 31 2017, In : Nature Genetics. 49, 2, p. 170-174 5 p.

Research output: Contribution to journalComment/debate

Crowdsourcing
Knowledge Bases
Neoplasms

Correction: Decoupling of the PI3K pathway via mutation necessitates combinatorial treatment in HER2+ breast cancer (PLoS ONE (2015) 10:7 (e0133219) DOI: 10.1371/journal.pone.0133219)

Korkola, J., Collisson, E. A., Heiser, L., Oates, C., Bayani, N., Itani, S., Esch, A., Thompson, W., Griffith, O. L., Wang, N. J., Kuo, W. L., Cooper, B., Billig, J., Ziyad, S., Hung, J. L., Jakkula, L., Feiler, H., Lu, Y., Mills, G., Spellman, P. & 3 others, Tomlin, C., Mukherjee, S. & Gray, J., Oct 1 2017, In : PLoS One. 12, 10, e0186551.

Research output: Contribution to journalComment/debate

phosphatidylinositol 3-kinase
Phosphatidylinositol 3-Kinases
breast neoplasms
Names
Breast Neoplasms

Corrigendum: Potential role of the glycolytic oscillator in acute hypoxia in tumors (Physics in Medicine and Biology (2015) 60 (9215) DOI: 10.1088/0031-9155/60/24/9215)

Che Fru, L., Adamson, E. B., Campos, D. D., Fain, S. B., Jacques, S., Van Der Kogel, A. J., Nickel, K. P., Song, C., Kimple, R. J. & Kissick, M. W., Jun 27 2018, In : Physics in Medicine and Biology. 63, 13, 139501.

Research output: Contribution to journalComment/debate

Physics
Medicine
Cell Line
Microsatellite Repeats
Publications
3 Citations (Scopus)

Erratum: Functional proteomics identifies miRNAs to target a p27/Myc/phospho-Rb signature in breast and ovarian cancer (Oncogene (2016) 35 (691-701) DOI:10.1038/onc.2014.469)

Seviour, E. G., Sehgal, V., Lu, Y., Luo, Z., Moss, T., Zhang, F., Hill, S. M., Liu, W., Maiti, S. N., Cooper, L., Azencot, R., Lopez-Berestein, G., Rodriguez-Aguayo, C., Roopaimoole, R., Pecot, C. V., Sood, A. K., Mukherjee, S., Gray, J., Mills, G. & Ram, P. T., Feb 11 2016, In : Oncogene. 35, 6, p. 801 1 p.

Research output: Contribution to journalComment/debate

MicroRNAs
Oncogenes
Proteomics
Ovarian Neoplasms
Breast Neoplasms
9 Citations (Scopus)
Manuscripts
Neoplasms
Chromosomes
Uveal melanoma

Erratum: Publisher Correction: Combating subclonal evolution of resistant cancer phenotypes (Nature communications (2017) 8 1 (1231))

Brady, S. W., McQuerry, J. A., Qiao, Y., Piccolo, S. R., Shrestha, G., Jenkins, D. F., Layer, R. M., Pedersen, B. S., Miller, R. H., Esch, A., Selitsky, S. R., Parker, J. S., Anderson, L. A., Dalley, B. K., Factor, R. E., Reddy, C. B., Boltax, J. P., Li, D. Y., Moos, P. J., Gray, J. & 8 others, Heiser, L., Buys, S. S., Cohen, A. L., Johnson, W. E., Quinlan, A. R., Marth, G., Werner, T. L. & Bild, A. H., Feb 5 2018, In : Nature Communications. 9, 1, 1 p.

Research output: Contribution to journalComment/debate

phenotype
cancer
communication
Communication
document markup languages
1 Citation (Scopus)

Erratum: Correction: Human mutations in integrator complex subunits link transcriptome integrity to brain development (PLoS genetics (2017) 13 5 (e1006809))

Oegema, R., Baillat, D., Schot, R., van Unen, L. M., Brooks, A., Kia, S. K., Hoogeboom, A. J. M., Xia, Z., Li, W., Cesaroni, M., Lequin, M. H., van Slegtenhorst, M., Dobyns, W. B., de Coo, I. F. M., van den Berg, D., Verheijen, F. W., Kremer, A., van der Spek, P. J., Heijsman, D., Wagner, E. J. & 2 others, Fornerod, M. & Mancini, G. M. S., Aug 1 2017, In : PLoS genetics. 13, 8, p. e1006923

Research output: Contribution to journalComment/debate

Open Access
Transcriptome
transcriptome
brain
mutation
Mutation

Erratum: Correction: FGF2-FGFR1 signaling regulates release of leukemia-protective exosomes from bone marrow stromal cells (eLife (2019) 8 PII: e47174)

Javidi-Sharifi, N., Martinez, J., English, I., Joshi, S. K., Scopim-Ribeiro, R., Viola, S. K., Edwards, D. K., Agarwal, A., Lopez, C., Jorgens, D., Tyner, J., Druker, B. & Traer, E., Mar 29 2019, In : eLife. 8

Research output: Contribution to journalComment/debate

Open Access
Exosomes
Fibroblast Growth Factor 2
Mesenchymal Stromal Cells
Medicine
Bone

Erratum: Modeling subdiffusive light scattering by incorporating the tissue phase function and detector numerical aperture (Journal of Biomedical Optics (2017) 22:5 (050501) DOI: 10.1117/1.JBO.22.5.050501)

Post, A. L., Jacques, S., Sterenborg, H. J. C. M., Faber, D. J. & Van Leeuwen, T. G., Jun 30 2019, In : Journal of biomedical optics. 24, 6, 069801.

Research output: Contribution to journalComment/debate

Open Access
numerical aperture
Light scattering
light scattering
optics
Tissue
2 Citations (Scopus)

Erratum: Cloud computing for genomic data analysis and collaboration (Nature reviews. Genetics (2018) 19 4 (208-219))

Langmead, B. & Nellore, A., May 1 2018, In : Nature reviews. Genetics. 19, 5, 1 p.

Research output: Contribution to journalComment/debate

Open Access
Cloud Computing

Erratum to: "Genome co-amplification upregulates a mitotic gene network activity that predicts outcome and response to mitotic protein inhibitors in breast cancer", [Breast Cancer Research, 19, (2017) (17)] DOI: 10.1186/s13058-017-0809-6

Hu, Z., Mao, J. H., Curtis, C., Huang, G., Gu, S., Heiser, L., Lenburg, M. E., Korkola, J., Bayani, N., Samarajiwa, S., Seoane, J. A., Dane, M. A., Esch, A., Feiler, H., Wang, N. J., Hardwicke, M. A., Laquerre, S., Jackson, J., Wood, K. W., Weber, B. & 5 others, Spellman, P., Aparicio, S., Wooster, R., Caldas, C. & Gray, J., Feb 9 2017, In : Breast Cancer Research. 19, 1, 17.

Research output: Contribution to journalComment/debate

Gene Regulatory Networks
Names
Breast
Up-Regulation
Genome
5 Citations (Scopus)

Practical Computational Reproducibility in the Life Sciences

Grüning, B., Chilton, J., Köster, J., Dale, R., Soranzo, N., van den Beek, M., Goecks, J., Backofen, R., Nekrutenko, A. & Taylor, J., Jun 27 2018, In : Cell Systems. 6, 6, p. 631-635 5 p.

Research output: Contribution to journalComment/debate

Biological Science Disciplines
Software
Technology
Workflow
Computational Biology
1 Citation (Scopus)

The Potential and Pitfalls of Crowdsourced Algorithm Development in Radiation Oncology

Elhalawani, H., Fuller, C. D. & Thompson, R., Jan 1 2019, In : JAMA Oncology.

Research output: Contribution to journalComment/debate

Radiation Oncology
4 Citations (Scopus)

Ticagrelor breaks up the tumor-platelet party

Mitrugno, A. & McCarty, O., Sep 7 2017, In : Blood. 130, 10, p. 1177-1178 2 p.

Research output: Contribution to journalComment/debate

Diphosphates
Primary Prevention
Secondary Prevention
Platelets
Ovarian Neoplasms