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James E Johnson

20002020
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Fingerprint The Fingerprint is created by mining the titles and abstracts of the person's research outputs and projects/funding awards to create an index of weighted terms from discipline-specific thesauri.

  • 13 Similar Profiles
Galaxies Medicine & Life Sciences
Workflow Medicine & Life Sciences
Databases Medicine & Life Sciences
Software Medicine & Life Sciences
Proteins Medicine & Life Sciences
Proteomics Medicine & Life Sciences
Informatics Medicine & Life Sciences
Research Personnel Medicine & Life Sciences

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Projects 2016 2020

A Galaxy-based multi-omic informatics hub for cancer res

Griffin, T. J., Hegeman, A. D., Jagtap, P. D., Johnson, J. E., Lynch, B. J. & Wennblom, T.

NIH NATIONAL CANCER INSTITUTE (NCI)

5/18/16 → 4/30/20

Project: Research project

Galaxies
Informatics
Research Personnel
Neoplasms

Research Output 2000 2019

2 Citations (Scopus)

Identification of candidate neoantigens produced by fusion transcripts in human osteosarcomas

Rathe, S., Popescu, F. E., Johnson, J. E., Watson, A. L., Marko, T. A., Moriarity, B. S., Ohlfest, J. R. & Largaespada, D. A., Dec 1 2019, In : Scientific reports. 9, 1, 358.

Research output: Contribution to journal › Article

Osteosarcoma
RNA Sequence Analysis
Gene Fusion
Immunotherapy
Canidae

QuanTP: A Software Resource for Quantitative Proteo-Transcriptomic Comparative Data Analysis and Informatics

Kumar, P., Panigrahi, P., Johnson, J. E., Weber, W. J., Mehta, S., Sajulga, R., Easterly, C., Crooker, B. A., Heydarian, M., Anamika, K., Griffin, T. J. & Jagtap, P. D., Feb 1 2019, In : Journal of Proteome Research. 18, 2, p. 782-790 9 p.

Research output: Contribution to journal › Article

Informatics
Galaxies
Software
Proteins
Visualization

The galaxy platform for reproducible affinity proteomic mass spectrometry data analysis

Stewart, P. A., Kuenzi, B. M., Mehta, S., Kumar, P., Johnson, J. E., Jagtap, P. D., Griffin, T. J. & Haura, E. B., Jan 1 2019, Methods in Molecular Biology. Humana Press Inc., p. 249-261 13 p. (Methods in Molecular Biology; vol. 1977).

Research output: Chapter in Book/Report/Conference proceeding › Chapter

Galaxies
Proteomics
Mass Spectrometry
Workflow
Software

BAL fluid metaproteome in acute respiratory failure

Jagtap, P. D., Viken, K. J., Johnson, J. E., McGowan, T., Pendleton, K. M., Griffin, T. J., Hunter, R. C., Rudney, J. D. & Bhargava, M., Nov 1 2018, In : American journal of respiratory cell and molecular biology. 59, 5, p. 648-652 5 p.

Research output: Contribution to journal › Letter

Dimercaprol
Respiratory Insufficiency
Fluids
27 Citations (Scopus)

Bioconda: Sustainable and comprehensive software distribution for the life sciences

Dale, R., Grüning, B., Sjödin, A., Rowe, J., Chapman, B. A., Tomkins-Tinch, C. H., Valieris, R., Batut, B., Caprez, A., Cokelaer, T., Yusuf, D., Beauchamp, K. A., Brinda, K., Wollmann, T., Corguillé, G. L., Ryan, D., Bretaudeau, A., Hoogstrate, Y., Pedersen, B. S., Heeringen, S. V. & 131 othersRaden, M., Luna-Valero, S., Soranzo, N., Smet, M. D., Kuster, G. V., Kirchner, R., Pantano, L., Charlop-Powers, Z., Thornton, K., Martin, M., Beek, M. V. D., Maticzka, D., Miladi, M., Will, S., Gravouil, K., Unneberg, P., Brueffer, C., Blank, C., Piro, V. C., Wolff, J., Antao, T., Gladman, S., Shlyakhter, I., Hollander, M. D., Mabon, P., Shen, W., Boekel, J., Holtgrewe, M., Bouvier, D., de Ruiter, J. R., Cabral, J., Choudhary, S., Harding, N., Kleinkauf, R., Enns, E., Eggenhofer, F., Brown, J., Cock, P. J. A., Timm, H., Thomas, C., Zhang, X. O., Chambers, M., Turaga, N., Seiler, E., Brislawn, C., Pruesse, E., Fallmann, J., Kelleher, J., Nguyen, H., Parsons, L., Fang, Z., Stovner, E. B., Stoler, N., Ye, S., Wohlers, I., Farouni, R., Freeberg, M., Johnson, J. E., Bargull, M., Kensche, P. R., Webster, T. H., Eppley, J. M., Stahl, C., Rose, A. S., Reynolds, A., Wang, L. B., Garnier, X., Dirmeier, S., Knudsen, M., Taylor, J., Srivastava, A., Rai, V., Agren, R., Junge, A., Guimera, R. V., Khan, A., Schmeier, S., He, G., Pinello, L., Hägglund, E., Mikheyev, A. S., Preussner, J., Waters, N. R., Li, W., Capellades, J., Chande, A. T., Pirola, Y., Hiltemann, S., Bendall, M. L., Singh, S., Dunn, W. A., Drouin, A., Domenico, T. D., Bruijn, I. D., Larson, D. E., Chicco, D., Grassi, E., Gonnella, G., B, J., Wang, L., Giacomoni, F., Clarke, E., Blankenberg, D., Tran, C., Patro, R., Laurent, S., Gopez, M., Sennblad, B., Baaijens, J. A., Ewels, P., Wright, P. R., Enache, O. M., Roger, P., Dampier, W., Koppstein, D., Devisetty, U. K., Rausch, T., Cornwell, M., Salatino, A. E., Seiler, J., Jung, M., Kornobis, E., Cumbo, F., Stöcker, B. K., Moskalenko, O., Bogema, D. R., Workentine, M. L., Newhouse, S. J., Leprevost, F. D. V., Arvai, K. & Köster, J., Jul 1 2018, In : Nature Methods. 15, 7, p. 475-476 2 p.

Research output: Contribution to journal › Article