Data standards for flow cytometry

OMICS A Journal of Integrative Biology

Volumn 10, Issue 2, 2006, Pages 209-214

  Spidlen, Josef ^a   Gentleman, Robert C ^b   Haaland, Perry D ^c   Langille, Morgan ^a   Le Meur, Nolwenn ^b   Ochs, Michael F ^d   Schmitt, Charles ^c   Smith, Clayton A ^a   Treister, Adam S ^e   Brinkman, Ryan R ^a  

^a BRITISH COLUMBIA CANCER AGENCY   (Canada)

^b Fred Hutchinson Cancer Research Center   (United States)

^c BD Technologies   (United States)

^d FOX CHASE CANCER CENTER   (United States)

^e Tree Star Inc   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BIOINFORMATICS; CLINICAL PRACTICE; CLINICAL RESEARCH; COMPUTER PROGRAM; DATA ANALYSIS; DATA ANALYSIS SOFTWARE; FLOW CYTOMETRY; FUNCTIONAL GENOMICS; PRACTICE GUIDELINE; PRIORITY JOURNAL; REVIEW; STANDARD;

CELL SEPARATION; FLOW CYTOMETRY; SOFTWARE; VOCABULARY, CONTROLLED;

EID: 33748067751     PISSN: 15362310     EISSN: None     Source Type: Journal    
DOI: 10.1089/omi.2006.10.209     Document Type: Review

References (21)

1. BALL, C.A., and BRAZMA, A. (2006). MGED standards: work in progress. OMICS (this issue).
2. BODDY, L., WILKINS, M.F., and MORRIS, C.W. (2001). Pattern recognition in flow cytometry. Cytometry 44, 195-209.
3. BONETTA, L. (2005). Flow cytometry smaller and better. Nat Methods 2, 785-795.
4. BRAYLAN, R.C. (2004). Impact of flow cytometry on the diagnosis and characterization of lymphomas, chronic lymphoproliferative disorders and plasma cell neoplasias. Cytometry A 58, 57-61.
5. BRAZMA, A. (2001). On the importance of standardisation in life sciences. Bioinformatics 17, 113-114.
6. BRAZMA, A., HINGAMP, P., QUACKENBUSH, J., et al. (2001). Minimum information about a microarray experiment (MIAME)-toward standards for microarray data. Nat Genet 29, 365-371.
7. CHICUREL, M. (2002). Bioinformatics: bringing it all together. Nature 419, 751, 753, 755 passim.
8. DE ROSA, S.C., BRENCHLEY, J.M., and ROEDERER, M. (2003). Beyond six colors: a new era in flow cytometry. Nat Med 9, 112-117.
9. FIEHN, O., KRISTAL, B., VAN OMMEN, B., et al. (2006). Establishing reporting standards for metabolomic and metabonomic studies: a call for participation. OMICS (this issue).
10. GASPARETTO, M., GENTRY, T., SEBTI, S., et al. (2004). Identification of compounds that enhance the anti-lymphoma activity of rituximab using flow cytometric high-content screening. J Immunol Methods 292, 59-71.
11. GENTLEMAN, R., and LANG, D.T. (2003). Statistical analyses and reproducible research. Available at: 〈www.biostat.harvard.edu/~rgentlem/ Pdf/RR.pdf.〉
12. HENGEL, R.L., and NICHOLSON, J.K. (2001). An update on the use of flow cytometry in HIV infection and AIDS. Clin Lab Med 21, 841-856.
13. HERZENBERG, L.A., PARKS, D., SAHAF, B., et al. (2002). The history and future of the fluorescence activated cell sorter and flow cytometry: a view from Stanford. Clin Chem 48, 1819-1827.
14. LEIF, R.C., LEIF, S.B., and LEIF, S.H. (2003). Cytometry ML, an XML format based on DICOM and FCS for analytical cytology data. Cytometry A 54, 56-65.
15. LE NOVERE, N., FINNEY, A., HUCKA, M., et al. (2005). Minimum information requested in the annotation of biochemical models (MIRIAM). Nat Biotechnol 23, 1509-1515.
16. LOMAS, M. (2004). Taking a closer look at the ocean. Bermuda Biological Station for Research, Inc., annual report. Available at: 〈www.bbsr.edu/ ar04.pdf〉.
17. ORCHARD, S., MONTECCHI-PALAZZI, L., HERMJAKOB, H., et al. (2005). The use of common ontologies and controlled vocabularies to enable data exchange and deposition for complex proteomic experiments. Pac Symp Biocomput 10, 186-196.
18. QUACKENBUSH, J. (2004). Data standards for "omic" science. Nat Biotechnol 22, 613-614.
19. SEAMER, L.C., BAGWELL, C.B., BARDEN, L., et al. (1997). Proposed new data file standard for flow cytometry, version FCS 3.0. Cytometry 28, 118-122.
20. TAYLOR, C.F., HERMJAKOB, H., JULIAN, JR., R.K., et al. (2006). The work of the Human Proteome Organisation's Proteomics Standards Initiative (HUPO PSI). OMICS (this issue).
21. WHETZEL, P.L., BRINKMAN, R.R., CAUSTON, H., et al. (2006). Development of FuGO: an ontology for functional genomics investigations. OMICS (this issue).