-
1
-
-
78650436333
-
Rapid cell population identification in flow cytometry data
-
Aghaeepour N., Nikolic R., Hoos H.H., Brinkman R.R. Rapid cell population identification in flow cytometry data. Cytometry A 2011, 79:6.
-
(2011)
Cytometry A
, vol.79
, pp. 6
-
-
Aghaeepour, N.1
Nikolic, R.2
Hoos, H.H.3
Brinkman, R.R.4
-
2
-
-
84859246989
-
Early immunologic correlates of HIV protection can be identified from computational analysis of complex multivariate T-cell flow cytometry assays
-
Aghaeepour N., Chattopadhyay P.K., Ganesan A., O'Neill K., Zare H., Jalali A., Hoos H.H., Roederer M., Brinkman R.R. Early immunologic correlates of HIV protection can be identified from computational analysis of complex multivariate T-cell flow cytometry assays. Bioinformatics 2012, 28:1009.
-
(2012)
Bioinformatics
, vol.28
, pp. 1009
-
-
Aghaeepour, N.1
Chattopadhyay, P.K.2
Ganesan, A.3
O'Neill, K.4
Zare, H.5
Jalali, A.6
Hoos, H.H.7
Roederer, M.8
Brinkman, R.R.9
-
3
-
-
84874666550
-
Critical assessment of automated flow cytometry data analysis techniques
-
Aghaeepour N., Finak G., Consortium F., Consortium D., Hoos H., Mosmann T.R., Brinkman R., Gottardo R., Scheuermann R.H. Critical assessment of automated flow cytometry data analysis techniques. Nat. Methods 2013, 10:228.
-
(2013)
Nat. Methods
, vol.10
, pp. 228
-
-
Aghaeepour, N.1
Finak, G.2
Consortium, F.3
Consortium, D.4
Hoos, H.5
Mosmann, T.R.6
Brinkman, R.7
Gottardo, R.8
Scheuermann, R.H.9
-
4
-
-
0027375009
-
Guideline for flow cytometric immunophenotyping: a report from the National Institute of Allergy and Infectious Diseases, Division of AIDS
-
Calvelli T., Denny T.N., Paxton H., Gelman R., Kagan J. Guideline for flow cytometric immunophenotyping: a report from the National Institute of Allergy and Infectious Diseases, Division of AIDS. Cytometry 1993, 14:702.
-
(1993)
Cytometry
, vol.14
, pp. 702
-
-
Calvelli, T.1
Denny, T.N.2
Paxton, H.3
Gelman, R.4
Kagan, J.5
-
5
-
-
48849105886
-
Statistical mixture modeling for cell subtype identification in flow cytometry
-
Chan C., Feng F., Ottinger J., Foster D., West M., Kepler T.B. Statistical mixture modeling for cell subtype identification in flow cytometry. Cytometry A 2008, 73:693.
-
(2008)
Cytometry A
, vol.73
, pp. 693
-
-
Chan, C.1
Feng, F.2
Ottinger, J.3
Foster, D.4
West, M.5
Kepler, T.B.6
-
6
-
-
84880849822
-
Hierarchical modeling for rare event detection and cell subset alignment across flow cytometry samples
-
Cron A., Gouttefangeas C., Frelinger J., Lin L., Singh S.K., Britten C.M., Welters M.J.P., van der Burg S.H., West M., Chan C. Hierarchical modeling for rare event detection and cell subset alignment across flow cytometry samples. PLoS Comput. Biol. 2013, 9:e1003130.
-
(2013)
PLoS Comput. Biol.
, vol.9
-
-
Cron, A.1
Gouttefangeas, C.2
Frelinger, J.3
Lin, L.4
Singh, S.K.5
Britten, C.M.6
Welters, M.J.P.7
van der Burg, S.H.8
West, M.9
Chan, C.10
-
7
-
-
77949555869
-
Merging mixture components for cell population identification in flow cytometry
-
Finak G., Bashashati A., Brinkman R., Gottardo R. Merging mixture components for cell population identification in flow cytometry. Adv. Bioinformatics 2009, 2009:247646.
-
(2009)
Adv. Bioinformatics
, vol.2009
, pp. 247646
-
-
Finak, G.1
Bashashati, A.2
Brinkman, R.3
Gottardo, R.4
-
8
-
-
84865139571
-
FlowPeaks: a fast unsupervised clustering for flow cytometry data via K-means and density peak finding
-
Geo Y., Sealfon S.C. flowPeaks: a fast unsupervised clustering for flow cytometry data via K-means and density peak finding. Bioinformatics 2012, 28:2052.
-
(2012)
Bioinformatics
, vol.28
, pp. 2052
-
-
Geo, Y.1
Sealfon, S.C.2
-
9
-
-
65949097067
-
FlowCore: a Bioconductor package for high throughput flow cytometry
-
Hahne F., LeMeur N., Brinkman R.R., Ellis B., Haaland P., Sarkar D., Spidlen J., Strain E., Gentleman R. flowCore: a Bioconductor package for high throughput flow cytometry. BMC Bioinformatics 2009, 10:106.
-
(2009)
BMC Bioinformatics
, vol.10
, pp. 106
-
-
Hahne, F.1
LeMeur, N.2
Brinkman, R.R.3
Ellis, B.4
Haaland, P.5
Sarkar, D.6
Spidlen, J.7
Strain, E.8
Gentleman, R.9
-
10
-
-
34247493236
-
Matplotlib: a 2D graphics environment
-
Hunter J.D. Matplotlib: a 2D graphics environment. Comput. Sci. Eng. 2007, 9:90.
-
(2007)
Comput. Sci. Eng.
, vol.9
, pp. 90
-
-
Hunter, J.D.1
-
11
-
-
78650032431
-
Quality assurance of intracellular cytokine staining assays: analysis of multiple rounds of proficiency testing
-
Jaimes M.C., Maecker H.T., Yan M., Maino V.C., Hanley M.B., Greer A., Darden J.M., D'Souza M.P. Quality assurance of intracellular cytokine staining assays: analysis of multiple rounds of proficiency testing. J. Immunol. Methods 2011, 363:143.
-
(2011)
J. Immunol. Methods
, vol.363
, pp. 143
-
-
Jaimes, M.C.1
Maecker, H.T.2
Yan, M.3
Maino, V.C.4
Hanley, M.B.5
Greer, A.6
Darden, J.M.7
D'Souza, M.P.8
-
12
-
-
31144432293
-
Literature mining for the biologist: from information retrieval to biological discovery
-
Jensen L.J., Saric J., Bork P. Literature mining for the biologist: from information retrieval to biological discovery. Nat. Rev. Genet. 2006, 7:119.
-
(2006)
Nat. Rev. Genet.
, vol.7
, pp. 119
-
-
Jensen, L.J.1
Saric, J.2
Bork, P.3
-
13
-
-
67649488081
-
FlowClust: a Bioconductor package for automated gating of flow cytometry data
-
Lo H., Hahne F., Brinkman R.R., Gottardo R. flowClust: a Bioconductor package for automated gating of flow cytometry data. BMC Bioinformatics 2009, 10:145.
-
(2009)
BMC Bioinformatics
, vol.10
, pp. 145
-
-
Lo, H.1
Hahne, F.2
Brinkman, R.R.3
Gottardo, R.4
-
14
-
-
33749497954
-
Flow cytometry controls, instrument setup, and the determination of positivity
-
Maecker H.T., Trotter J. Flow cytometry controls, instrument setup, and the determination of positivity. Cytometry A 2006, 69:1037.
-
(2006)
Cytometry A
, vol.69
, pp. 1037
-
-
Maecker, H.T.1
Trotter, J.2
-
15
-
-
26444448037
-
Standardization of cytokine flow cytometry assays
-
Maecker H.T., Rinfret A., D'Souza P., Darden J., Roig E., Landry C., Hayes P., Birungi J., Anzala O., Garcia M., Harari A., Frank I., Baydo R., Baker M., Holbrook J., Ottinger J., Lamoreaux L., Epling L.C., Sinclair E., Suni M.A., Punt K., Calarota S., El-Bahi S., Alter G., Maila H., Kuta E., Cox J., Gray C., Altfeld M., Nougarede N., Boyer J., Tussey L., Tobery T., Bredt B., Roederer M., Koup R., Maino V.C., Weinhold K., Pantaleo G., Gilmour J., Horton H., Sekaly R.P. Standardization of cytokine flow cytometry assays. BMC Immunol. 2005, 6:13.
-
(2005)
BMC Immunol.
, vol.6
, pp. 13
-
-
Maecker, H.T.1
Rinfret, A.2
D'Souza, P.3
Darden, J.4
Roig, E.5
Landry, C.6
Hayes, P.7
Birungi, J.8
Anzala, O.9
Garcia, M.10
Harari, A.11
Frank, I.12
Baydo, R.13
Baker, M.14
Holbrook, J.15
Ottinger, J.16
Lamoreaux, L.17
Epling, L.C.18
Sinclair, E.19
Suni, M.A.20
Punt, K.21
Calarota, S.22
El-Bahi, S.23
Alter, G.24
Maila, H.25
Kuta, E.26
Cox, J.27
Gray, C.28
Altfeld, M.29
Nougarede, N.30
Boyer, J.31
Tussey, L.32
Tobery, T.33
Bredt, B.34
Roederer, M.35
Koup, R.36
Maino, V.C.37
Weinhold, K.38
Pantaleo, G.39
Gilmour, J.40
Horton, H.41
Sekaly, R.P.42
more..
-
16
-
-
77958137829
-
A model for harmonizing flow cytometry in clinical trials
-
Maecker T., McCoy P., Consortium F.H.I., Amos M., Elliott J., Gaigalas A., Wang L., Aranda R., Banchereau J., Boshoff C., Braun J., Korin Y., Reed E., Cho J., Hafler D., Davis M., Fathman G., Robinson W., Denny T., Weinhold K., Desai B., Diamond B., Gregersen P., Meglio P.D., Nestle F., Peakman M., Villanova F., Ferbas J., Field E., Kantor A., Kawabata T., Komocsar W., Lotze M., Nepom J., Ochs H., O'Lone R., Phippard D., Plevy S., Rich S., Roederer M., Rotrosen D., Yeh J.-H. A model for harmonizing flow cytometry in clinical trials. Nat. Immunol. 2010, 11:975.
-
(2010)
Nat. Immunol.
, vol.11
, pp. 975
-
-
Maecker, T.1
McCoy, P.2
Consortium, F.H.I.3
Amos, M.4
Elliott, J.5
Gaigalas, A.6
Wang, L.7
Aranda, R.8
Banchereau, J.9
Boshoff, C.10
Braun, J.11
Korin, Y.12
Reed, E.13
Cho, J.14
Hafler, D.15
Davis, M.16
Fathman, G.17
Robinson, W.18
Denny, T.19
Weinhold, K.20
Desai, B.21
Diamond, B.22
Gregersen, P.23
Meglio, P.D.24
Nestle, F.25
Peakman, M.26
Villanova, F.27
Ferbas, J.28
Field, E.29
Kantor, A.30
Kawabata, T.31
Komocsar, W.32
Lotze, M.33
Nepom, J.34
Ochs, H.35
O'Lone, R.36
Phippard, D.37
Plevy, S.38
Rich, S.39
Roederer, M.40
Rotrosen, D.41
Yeh, J.-H.42
more..
-
17
-
-
0029849287
-
Three-color supplement to the NIAID DAIDS guideline for flow cytometric immunophenotyping
-
Nicholson J., Kidd P., Mandy F., Livnat D., Kagan J. Three-color supplement to the NIAID DAIDS guideline for flow cytometric immunophenotyping. Cytometry 1996, 26:227.
-
(1996)
Cytometry
, vol.26
, pp. 227
-
-
Nicholson, J.1
Kidd, P.2
Mandy, F.3
Livnat, D.4
Kagan, J.5
-
19
-
-
84906083537
-
A simplified method to optimize reagents for an 11-color (13-marker) polychromatic intracellular staining (ICS) panel
-
Ottinger J.S., Mensali N., Enzor J., Weinhold A.K., Weinhold K.J. A simplified method to optimize reagents for an 11-color (13-marker) polychromatic intracellular staining (ICS) panel. Cytometry B 2008, 74:363.
-
(2008)
Cytometry B
, vol.74
, pp. 363
-
-
Ottinger, J.S.1
Mensali, N.2
Enzor, J.3
Weinhold, A.K.4
Weinhold, K.J.5
-
20
-
-
85047699080
-
A new "Logicle" display method avoids deceptive effects of logarithmic scaling for low signals and compensated data
-
Parks D.R., Roederer M., Moore W.A. A new "Logicle" display method avoids deceptive effects of logarithmic scaling for low signals and compensated data. Cytometry A 2006, 69:541.
-
(2006)
Cytometry A
, vol.69
, pp. 541
-
-
Parks, D.R.1
Roederer, M.2
Moore, W.A.3
-
21
-
-
80555140075
-
Scikit-learn: machine learning in Python
-
Pedregosa F., Varoquaux G., Gramfort A., Michel V., Thirion B., Grisel O., Blondel M., Prettenhofer P., Weiss R., Dubourg V., Vanderplas J., Passos A., Cournapeau D., Brucher M., Perrot M., Duchesnay E. Scikit-learn: machine learning in Python. J. Mach. Learn. Res. 2011, 12:2825.
-
(2011)
J. Mach. Learn. Res.
, vol.12
, pp. 2825
-
-
Pedregosa, F.1
Varoquaux, G.2
Gramfort, A.3
Michel, V.4
Thirion, B.5
Grisel, O.6
Blondel, M.7
Prettenhofer, P.8
Weiss, R.9
Dubourg, V.10
Vanderplas, J.11
Passos, A.12
Cournapeau, D.13
Brucher, M.14
Perrot, M.15
Duchesnay, E.16
-
22
-
-
34347267675
-
Quality assurance for polychromatic flow cytometry
-
Perfetto S., Ambrozak D., Nguyen R., Chattopadhyay P., Roederer M. Quality assurance for polychromatic flow cytometry. Nat. Protoc. 2006, 1:1522.
-
(2006)
Nat. Protoc.
, vol.1
, pp. 1522
-
-
Perfetto, S.1
Ambrozak, D.2
Nguyen, R.3
Chattopadhyay, P.4
Roederer, M.5
-
24
-
-
66649115648
-
Automated high-dimensional flow cytometric data analysis
-
Pyne S., Hu X., Wang K., Rossin E., Lin T.-I., Maier L.M., Baecher-Allan C., McLachlan G.J., Tamayo P., Hafler D.A., Jager P.L.D., Mesirov J.P. Automated high-dimensional flow cytometric data analysis. Proc. Natl. Acad. Sci. U. S. A. 2009, 106:8519.
-
(2009)
Proc. Natl. Acad. Sci. U. S. A.
, vol.106
, pp. 8519
-
-
Pyne, S.1
Hu, X.2
Wang, K.3
Rossin, E.4
Lin, T.-I.5
Maier, L.M.6
Baecher-Allan, C.7
McLachlan, G.J.8
Tamayo, P.9
Hafler, D.A.10
Jager, P.L.D.11
Mesirov, J.P.12
-
26
-
-
80054768631
-
Extracting a cellular hierarchy from high-dimensional cytometry data with SPADE
-
Qiu P., Simonds E.F., Bendall S.C., Gibbs K.D., Bruggner R.V., Linderman M.D., Sachs K., Nolan G.P., Plevritis S.K. Extracting a cellular hierarchy from high-dimensional cytometry data with SPADE. Nat. Biotechnol. 2011, 29:886.
-
(2011)
Nat. Biotechnol.
, vol.29
, pp. 886
-
-
Qiu, P.1
Simonds, E.F.2
Bendall, S.C.3
Gibbs, K.D.4
Bruggner, R.V.5
Linderman, M.D.6
Sachs, K.7
Nolan, G.P.8
Plevritis, S.K.9
-
27
-
-
79251515158
-
SPICE: exploration and analysis of post-cytometric complex multivariate datasets
-
Roederer M., Nozzi J.L., Nason M.C. SPICE: exploration and analysis of post-cytometric complex multivariate datasets. Cytometry A 2011, 79:167.
-
(2011)
Cytometry A
, vol.79
, pp. 167
-
-
Roederer, M.1
Nozzi, J.L.2
Nason, M.C.3
-
28
-
-
79951993653
-
Polyfunctional cytomegalovirus-specific immunity in lung transplant recipients receiving valganciclovir prophylaxis
-
Snyder L.D., Medinas R., Chan C., Sparks S., Davis W.A., Palmer S.M., Weinhold K.J. Polyfunctional cytomegalovirus-specific immunity in lung transplant recipients receiving valganciclovir prophylaxis. Am. J. Transplant. 2011, 11:553.
-
(2011)
Am. J. Transplant.
, vol.11
, pp. 553
-
-
Snyder, L.D.1
Medinas, R.2
Chan, C.3
Sparks, S.4
Davis, W.A.5
Palmer, S.M.6
Weinhold, K.J.7
-
30
-
-
77954938186
-
Data reduction for spectral clustering to analyze high throughput flow cytometry data
-
Zare H., Shooshtari P., Gupta A., Brinkman R.R. Data reduction for spectral clustering to analyze high throughput flow cytometry data. BMC Bioinformatics 2010, 11:403.
-
(2010)
BMC Bioinformatics
, vol.11
, pp. 403
-
-
Zare, H.1
Shooshtari, P.2
Gupta, A.3
Brinkman, R.R.4
|