-
1
-
-
0036139314
-
A neural network classifier capable of recognizing the patterns of all major subcellular structures in fluorescence microscope images of HeLa cells
-
10.1093/bioinformatics/17.12.1213, 11751230
-
Boland MV, Murphy RF. A neural network classifier capable of recognizing the patterns of all major subcellular structures in fluorescence microscope images of HeLa cells. Bioinformatics 2001, 17(12):1213-1223. 10.1093/bioinformatics/17.12.1213, 11751230.
-
(2001)
Bioinformatics
, vol.17
, Issue.12
, pp. 1213-1223
-
-
Boland, M.V.1
Murphy, R.F.2
-
2
-
-
34250216344
-
Image-based multivariate profiling of drug responses from single cells
-
Loo LH, Wu LF, Altschuler SJ. Image-based multivariate profiling of drug responses from single cells. Nat Methods 2007, 4(5):445-453.
-
(2007)
Nat Methods
, vol.4
, Issue.5
, pp. 445-453
-
-
Loo, L.H.1
Wu, L.F.2
Altschuler, S.J.3
-
3
-
-
77950387346
-
Phenotypic profiling of the human genome by time-lapse microscopy reveals cell division genes
-
10.1038/nature08869, 3108885, 20360735
-
Neumann B, Walter T, Heriche JK, Bulkescher J, Erfle H, Conrad C, Rogers P, Poser I, Held M, Liebel U, et al. Phenotypic profiling of the human genome by time-lapse microscopy reveals cell division genes. Nature 2010, 464(7289):721-727. 10.1038/nature08869, 3108885, 20360735.
-
(2010)
Nature
, vol.464
, Issue.7289
, pp. 721-727
-
-
Neumann, B.1
Walter, T.2
Heriche, J.K.3
Bulkescher, J.4
Erfle, H.5
Conrad, C.6
Rogers, P.7
Poser, I.8
Held, M.9
Liebel, U.10
-
4
-
-
34250882643
-
Quantitative morphological signatures define local signaling networks regulating cell morphology
-
10.1126/science.1140324, 17588932
-
Bakal C, Aach J, Church G, Perrimon N. Quantitative morphological signatures define local signaling networks regulating cell morphology. Science 2007, 316(5832):1753-1756. 10.1126/science.1140324, 17588932.
-
(2007)
Science
, vol.316
, Issue.5832
, pp. 1753-1756
-
-
Bakal, C.1
Aach, J.2
Church, G.3
Perrimon, N.4
-
5
-
-
77949424084
-
Systems survey of endocytosis by multiparametric image analysis
-
10.1038/nature08779, 20190736
-
Collinet C, Stoter M, Bradshaw CR, Samusik N, Rink JC, Kenski D, Habermann B, Buchholz F, Henschel R, Mueller MS, et al. Systems survey of endocytosis by multiparametric image analysis. Nature 2010, 464(7286):243-249. 10.1038/nature08779, 20190736.
-
(2010)
Nature
, vol.464
, Issue.7286
, pp. 243-249
-
-
Collinet, C.1
Stoter, M.2
Bradshaw, C.R.3
Samusik, N.4
Rink, J.C.5
Kenski, D.6
Habermann, B.7
Buchholz, F.8
Henschel, R.9
Mueller, M.S.10
-
6
-
-
79954500285
-
Improved structure, function and compatibility for CellProfiler: modular high-throughput image analysis software
-
10.1093/bioinformatics/btr095, 3072555, 21349861
-
Kamentsky L, Jones TR, Fraser A, Bray MA, Logan DJ, Madden KL, Ljosa V, Rueden C, Eliceiri KW, Carpenter AE. Improved structure, function and compatibility for CellProfiler: modular high-throughput image analysis software. Bioinformatics 2011, 27(8):1179-1180. 10.1093/bioinformatics/btr095, 3072555, 21349861.
-
(2011)
Bioinformatics
, vol.27
, Issue.8
, pp. 1179-1180
-
-
Kamentsky, L.1
Jones, T.R.2
Fraser, A.3
Bray, M.A.4
Logan, D.J.5
Madden, K.L.6
Ljosa, V.7
Rueden, C.8
Eliceiri, K.W.9
Carpenter, A.E.10
-
7
-
-
36048945922
-
ImageJ for microscopy
-
Collins TJ. ImageJ for microscopy. Biotechniques 2007, 43(1 Suppl):25-30.
-
(2007)
Biotechniques
, vol.43
, Issue.1 SUPPL
, pp. 25-30
-
-
Collins, T.J.1
-
8
-
-
84863204506
-
BioImageXD: an open, general-purpose and high-throughput image-processing platform
-
10.1038/nmeth.2047, 22743773
-
Kankaanpaa P, Paavolainen L, Tiitta S, Karjalainen M, Paivarinne J, Nieminen J, Marjomaki V, Heino J, White DJ. BioImageXD: an open, general-purpose and high-throughput image-processing platform. Nature methods 2012, 9(7):683-689. 10.1038/nmeth.2047, 22743773.
-
(2012)
Nature methods
, vol.9
, Issue.7
, pp. 683-689
-
-
Kankaanpaa, P.1
Paavolainen, L.2
Tiitta, S.3
Karjalainen, M.4
Paivarinne, J.5
Nieminen, J.6
Marjomaki, V.7
Heino, J.8
White, D.J.9
-
9
-
-
84863191618
-
Icy: an open bioimage informatics platform for extended reproducible research
-
10.1038/nmeth.2075, 22743774
-
de Chaumont F, Dallongeville S, Chenouard N, Herve N, Pop S, Provoost T, Meas-Yedid V, Pankajakshan P, Lecomte T, Le Montagner Y, et al. Icy: an open bioimage informatics platform for extended reproducible research. Nature methods 2012, 9(7):690-696. 10.1038/nmeth.2075, 22743774.
-
(2012)
Nature methods
, vol.9
, Issue.7
, pp. 690-696
-
-
de Chaumont, F.1
Dallongeville, S.2
Chenouard, N.3
Herve, N.4
Pop, S.5
Provoost, T.6
Meas-Yedid, V.7
Pankajakshan, P.8
Lecomte, T.9
Le Montagner, Y.10
-
10
-
-
84863393849
-
OMERO: flexible, model-driven data management for experimental biology
-
10.1038/nmeth.1896, 3437820, 22373911
-
Allan C, Burel JM, Moore J, Blackburn C, Linkert M, Loynton S, Macdonald D, Moore WJ, Neves C, Patterson A, et al. OMERO: flexible, model-driven data management for experimental biology. Nature methods 2012, 9(3):245-253. 10.1038/nmeth.1896, 3437820, 22373911.
-
(2012)
Nature methods
, vol.9
, Issue.3
, pp. 245-253
-
-
Allan, C.1
Burel, J.M.2
Moore, J.3
Blackburn, C.4
Linkert, M.5
Loynton, S.6
Macdonald, D.7
Moore, W.J.8
Neves, C.9
Patterson, A.10
-
11
-
-
77951959633
-
EBImage--an R package for image processing with applications to cellular phenotypes
-
10.1093/bioinformatics/btq046, 2844988, 20338898
-
Pau G, Fuchs F, Sklyar O, Boutros M, Huber W. EBImage--an R package for image processing with applications to cellular phenotypes. Bioinformatics 2010, 26(7):979-981. 10.1093/bioinformatics/btq046, 2844988, 20338898.
-
(2010)
Bioinformatics
, vol.26
, Issue.7
, pp. 979-981
-
-
Pau, G.1
Fuchs, F.2
Sklyar, O.3
Boutros, M.4
Huber, W.5
-
12
-
-
40749084477
-
A comparison of common programming languages used in bioinformatics
-
10.1186/1471-2105-9-82, 2267699, 18251993
-
Fourment M, Gillings MR. A comparison of common programming languages used in bioinformatics. BMC Bioinformatics 2008, 9:82. 10.1186/1471-2105-9-82, 2267699, 18251993.
-
(2008)
BMC Bioinformatics
, vol.9
, pp. 82
-
-
Fourment, M.1
Gillings, M.R.2
-
13
-
-
0034298274
-
An empirical comparison of C, C++, Java, Perl, Python, Rexx and Tcl
-
Prechelt L. An empirical comparison of C, C++, Java, Perl, Python, Rexx and Tcl. IEEE Computer 2000, 33:23-29.
-
(2000)
IEEE Computer
, vol.33
, pp. 23-29
-
-
Prechelt, L.1
-
14
-
-
67650070045
-
Multi-parameter phenotypic profiling: using cellular effects to characterize small-molecule compounds
-
10.1038/nrd2876, 19568283
-
Feng Y, Mitchison TJ, Bender A, Young DW, Tallarico JA. Multi-parameter phenotypic profiling: using cellular effects to characterize small-molecule compounds. Nat Rev Drug Discov 2009, 8(7):567-578. 10.1038/nrd2876, 19568283.
-
(2009)
Nat Rev Drug Discov
, vol.8
, Issue.7
, pp. 567-578
-
-
Feng, Y.1
Mitchison, T.J.2
Bender, A.3
Young, D.W.4
Tallarico, J.A.5
-
15
-
-
84886795242
-
-
http://www.hdfgroup.org/HDF5/
-
-
-
-
17
-
-
0034224812
-
Implementing streaming SIMD extensions on the Pentium III processor
-
Raman SK, Pentkovski V, Keshava J. Implementing streaming SIMD extensions on the Pentium III processor. IEEE Micro 2000, 20(4):47-57.
-
(2000)
IEEE Micro
, vol.20
, Issue.4
, pp. 47-57
-
-
Raman, S.K.1
Pentkovski, V.2
Keshava, J.3
-
18
-
-
84886803749
-
-
http://www.openmp.org
-
-
-
-
19
-
-
84886795616
-
-
http://www.r-project.org
-
-
-
-
20
-
-
84886778746
-
-
http://www.wxwidgets.org
-
-
-
-
21
-
-
75549087566
-
Heterogeneity in the physiological states and pharmacological responses of differentiating 3T3-L1 preadipocytes
-
10.1083/jcb.200904140, 2779244, 19948481
-
Loo LH, Lin HJ, Singh DK, Lyons KM, Altschuler SJ, Wu LF. Heterogeneity in the physiological states and pharmacological responses of differentiating 3T3-L1 preadipocytes. J Cell Biol 2009, 187(3):375-384. 10.1083/jcb.200904140, 2779244, 19948481.
-
(2009)
J Cell Biol
, vol.187
, Issue.3
, pp. 375-384
-
-
Loo, L.H.1
Lin, H.J.2
Singh, D.K.3
Lyons, K.M.4
Altschuler, S.J.5
Wu, L.F.6
-
22
-
-
70349613624
-
An approach for extensibly profiling the molecular states of cellular subpopulations
-
10.1038/nmeth.1375, 2818727, 19767759
-
Loo LH, Lin HJ, Steininger RJ, Wang Y, Wu LF, Altschuler SJ. An approach for extensibly profiling the molecular states of cellular subpopulations. Nat Methods 2009, 6(10):759-765. 10.1038/nmeth.1375, 2818727, 19767759.
-
(2009)
Nat Methods
, vol.6
, Issue.10
, pp. 759-765
-
-
Loo, L.H.1
Lin, H.J.2
Steininger, R.J.3
Wang, Y.4
Wu, L.F.5
Altschuler, S.J.6
-
23
-
-
0027576716
-
Morphological grayscale reconstruction in image analysis: applications and efficient algorithms
-
Vincent L. Morphological grayscale reconstruction in image analysis: applications and efficient algorithms. IEEE Trans on Image Processing 1993, 2:176-201.
-
(1993)
IEEE Trans on Image Processing
, vol.2
, pp. 176-201
-
-
Vincent, L.1
-
24
-
-
0018306059
-
A threshold selection method from grey-level histograms
-
Otsu N. A threshold selection method from grey-level histograms. IEEE Trans Systems, Man and Cybernetics 1979, 9:62-66.
-
(1979)
IEEE Trans Systems, Man and Cybernetics
, vol.9
, pp. 62-66
-
-
Otsu, N.1
-
26
-
-
50949133669
-
LIBLINEAR: A library for large linear classification
-
Fan R-E, Chang K-W, Hsieh C-J, Wang X-R, Lin C-J. LIBLINEAR: A library for large linear classification. Journal of Machine Learning Research 2008, 9:1871-1874.
-
(2008)
Journal of Machine Learning Research
, vol.9
, pp. 1871-1874
-
-
Fan, R.-E.1
Chang, K.-W.2
Hsieh, C.-J.3
Wang, X.-R.4
Lin, C.-J.5
-
27
-
-
84886785690
-
-
http://www.cellXpress.org
-
-
-
-
28
-
-
84886786594
-
-
http://www.cellprofiler.org
-
-
-
-
29
-
-
84886779832
-
-
http://rsbweb.nih.gov/ij
-
-
-
-
30
-
-
84886774659
-
-
http://fiji.sc
-
-
-
-
31
-
-
84886797097
-
-
(downloaded on 1st December 2012)
-
(downloaded on 1st December 2012)., http://www.cellprofiler.org/linked_files/Examplezips/ExampleFlyImages.zip
-
-
-
-
32
-
-
84886773329
-
-
(downloaded on 1st December 2012)
-
(downloaded on 1st December 2012)., http://www.broadinstitute.org/bbbc/BBBC018
-
-
-
-
33
-
-
33646033137
-
A lentiviral RNAi library for human and mouse genes applied to an arrayed viral high-content screen
-
10.1016/j.cell.2006.01.040, 16564017
-
Moffat J, Grueneberg DA, Yang X, Kim SY, Kloepfer AM, Hinkle G, Piqani B, Eisenhaure TM, Luo B, Grenier JK, et al. A lentiviral RNAi library for human and mouse genes applied to an arrayed viral high-content screen. Cell 2006, 124(6):1283-1298. 10.1016/j.cell.2006.01.040, 16564017.
-
(2006)
Cell
, vol.124
, Issue.6
, pp. 1283-1298
-
-
Moffat, J.1
Grueneberg, D.A.2
Yang, X.3
Kim, S.Y.4
Kloepfer, A.M.5
Hinkle, G.6
Piqani, B.7
Eisenhaure, T.M.8
Luo, B.9
Grenier, J.K.10
-
34
-
-
84886784582
-
-
(downloaded on 20 Dec 2010)
-
(downloaded on 20 Dec 2010)., http://www.ebi.ac.uk/huber-srv/cellmorph
-
-
-
-
35
-
-
77953276042
-
Clustering phenotype populations by genome-wide RNAi and multiparametric imaging
-
2913390, 20531400
-
Fuchs F, Pau G, Kranz D, Sklyar O, Budjan C, Steinbrink S, Horn T, Pedal A, Huber W, Boutros M. Clustering phenotype populations by genome-wide RNAi and multiparametric imaging. Mol Syst Biol 2010, 6:370. 2913390, 20531400.
-
(2010)
Mol Syst Biol
, vol.6
, pp. 370
-
-
Fuchs, F.1
Pau, G.2
Kranz, D.3
Sklyar, O.4
Budjan, C.5
Steinbrink, S.6
Horn, T.7
Pedal, A.8
Huber, W.9
Boutros, M.10
-
36
-
-
77955882462
-
Membrane domains based on ankyrin and spectrin associated with cell-cell interactions
-
10.1101/cshperspect.a003012, 2882121, 20457566
-
Bennett V, Healy J. Membrane domains based on ankyrin and spectrin associated with cell-cell interactions. Cold Spring Harb Perspect Biol 2009, 1(6):a003012. 10.1101/cshperspect.a003012, 2882121, 20457566.
-
(2009)
Cold Spring Harb Perspect Biol
, vol.1
, Issue.6
-
-
Bennett, V.1
Healy, J.2
-
38
-
-
0000325341
-
On Lines and Planes of Closest Fit to Systems of Points in Space
-
Pearson K. On Lines and Planes of Closest Fit to Systems of Points in Space. Philosophical Magazine 1901, 2(11):559-572.
-
(1901)
Philosophical Magazine
, vol.2
, Issue.11
, pp. 559-572
-
-
Pearson, K.1
-
39
-
-
34250216344
-
Image-based multivariate profiling of drug responses from single cells
-
Loo LH, Wu LF, Altschuler SJ. Image-based multivariate profiling of drug responses from single cells. Nat Methods 2007, 4(5):445-453.
-
(2007)
Nat Methods
, vol.4
, Issue.5
, pp. 445-453
-
-
Loo, L.H.1
Wu, L.F.2
Altschuler, S.J.3
-
40
-
-
0003895851
-
Modern Applied Statistics with S
-
Springer, New York, 4
-
Venables WN, Ripley BD. Modern Applied Statistics with S. 2002, Springer, New York, 4.
-
(2002)
-
-
Venables, W.N.1
Ripley, B.D.2
-
41
-
-
84886783292
-
-
http://cran.r-project.org/web/packages/rgl
-
-
-
-
42
-
-
84862520770
-
Fiji: an open-source platform for biological-image analysis
-
10.1038/nmeth.2019, 22743772
-
Schindelin J, Arganda-Carreras I, Frise E, Kaynig V, Longair M, Pietzsch T, Preibisch S, Rueden C, Saalfeld S, Schmid B, et al. Fiji: an open-source platform for biological-image analysis. Nat Methods 2012, 9(7):676-682. 10.1038/nmeth.2019, 22743772.
-
(2012)
Nat Methods
, vol.9
, Issue.7
, pp. 676-682
-
-
Schindelin, J.1
Arganda-Carreras, I.2
Frise, E.3
Kaynig, V.4
Longair, M.5
Pietzsch, T.6
Preibisch, S.7
Rueden, C.8
Saalfeld, S.9
Schmid, B.10
-
43
-
-
33845792555
-
CellProfiler: image analysis software for identifying and quantifying cell phenotypes
-
10.1186/gb-2006-7-10-r100, 1794559, 17076895
-
Carpenter AE, Jones TR, Lamprecht MR, Clarke C, Kang IH, Friman O, Guertin DA, Chang JH, Lindquist RA, Moffat J, et al. CellProfiler: image analysis software for identifying and quantifying cell phenotypes. Genome Biol 2006, 7(10):R100. 10.1186/gb-2006-7-10-r100, 1794559, 17076895.
-
(2006)
Genome Biol
, vol.7
, Issue.10
-
-
Carpenter, A.E.1
Jones, T.R.2
Lamprecht, M.R.3
Clarke, C.4
Kang, I.H.5
Friman, O.6
Guertin, D.A.7
Chang, J.H.8
Lindquist, R.A.9
Moffat, J.10
-
44
-
-
0027574929
-
An Iterative Algorithm for Minimum Cross Entropy Thresholding
-
Li C, Lee C. An Iterative Algorithm for Minimum Cross Entropy Thresholding. Pattern Recognition 1998, 26(4):617-625.
-
(1998)
Pattern Recognition
, vol.26
, Issue.4
, pp. 617-625
-
-
Li, C.1
Lee, C.2
-
45
-
-
0017691474
-
Automatic measurement of sister chromatid exchange frequency
-
10.1177/25.7.70454, 70454
-
Zack G, Rogers W, Latt S. Automatic measurement of sister chromatid exchange frequency. J Histochem Cytochem 1977, 25(7):741-753. 10.1177/25.7.70454, 70454.
-
(1977)
J Histochem Cytochem
, vol.25
, Issue.7
, pp. 741-753
-
-
Zack, G.1
Rogers, W.2
Latt, S.3
|