2009-2011 Publications

Improved structure, function, and compatibility for CellProfiler: modular high-throughput image analysis software.
Kamentsky L, Jones TR, Fraser A, Bray MA, Logan DJ, Madden KL, Ljosa V, Rueden C, Eliceiri KW, Carpenter AE.
Bioinformatics. 2011 Feb 23.

Transition to invasion in breast cancer: a microfluidic in vitro model enables examination of spatial and temporal effects.
Sung KE, Yang N, Pehlke C, Keely PJ, Eliceiri KW, Friedl A, Beebe DJ.
Integr Biol (Camb). 2010 Dec 7.

Multiphoton Flow Cytometry to Assess Intrinsic and Extrinsic Fluorescence in Cellular Aggregates: Applications to Stem Cells.
Buschke DG, Squirrell JM, Ansari H, Smith MA, Rueden CT, Williams JC, Lyons GE, Kamp TJ, Eliceiri KW, Ogle BM.

Bimolecular fluorescence complementation analysis of eukaryotic fusion products.
Lin HP, Vincenz C, Eliceiri KW, Kerppola TK, Ogle BM.
Biol Cell. 2010 Aug 6;102(9):525-37.

Engineering three-dimensional collagen matrices to provide contact guidance during 3D cell migration.
Provenzano PP, Eliceiri KW, Inman DR, Keely PJ.
Curr Protoc Cell Biol. 2010 Jun;Chapter 10:Unit 10.17.

Metadata matters: access to image data in the real world.
Linkert M, Rueden CT, Allan C, Burel JM, Moore W, Patterson A, Loranger B, Moore J, Neves C, Macdonald D, Tarkowska A, Sticco C, Hill E, Rossner M, Eliceiri KW, Swedlow JR.
J Cell Biol. 2010 May 31;189(5):777-82.

Visualization of morphological and molecular features associated with chronic ischemia in bioengineered human skin.
Gill EM, Straseski JA, Rasmussen CA, Liliensiek SJ, Eliceiri KW, Ramanujam N, White JG, Allen-Hoffmann BL.
Microsc Microanal. 2010 Apr;16(2):117-31. Epub 2010 Mar 4.

Nonlinear optical microscopy and computational analysis of intrinsic signatures in breast cancer.
Rueden CT, Conklin MW, Provenzano PP, Keely PJ, Eliceiri KW.
Conf Proc IEEE Eng Med Biol Soc. 2009;2009:4077-80.

CGEF-1 and CHIN-1 regulate CDC-42 activity during asymmetric division in the Caenorhabditis elegans embryo.
Kumfer KT, Cook SJ, Squirrell JM, Eliceiri KW, Peel N, O'Connell KF, White JG.
Mol Biol Cell. 2010 Jan;21(2):266-77. Epub 2009 Nov 18.

Open source bioimage informatics for cell biology.
Swedlow JR, Eliceiri KW.
Trends Cell Biol. 2009 Nov;19(11):656-60. Epub 2009 Oct 14.

Matrix density-induced mechanoregulation of breast cell phenotype, signaling and gene expression through a FAK-ERK linkage.
Provenzano PP, Inman DR, Eliceiri KW, Keely PJ.

Shining new light on 3D cell motility and the metastatic process.
Provenzano PP, Eliceiri KW, Keely PJ.
Trends Cell Biol. 2009 Nov;19(11):638-48. Epub 2009 Oct 8. Review.

Control of 3-dimensional collagen matrix polymerization for reproducible human mammary fibroblast cell culture in microfluidic devices.
Sung KE, Su G, Pehlke C, Trier SM, Eliceiri KW, Keely PJ, Friedl A, Beebe DJ.

Filamin A-beta1 integrin complex tunes epithelial cell response to matrix tension.
Gehler S, Baldassarre M, Lad Y, Leight JL, Wozniak MA, Riching KM, Eliceiri KW, Weaver VM, Calderwood DA, Keely PJ.
Mol Biol Cell. 2009 Jul;20(14):3224-38. Epub 2009 May 20.

Bioimage informatics for experimental biology.
Swedlow JR, Goldberg IG, Eliceiri KW; OME Consortium.
Annu Rev Biophys. 2009;38:327-46. Review.

Integrated studies of biology: multiplexed imaging assays from molecules to man and back.
Eliceiri KW, Contag CH.

Fluorescence lifetime imaging of endogenous fluorophores in histopathology sections reveals differences between normal and tumor epithelium in carcinoma in situ of the breast.
Conklin MW, Provenzano PP, Eliceiri KW, Sullivan R, Keely PJ.
Cell Biochem Biophys. 2009;53(3):145-57.