CellProfiler: image analysis software for identifying and quantifying cell phenotypes

Anne E Carpenter; Thouis R Jones; Michael R Lamprecht; Colin Clarke; In Han Kang; Ola Friman; David A Guertin; Joo Han Chang; Robert A Lindquist; Jason Moffat; Polina Golland; David M Sabatini

doi:10.1186/gb-2006-7-10-r100

CellProfiler: image analysis software for identifying and quantifying cell phenotypes

Genome Biol. 2006;7(10):R100. doi: 10.1186/gb-2006-7-10-r100. Epub 2006 Oct 31.

Authors

Anne E Carpenter¹, Thouis R Jones, Michael R Lamprecht, Colin Clarke, In Han Kang, Ola Friman, David A Guertin, Joo Han Chang, Robert A Lindquist, Jason Moffat, Polina Golland, David M Sabatini

Affiliation

¹ Whitehead Institute for Biomedical Research, Cambridge, MA 02142, USA.

Abstract

Biologists can now prepare and image thousands of samples per day using automation, enabling chemical screens and functional genomics (for example, using RNA interference). Here we describe the first free, open-source system designed for flexible, high-throughput cell image analysis, CellProfiler. CellProfiler can address a variety of biological questions quantitatively, including standard assays (for example, cell count, size, per-cell protein levels) and complex morphological assays (for example, cell/organelle shape or subcellular patterns of DNA or protein staining).

Publication types

Research Support, N.I.H., Extramural
Research Support, Non-U.S. Gov't

MeSH terms

Dose-Response Relationship, Drug
Gene Expression Profiling*
Image Processing, Computer-Assisted
Models, Genetic
Mutation*
Phenotype
Reproducibility of Results
Software

Abstract

Publication types

MeSH terms

Grants and funding