CellProfiler: image analysis software for identifying and quantifying cell phenotypes
Anne E. Carpenter(Whitehead Institute for Biomedical Research), Thouis R. Jones(Whitehead Institute for Biomedical Research), Michael R. Lamprecht(Whitehead Institute for Biomedical Research), Colin Clarke(Whitehead Institute for Biomedical Research), In Han Kang(Massachusetts Institute of Technology), Ola Friman(Brigham and Women's Hospital), David A. Guertin(Whitehead Institute for Biomedical Research), Joo Han Chang(Whitehead Institute for Biomedical Research), Robert A. Lindquist(Whitehead Institute for Biomedical Research), Jason Moffat(Whitehead Institute for Biomedical Research), Polina Golland(Massachusetts Institute of Technology), David M. Sabatini(Whitehead Institute for Biomedical Research)
Cited by 5,457Open Access
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).