Limits...
Identification of cancer cell-line origins using fluorescence image-based phenomic screening.

Lee JS, Kim YK, Kim HJ, Hajar S, Tan YL, Kang NY, Ng SH, Yoon CN, Chang YT - PLoS ONE (2012)

Bottom Line: Universal phenotyping techniques that can discriminate among various states of biological systems have great potential.We applied 557 fluorescent library compounds to NCI's 60 human cancer cell-lines (NCI-60) to generate a systematic fluorescence phenotypic profiling data.By the kinetic fluorescence intensity analysis, we successfully discriminated the organ origin of all the 60 cell-lines.

View Article: PubMed Central - PubMed

Affiliation: Biomolecules Function Research Center, Korea Institute of Science and Technology, Seoul, South Korea.

ABSTRACT
Universal phenotyping techniques that can discriminate among various states of biological systems have great potential. We applied 557 fluorescent library compounds to NCI's 60 human cancer cell-lines (NCI-60) to generate a systematic fluorescence phenotypic profiling data. By the kinetic fluorescence intensity analysis, we successfully discriminated the organ origin of all the 60 cell-lines.

Show MeSH

Related in: MedlinePlus

Fluorescence intensity profile of RS-C3 (500 nM) against NCI-60 cells after 24 h incubation and the corresponding fluorescent images.(a) bar graph of kinetic fold change (b) fluorescence images of 60 cancer cell lines.
© Copyright Policy
Related In: Results  -  Collection


getmorefigures.php?uid=PMC3285665&req=5

pone-0032096-g003: Fluorescence intensity profile of RS-C3 (500 nM) against NCI-60 cells after 24 h incubation and the corresponding fluorescent images.(a) bar graph of kinetic fold change (b) fluorescence images of 60 cancer cell lines.

Mentions: Another cell line specific profile was observed with the RS-C3 compound. RS-C3 induced a strong fluorescence turn-on effect only in KM12 cells, a human colon cancer cell line, among 60 cell lines (Fig. 3). Compared with the average fluorescent intensities in other NCI-60 cells, RS-C3 exhibited an exceptional 5.64-fold higher intensity in the KM12 cells. To explore the functional characteristic of the KM122 cells that induce selective fluorescence phenotype, we analyzed mRNA expression data of the NCI-60 cell lines. Based on the mRNA expression data of GSE5846, differentially expressed genes (DEGs) that up-regulated in KM12 cells (Log2(Fold) >1.5) were selected, and their gene annotation information were analyzed. KEGG pathway and gene ontology analyses identified five pathways that exhibit significant difference (P value <0.001) between KM12 cells and all the other NCI60 cells, such as cell communication, hematopoietic cell lineage, urea cycle and metabolism of amino groups and p53 signaling pathway (Table S3, S4). With these combinations of DEGs expression, it is possible to discriminate KM12 cells out of other NCI60 cell lines, and up-regulated profile of these genes are unique functional signature of KM12 cells. Since fluorescence phenotype of RS-C3 shows collective information of such DEGs profile within a single fluorescence image as intensity changes, this probe has potential for sensing similar functional signature of other cell lines. While it was not clear at the moment what kinds of endogenous biomolecule are directly interacting with this probe, it could be utilized to visually identify a colon cancer cell line (KM12) among 60 cancer cell lines after 24 h pre-incubation.


Identification of cancer cell-line origins using fluorescence image-based phenomic screening.

Lee JS, Kim YK, Kim HJ, Hajar S, Tan YL, Kang NY, Ng SH, Yoon CN, Chang YT - PLoS ONE (2012)

Fluorescence intensity profile of RS-C3 (500 nM) against NCI-60 cells after 24 h incubation and the corresponding fluorescent images.(a) bar graph of kinetic fold change (b) fluorescence images of 60 cancer cell lines.
© Copyright Policy
Related In: Results  -  Collection

Show All Figures
getmorefigures.php?uid=PMC3285665&req=5

pone-0032096-g003: Fluorescence intensity profile of RS-C3 (500 nM) against NCI-60 cells after 24 h incubation and the corresponding fluorescent images.(a) bar graph of kinetic fold change (b) fluorescence images of 60 cancer cell lines.
Mentions: Another cell line specific profile was observed with the RS-C3 compound. RS-C3 induced a strong fluorescence turn-on effect only in KM12 cells, a human colon cancer cell line, among 60 cell lines (Fig. 3). Compared with the average fluorescent intensities in other NCI-60 cells, RS-C3 exhibited an exceptional 5.64-fold higher intensity in the KM12 cells. To explore the functional characteristic of the KM122 cells that induce selective fluorescence phenotype, we analyzed mRNA expression data of the NCI-60 cell lines. Based on the mRNA expression data of GSE5846, differentially expressed genes (DEGs) that up-regulated in KM12 cells (Log2(Fold) >1.5) were selected, and their gene annotation information were analyzed. KEGG pathway and gene ontology analyses identified five pathways that exhibit significant difference (P value <0.001) between KM12 cells and all the other NCI60 cells, such as cell communication, hematopoietic cell lineage, urea cycle and metabolism of amino groups and p53 signaling pathway (Table S3, S4). With these combinations of DEGs expression, it is possible to discriminate KM12 cells out of other NCI60 cell lines, and up-regulated profile of these genes are unique functional signature of KM12 cells. Since fluorescence phenotype of RS-C3 shows collective information of such DEGs profile within a single fluorescence image as intensity changes, this probe has potential for sensing similar functional signature of other cell lines. While it was not clear at the moment what kinds of endogenous biomolecule are directly interacting with this probe, it could be utilized to visually identify a colon cancer cell line (KM12) among 60 cancer cell lines after 24 h pre-incubation.

Bottom Line: Universal phenotyping techniques that can discriminate among various states of biological systems have great potential.We applied 557 fluorescent library compounds to NCI's 60 human cancer cell-lines (NCI-60) to generate a systematic fluorescence phenotypic profiling data.By the kinetic fluorescence intensity analysis, we successfully discriminated the organ origin of all the 60 cell-lines.

View Article: PubMed Central - PubMed

Affiliation: Biomolecules Function Research Center, Korea Institute of Science and Technology, Seoul, South Korea.

ABSTRACT
Universal phenotyping techniques that can discriminate among various states of biological systems have great potential. We applied 557 fluorescent library compounds to NCI's 60 human cancer cell-lines (NCI-60) to generate a systematic fluorescence phenotypic profiling data. By the kinetic fluorescence intensity analysis, we successfully discriminated the organ origin of all the 60 cell-lines.

Show MeSH
Related in: MedlinePlus