scholarly journals Integrative analysis and machine learning based characterization of single circulating tumor cells

2019 ◽  
Author(s):  
Arvind Iyer ◽  
Krishan Gupta ◽  
Shreya Sharma ◽  
Kishore Hari ◽  
Yi Fang Lee ◽  
...  
Keyword(s):  
Tumor Cells ◽  
Circulating Tumor Cells ◽  
Expression Profiles ◽  
Gene Expression Pattern ◽  
Integrative Analysis ◽  
Label Free ◽  
Peripheral Blood Mononuclear ◽  
Cell Expression ◽  
Free Enrichment

ABSTRACTWe collated publicly available single-cell expression profiles of circulating tumor cells (CTCs) and showed that CTCs across cancers lie on a near-perfect continuum of epithelial to mesenchymal (EMT) transition. Integrative analysis of CTC transcriptomes also highlighted the inverse gene expression pattern between PD-L1 and MHC, which is implicated in cancer immunotherapy. We used the CTCs expression profiles in tandem with publicly available peripheral blood mononuclear cell (PBMC) transcriptomes to train a classifier that accurately recognizes CTCs of diverse phenotype. Further, we used this classifier to validate circulating breast tumor cells captured using a newly developed microfluidic systems for label-free enrichment of CTCs.

scholarly journals Integrative Analysis and Machine Learning based Characterization of Single Circulating Tumor Cells

2020 ◽  
Vol 9 (4) ◽  
pp. 1206 ◽  
Author(s):  
Arvind Iyer ◽  
Krishan Gupta ◽  
Shreya Sharma ◽  
Kishore Hari ◽  
Yi Fang Lee ◽  
...  
Keyword(s):  
Tumor Cells ◽  
Circulating Tumor Cells ◽  
Expression Profiles ◽  
Gene Expression Pattern ◽  
Microfluidic System ◽  
Integrative Analysis ◽  
Label Free ◽  
Peripheral Blood Mononuclear ◽  
Cell Expression

We collated publicly available single-cell expression profiles of circulating tumor cells (CTCs) and showed that CTCs across cancers lie on a near-perfect continuum of epithelial to mesenchymal (EMT) transition. Integrative analysis of CTC transcriptomes also highlighted the inverse gene expression pattern between PD-L1 and MHC, which is implicated in cancer immunotherapy. We used the CTCs expression profiles in tandem with publicly available peripheral blood mononuclear cell (PBMC) transcriptomes to train a classifier that accurately recognizes CTCs of diverse phenotype. Further, we used this classifier to validate circulating breast tumor cells captured using a newly developed microfluidic system for label-free enrichment of CTCs.

scholarly journals 56P Single circulating tumor cells RNA profiling by label-free enrichment and active single cell selection on an integrated fluidic system

2016 ◽  
Vol 27 ◽  
pp. ix15-ix16
Author(s):  
Y.F. Lee ◽  
N. Ramalingam ◽  
L. Szpankowski ◽  
A. Leyrat ◽  
N.D. Angeles ◽  
...  
Keyword(s):  
Single Cell ◽  
Tumor Cells ◽  
Circulating Tumor Cells ◽  
Cell Selection ◽  
Label Free ◽  
Rna Profiling ◽  
Free Enrichment

scholarly journals Label-free enrichment of rare unconventional circulating neoplastic cells using a microfluidic dielectrophoretic sorting device

2021 ◽  
Vol 4 (1) ◽  
Author(s):  
Jose Montoya Mira ◽  
Ajay A. Sapre ◽  
Brett S. Walker ◽  
Jesus Bueno Alvarez ◽  
Kyle T. Gustafson ◽  
...  
Keyword(s):  
Tumor Cells ◽  
Mononuclear Cells ◽  
Digital Pcr ◽  
Clinical Samples ◽  
Label Free ◽  
Neoplastic Cells ◽  
Peripheral Blood Mononuclear ◽  
Potential Methods ◽  
Circulating Neoplastic Cells ◽  
Free Enrichment

AbstractCellular circulating biomarkers from the primary tumor such as circulating tumor cells (CTCs) and circulating hybrid cells (CHCs) have been described to harbor tumor-like phenotype and genotype. CHCs are present in higher numbers than CTCs supporting their translational potential. Methods for isolation of CHCs do not exist and are restricted to low-throughput, time consuming, and biased methodologies. We report the development of a label-free dielectrophoretic microfluidic platform facilitating enrichment of CHCs in a high-throughput and rapid fashion by depleting healthy peripheral blood mononuclear cells (PBMCs). We demonstrated up to 96.5% depletion of PBMCs resulting in 18.6-fold enrichment of cancer cells. In PBMCs from pancreatic adenocarcinoma patients, the platform enriched neoplastic cells identified by their KRAS mutant status using droplet digital PCR with one hour of processing. Enrichment was achieved in 75% of the clinical samples analyzed, establishing this approach as a promising way to non-invasively analyze tumor cells from patients.

56P Single circulating tumor cells RNA profiling by label-free enrichment and active single cell selection on an integrated fluidic system

2016 ◽  
Vol 27 (suppl_9) ◽  
Author(s):  
Y.F. Lee ◽  
N. Ramalingam ◽  
L. Szpankowski ◽  
A. Leyrat ◽  
N.D. Angeles ◽  
...  
Keyword(s):  
Single Cell ◽  
Tumor Cells ◽  
Circulating Tumor Cells ◽  
Cell Selection ◽  
Label Free ◽  
Rna Profiling ◽  
Free Enrichment
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