Showing posts with label liquid biopsy. Show all posts
Showing posts with label liquid biopsy. Show all posts

Sunday, February 17, 2013

Isolation and retrieval of circulating tumor cells using centrifugal forces : Scientific Reports : Nature Publishing Group


Isolation and retrieval of circulating tumor cells using centrifugal forces : Scientific Reports : Nature Publishing Group

This paper is from Clearbridge Biomedics, manufacturers of a commercial CTC system (CTC chip), which    is used to isolate CTCs based on physical properties (size and deformability)

The present paper uses inertial microfluidics (explained here and here ), which uses a spiral channel and the centrifugal forces generated within the channel to separate cells based on their physical properties.

http://www.nature.com/srep/2013/130212/srep01259/carousel/srep01259-f1.jpg

Performance Summary:
> 85% recovery
> positive CTCs enumeration in all samples from patients with metastatic lung cancer (n = 20; 5–88 CTCs per mL
> throughput: 3ml/hr.

Commentary:
This work is concurrently ongoing at Clearbridge and University of Cincinnati (now seemingly independently, though the source of origin is university of cincinnati). Prof. Ian Papautsky from the University of Cincinnati has pioneered inertial microfluidics-based cell sorting for a number of years, leading to many publications.

Thursday, February 7, 2013

An Automated High-Throughput Counting Method for Screening Circulating Tumor Cells in Peripheral Blood - Analytical Chemistry (ACS Publications)

An Automated High-Throughput Counting Method for Screening Circulating Tumor Cells in Peripheral Blood - Analytical Chemistry (ACS Publications)

Summary:
This is a very unique paper that presents direct labelling of cells in whole blood. besides the traditional EpCAM, CD4-, CK markers, the authors also used CD44+ marker for stemness.

methods:
1 ml of blood directly stained with markers, centrifuged to remove excess labelling antibody and resuspended and flown through the microfluidic chip. A custom built line-confocal imaging system captures images of cells flowing past the microfluidic channel.
authors had previously published a variation of this technique here http://www.ncbi.nlm.nih.gov/pubmed/22389033

performance:
  • 94% recovery 
  • 1 ml of blood processed in ~ 30 mins
  • no isolation/enrichment needed
interestingly, the performance of this system was compared with cellsearch in 90 clinical samples with the following findings

91% positive samples vs 44% positive using cellsearch in 7.5 ml of blood
range of cells 15 to 3375 per 7.5ml vs 1 to 846 by cellsearch
average 305 cells/ml vs 36 cells/ml by cellsearch

very impressive performance improvement over cellsearch.

Tuesday, February 5, 2013

Epithelial to Mesenchymal Transition in CTCs from breast cancer patients: MGH paper published in Science

Circulating tumor cells get wanderlust

Science 1 February 2013
Vol. 339 
no. 6119 pp. 580-584DOI:10.1126/science.1228522
Key highlights of the paper:

  • Both mesenchymal & epithelial markers were expressed  in rare primary tumor cells but mesenchymal cells were highly enriched in CTCs. 
  • An association of mesenchymal CTCs with disease progression was observed by serial monitoring of 11 patients
  • Reversible shifts between these epithelial & mesenchymal cell fates accompanied each cycle of response to therapy and disease progression in an index patient
  • Provides evidence of EMT in human breast cancer specimens, both in rare cells within primary tumors and more abundantly in CTCs. 
  • The researchers found a striking association between expression of mesenchymal markers and clusters of CTCs, rather than single migratory cells.
  • The proposal that mesenchymal transformation of epithelial cells is mediated by TGF-β released from platelets is supported by the researchers who note of strong TGF-β signatures in mesenchymal CTC clusters, many of which carry attached platelets
  • human primary breast tumors contain rare cancer cells that coexpress mesenchymal and epithelial markers

Methods used:
Herringbone chip using an antibody cocktail (EpCAM, EGFR and Her2). Dual-colorimetric RNA–in situ hybridization (ISH) assay was used to examine tumor cells for expression of  epithelial (E) transcripts: [keratins (KRT) 5, 7, 8, 18, and 19; EpCAM (epithelial cell adhesion molecule); and CDH1 (cadherin 1)] and mesenchymal (M) transcripts: [FN1 (fibronectin 1), CDH2 (cadherin 2), and SERPINE1/PAI1 (serpin peptidase inhibitor, clade E)].

Wednesday, January 30, 2013

Capturing and release of circulating tumor cells (CTCs) from blood using nanopillars or other nanostructures

Capturing cancer tumor cells from the blood - MaterialsViews

This paper describes the use is 3D silicon nanopillar array coated with specific antibodies to capture and release CTCs using thermal means.

A similar approach is reported here

Scientists develop new nanotechnology to capture, release tumor cells that circulate in bloodstream


(using nano-velcro)

Nanostructured Surfaces to Target and Kill Circulating Tumor Cells While Repelling Leukocytes

(using Halloysite nanotubes)

the approach reported here is also in a similar category
(using DNA tentacles)

Specific Capture and Release of Circulating Tumor Cells Using Aptamer-Modified Nanosubstrates


High-Purity Prostate Circulating Tumor Cell Isolation by a Polymer Nanofiber-Embedded Microchip for Whole Exome Sequencing



Focus review 2013: Label free microfluidic technologies for isolation of circulating tumor cells (CTCs)

Label-free isolation of circulating tumor cells in microfluidic devices: Current research and perspectives

This paper is quite comprehensive in covering the many label free approaches to CTC isolation reported so far, including, filters, accoustophoresis, magnetophoresis, etc.

The general recommendation of the paper is towards adoption of these technologies for clinical use.

undoubtedly, there are several advantages to label-free isolation of CTCs, specially filtration techniques, which are simple, inexpensive, fast and easy to use. However, there are some important limitations that need to be considered,  which I was hoping the paper would shed light upon, but didnt.

the general limitations of filtration techniques are listed here.

It was also recently reported that the deformability of tumor initiating cells is less differentiated from normal blood cells. This makes the sized and deformability based techniques vulnerable to missing these important subtypes of CTCs. This is covered here 

Saturday, January 12, 2013

Circulating Tumor Cell ( CTC ) market info


Below is a compilation of publicly available market info from various sources

Market Potential

A recent market report was published by Transparency Market Research (http://www.transparencymarketresearch.com) titled "Circulating Tumor Cells (CTCs) and Cancer Stem Cells (CSCs) Market - Global Scenario, Trends, Size, Growth and Industry Analysis, 2011 - 2018." Globally, CTCs and CSCs Market is estimated to reach USD 7.9 billion by 2018. The global market for cancer diagnostics based on Circulating Cancer Cells (CTCs) was estimated at USD 1.0 billion in 2011. Majority of the share is most likely held by Veridex LLC (Johnson and Johnson)

CTC market estimates used by other CTC companies
company
Price/test
Market size
comment
Creatv Microtech [1]
USD 600
10-20 Bln
20-30 mln tests in US.
1 test/year/patient
Ikonisys [2]
USD 400
35 Bln
Total Addressable Market: 4 Bln (monitoring), 35 Bln (early detection)
Parsortix (listed) [3]
na
4 Bln
Est. 20,000 separations from single pharma site p.a. 25 Mln p.a. early stage rev.
Rheoblast [4]
na
5.2 Bln
10 Mln US patients= 25 M tests/year. 2-3 tests/yr/pat.
6000 clinical labs in US (2-3% growth)
1400 cancer treatment centers in US (6-7% growth)
150 biomarker companies and research labs

Figure 4:  source [4]

CTC application segment
CAGR
Prognosis
-
Therapy monitoring
26.54%
Diagnostics
26.48%
Prognostic functions hold 58.28% of the total CTC Technologies market



Figure 5 is the estimated market share by a CTC company, Silicon Biosystems, which provides solution for cell sorting.

Figure 6 is the estimated market share by a CTC company, Filtini, which provides microfilter based CTC isolation device

The demand for cellular analysis will also expand significantly during the next five years. This sector was worth $10 million in 2010 and is expected to increase at a 95.4% compound annual growth rate (CAGR) to reach $296 million in 2015.

List of all active commercial circulating tumor cell ( CTC ) technologies is here
http://circulating-tumor-cells.blogspot.com/2010/12/commercial-circulating-tumor-cell-ctc.html

other documents of interest
https://docs.google.com/file/d/0B6AYySNe0mJCTTd0Sll4NVhZMGs/edit?usp=sharing

Saturday, December 29, 2012

Microfluidics separation reveals the stem-cell–like deformability of tumor-initiating cells

Microfluidics separation reveals the stem-cell–like deformability of tumor-initiating cells

Key findings:
Here we report a microfluidics method to enrich physically deformable cells by mechanical manipulation through artificial microbarriers. Driven by hydrodynamic forces, flexible cells or cells with high metastatic propensity change shape to pass through the microbarriers and exit the separation device, whereas stiff cells remain trapped. We demonstrate the separation of (i) a mixture of two breast cancer cell types (MDA-MB-436 and MCF-7) with distinct deformabilities and metastatic potentials, and (ii) a heterogeneous breast cancer cell line (SUM149), into enriched flexible and stiff subpopulations. We show that the flexible phenotype is associated with overexpression of multiple genes involved in cancer cell motility and metastasis, and greater mammosphere formation efficiency. Our observations support the relationship between tumor-initiating capacity and cell deformability, and demonstrate that tumor-initiating cells are less differentiated in terms of cell biomechanics.

Significance: This is a key finding, which raises the following question; are technologies that use size and deformability as a criteria to enrich Circulating Tumor Cells (CTCs) are inherently biased towards missing cells with high metastatic propensity?


Saturday, December 22, 2012

Published CTC patents and patent applications

A list of all relevant patents for "rare cells from fluid" can be found here

http://www.patentfish.com/rare-cells-from-fluid

=======================================================================


http://www.google.com/patents/US7863012
http://www.google.com/patents/EP1425294B1?cl=en
http://www.google.com.sg/patents/EP1597353A2?cl=en
http://www.google.com.sg/patents/US8329422

Technology: EpCAM based enrichment using magnetic beads
Abstract:
The methods and reagents described in this invention are used to analyze circulating tumor cells, clusters, fragments, and debris. Analysis is performed with a number of platforms, including flow cytometry and the CellSpotter® fluorescent microscopy imaging system. Analyzing damaged cells has shown to be important. However, there are two sources of damage: in vivo and in vitro. Damage in vivo occurs by apoptosis, necrosis, or immune response. Damage in vitro occurs during sample acquisition, handling, transport, processing, or analysis. It is therefore desirable to confine, reduce, eliminate, or at least qualify in vitro damage to prevent it from interfering in analysis. Described herein are methods to diagnose, monitor, and screen disease based on circulating rare cells, including malignancy as determined by CTC, clusters, fragments, and debris. Also provided are kits for assaying biological specimens using these methods.
(Company:  Veridex LLC)
========================================================================

http://www.google.com.sg/patents/EP2229441A2?cl=en

Technology: EpCAM based moagentic beads
Abstract:
Described here is an automated robotic device that isolates circulating tumor cells (CTCs) or other biological structures with extremely high purity. The device uses powerful magnetic rods covered in removable plastic sleeves. These rods sweep through blood samples, capturing, e.g., cancer cells labeled with antibodies linked to magnetically responsive particles such as superparamagnetic beads. Upon completion of the capturing protocol, the magnetic rods undergo several rounds of washing, thereby removing all contaminating blood cells. The captured target cells are released into a final capture solution by removing the magnetic rods from the sleeves. Additionally, cells captured by this device show no reduced viability when cultured after capture. Cells are captured in a state suitable for genetic analysis. Also disclosed are methods for single cell analysis. Being robotic allows the device to be operated with high throughput.
(Company:  Magsweeper)
========================================================================

http://www.google.com.sg/patents/EP1984030A4?cl=en

Technology: HD CTC technology
Abstract:
Methods are provided for detecting circulating tumor cells in a mammalian subject. Methods of diagnosing cancer in a mammalian subject are provided. The methods of detection or diagnosis indicate the presence of metastatic cancer or early stage cancer.
(Company:  Scripps institute (EPIC Sciences))
========================================================================
http://www.google.com.sg/patents/EP1874920A2?cl=en


Technology:
Abstract:
The invention features devices and methods for detecting, enriching, and analyzing circulating tumor cells and other particles. The invention further features methods of diagnosing a condition, e.g., cancer, in a subject by analyzing a cellular sample from the subject.
(Company:  CellPoint diagnostics)
========================================================================
http://www.google.com.sg/patents/US20110294186
Technology:
Abstract:
The invention features devices and methods for detecting, enriching, and analyzing circulating tumor cells and other particles. The invention further features methods of diagnosing a condition, e.g., cancer, in a subject by analyzing a cellular sample from the subject.
(Company:  On-Q-ity)
========================================================================

http://www.google.com.sg/patents/US7993821
http://www.google.com.sg/patents/US20120178097

Technology:
Abstract:
Embodiments in accordance with the present invention relate to methods and apparatuses for concentrating and isolating Circulating Tumor Cells (CTCs) from body fluids. One embodiment of the present invention includes a micro-fabricated or nano-fabricated device having channels configured for separating and excluding. Embodiments in accordance with the present invention utilize features that reduce the hydrodynamic pressure experienced by the cells during the separation, isolation and concentration processes, and therefore reduce the likelihood of cell lysis or other damage to the cells..
(Company:  Daniel Chiu, U Washington)
========================================================================
http://www.google.com.sg/patents/US20120100521

Technology:
Abstract:
Microdevices are disclosed to efficiently, accurately, and rapidly isolate and enumerate rare cells, such as circulating tumor cells, from liquids such as whole blood. The system employs multiple parallel meandering channels having a width on the order of 1-2 cell diameters. The microdevices can be produced at low-cost, may readily be automated, and in many instances may be used without pre-processing of the sample. They may be used to isolate and enumerate rare cells, including for example the detection and diagnosis of cancers, cancer staging, or evaluating the effectiveness of a therapeutic intervention, or detecting pathogenic bacteria. The device may optionally be used to nondestructively capture and later to release target cells.
(Company:  Steven Soper, Biofluidica)
========================================================================
http://www.google.com/patents/EP2201361B1?cl=en

Technology: multiple antibodies on magnetic beads
Abstract:The present invention relates to the detection of tumor stem cells and tumor cells in epithelial-mesenchymal transition and uses of such methods. According to the present invention said method comprises a selecting step for selection or enrichment of said predetermined cells from the sample wherein the sample is contacted with the solid surface for preferential binding of said predetermined cells to the solid surface and then the sample is removed from the solid surface in a washing step. The inventive method is characterized in that the sample contains a polyol at least during one of contacting the sample with the solid surface and the washing step and in a detection step detecting in said cells, preferentially selected or enriched by said selecting step, the presence or absence of expression of at least one marker associated with at least one of the group comprising tumor stem cells and tumor cells in epithelial-mesenchymal transition.
(Company:  Adnagen)
========================================================================

http://www.google.com/patents/US7846393

Technology: 3D parylene membrane filter for isolation of CTC
Abstract:
The present invention provides a parylene-based membrane filter device for capturing of circulating tumor cells (CTC). The membrane filter has an array of holes having a predetermined geometric design with precisely controlled size, shape and density. In one aspect, the device has a stack of substantially parallel membrane filters with uniformly-spaced and/or monodispersed holes.
(Company:  Filtini)
========================================================================

http://www.google.com.sg/patents/US8088715

Technology: automated microscope
Abstract:
An automated, highly sensitive, specific and potentially quantitative detection method using an automated microscope for identifying and enumerating rare cancer cells in blood and other fluids.
(Company:  Ikonisys)

========================================================================
http://www.google.com/patents/US6949355
http://www.google.com.sg/patents/EP2041299A2?cl=en

Technology: negative enrichment of CTCs
Abstract:
The invention provides methods and compositions for isolating and detecting rare cells from a sample containing other types of cells. In particular, the invention includes a debulking step that can use a microfabricated filter or a cell lysis step or density-based methods to remove certain types of cells, and immobilization methods to remove other types of cells. The invention also includes a method for determining the number or proportion of cancer cells in a biological sample by detecting the presence or amount of telomerase activity or telomerase nucleic acid or telomerase expression after enrichment of rare cells. This invention further provides an efficient and rapid method to specifically remove red blood cells as well as white blood cells from a biological sample, resulting in the enrichment of rare target cells. The presence or level of target cells provides information about various physiological conditions, such as cancer
(Company:  Aviva Biosciences)


========================================================================
http://www.google.com.sg/patents/US20070026413

Technology: microposts coated with EpCAM
Abstract:
The invention features devices and methods for detecting, enriching, and analyzing circulating tumor cells and other particles. The invention further features methods of diagnosing a condition, e.g., cancer, in a subject by analyzing a cellular sample from the subject.
(Company:  Mehmet Toner, Harvard)
========================================================================

http://www.google.com.sg/patents/US20070026419

Technology: Materal displacement obstacle chip
Abstract:
The invention features devices and methods for detecting, enriching, and analyzing circulating tumor cells and other particles. The invention further features methods of diagnosing a condition, e.g., cancer, in a subject by analyzing a cellular sample from the subject.
(Company:  Martin Fuchs, Cellective Dx)
========================================================================

http://www.google.com/patents/US8263404
Technology: RBC agglutination followed by filtration
Abstract:
An antigen-dependent negative selection blood cell separation method is described. Rare circulating epithelial cells can be separated from blood by depleting erythrocytes from a blood sample. Erythrocytes are depleted by agglutination. The new method comprises the use of an agglutinating agent, such as an anti-glycophorin A or glycophorin B antibody, as glycophorin A or B are present on erythrocytes and not on the desired epithelial cells. With regular mixing, desired rare circulating epithelial cells do not become entrapped in the red cell agglutinate.

(Company:  Medical Discovery partners)

========================================================================

http://www.google.com.sg/patents/US20120100560
Technology: anti-body coated microfluidic chip and quantum dots-based imagingi
Abstract:
Applications in nanomedicine, such as diagnostics and targeted therapeutics, rely on the detection and targeting of membrane biomarkers. The present invention, in one embodiment, utilizes quantitative profiling, spatial mapping, and multiplexing of cancer biomarkers using functionalized quantum dots. This approach provides highly selective targeting molecular markers for pancreatic cancer with extremely low levels of non-specific binding and provides quantitative spatial information of biomarker distribution on a single cell, which is important since tumors cell populations are inherently heterogeneous. The quantitative measurements (number of molecules per square micron) is validated using flow cytometry and demonstrated using multiplexed quantitative profiling using color-coded quantum dots.


(Company:  johns Hopkins university)

========================================================================

http://www.google.com/patents/US8263404
Technology: RBC agglutination followed by filtration
Abstract:
An antigen-dependent negative selection blood cell separation method is described. Rare circulating epithelial cells can be separated from blood by depleting erythrocytes from a blood sample. Erythrocytes are depleted by agglutination. The new method comprises the use of an agglutinating agent, such as an anti-glycophorin A or glycophorin B antibody, as glycophorin A or B are present on erythrocytes and not on the desired epithelial cells. With regular mixing, desired rare circulating epithelial cells do not become entrapped in the red cell agglutinate.
(Company:  Medical Discovery partners)
========================================================================

WO2010/144745 A2
http://www.sumobrain.com/patents/wipo/Sheath-flow-devices-methods/WO2010144745.html
Technology: Microfluidic cheath flow for cell isolation
Abstract: The invention relates generally to fluid processing and, in particular aspects, processing fluids for detection, selection, trapping and/or sorting of particulate moieties. Sheath flow devices described allow isolation of target species from fluid samples while avoiding non-specific binding of unwanted species to the surfaces of the separation device. Biological fluid processing, detection, sorting or selection of cells, proteins, and nucleic acids is described. The invention finds particular use in diagnostic settings, analyzing a patient's medical condition, monitoring and/or adjusting a therapeutic regimen and producing cell based products
 (Company: Cynvenio Biosystems)
========================================================================

   US2011/0070642 A1
http://www.patentlens.net/patentlens/patents.html?patnums=US_2011_0070642_A1&language=&

Abstract: A device for isolating and cultivating live cells on a filter or for extracting the genetic material thereof includes: a filter holder (108) connected to a filter; a compartment (102) having an upper opening and a lower opening; and an element (110) that is mobile relative to the compartment for applying a force on the holder and releasing the holder. According to the embodiments, the filter holder is mechanically connected to the compartment or to the mobile element until the application of the force. Preferably, the device further includes a removable end piece (104) tightly and removably attached and adapted for preventing the relative movement of the mobile element and the compartment for applying the force and releasing the holder.
(Assignee: ScreenCell)
========================================================================

20120258475 

Abstract: A microflow apparatus for separating or isolating cells from a bodily fluid or other liquid sample uses a flow path where straight-line flow is interrupted by a pattern of transverse posts. The posts are spaced across the width of a collection region in the flow path, extending between the upper and lower surfaces thereof; they have rectilinear surfaces, have arcuate cross-sections, and are randomly arranged so as to disrupt streamlined flow. Sequestering agents, such as Abs, are attached to all surfaces in the collection region via a hydrophilic coating, preferably a hydrogel containing isocyanate moieties or a PEG or polyglycine of substantial length, and are highly effective in capturing cells or other targeted biomolecules as a result of such streamlined flow disruption.
(Assignee: Biocept)
========================================================================