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Kashyap R, Boro PR, Yasmin R, Nath J, Sonowal D, Doley R, Mondal B. Multiple protein-patterned surface plasmon resonance biochip for the detection of human immunoglobulin-G. JOURNAL OF BIOPHOTONICS 2023; 16:e202200263. [PMID: 36683194 DOI: 10.1002/jbio.202200263] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/23/2022] [Revised: 11/18/2022] [Accepted: 01/02/2023] [Indexed: 05/17/2023]
Abstract
A portable surface plasmon resonance (SPR) measurement prototype integrated with a multiple protein-patterned SPR biochip is introduced for label-free and selective detection of human immunoglobulin-G (H-IgG). The polyclonal anti-H-IgG antibodies derived from goat, rabbit, and mouse were immobilized through polydimethylsiloxane (PDMS) microchannels to fabricate the patterned SPR biochip. The PDMS surface was functionalized using 3-aminopropyltrimethoxysilane and bonded to carbodiimide-activated gold substrates to construct irreversibly bonded hydrophilic microfluidic chip at room temperature. For SPR measurement, a custom-made system is developed with a high angular scanning accuracy of 0.005° and a wide scanning range of 30°-80° that avoids the conventional requirement of expensive goniometric stages and detector arrays. The SPR biochip immobilized with 750 μg/mL goat anti-H-IgG demonstrated detection of H-IgG with a detection limits of 15 μg/mL, and linear response through a wide concentration range (15-225 μg/mL) of high coefficient of determination (R2 = 0.99661). The selectivity of the sensor was investigated by exposing them to two different non-specific targets (bovine serum albumin and polyvalent antivenom). The results indicate negligible sensor response towards nonspecific targets (0.25° for 30 μg/mL bovine serum albumin (BSA) and 0.25° for 30 μg/mL polyvalent antivenom) in comparison to H-IgG (1.5° for 30 μg/mL).
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Affiliation(s)
- Ritayan Kashyap
- Department of Electronics and Communication Engineering, Tezpur University, Tezpur, Assam, India
| | - Pearleshwari Rani Boro
- Department of Electronics and Communication Engineering, Tezpur University, Tezpur, Assam, India
| | - Rafika Yasmin
- Department of Molecular Biology and Biotechnology, Tezpur University, Tezpur, Assam, India
| | - Jugabrat Nath
- Department of Electronics and Communication Engineering, Tezpur University, Tezpur, Assam, India
| | - Durlav Sonowal
- Department of Electronics and Communication Engineering, Tezpur University, Tezpur, Assam, India
| | - Robin Doley
- Department of Molecular Biology and Biotechnology, Tezpur University, Tezpur, Assam, India
| | - Biplob Mondal
- Department of Electronics and Communication Engineering, Tezpur University, Tezpur, Assam, India
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2
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Kärcher J, Schulze B, Dörr A, Tierling S, Walter J. Transfer of blocker-based qPCR reactions for DNA methylation analysis into a microfluidic LoC system using thermal modeling. BIOMICROFLUIDICS 2022; 16:064102. [PMID: 36506005 PMCID: PMC9729016 DOI: 10.1063/5.0108374] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/08/2022] [Accepted: 11/11/2022] [Indexed: 06/17/2023]
Abstract
Changes in the DNA methylation landscape are associated with many diseases like cancer. Therefore, DNA methylation analysis is of great interest for molecular diagnostics and can be applied, e.g., for minimally invasive diagnostics in liquid biopsy samples like blood plasma. Sensitive detection of local de novo methylation, which occurs in various cancer types, can be achieved with quantitative HeavyMethyl-PCR using oligonucleotides that block the amplification of unmethylated DNA. A transfer of these quantitative PCRs (qPCRs) into point-of-care (PoC) devices like microfluidic Lab-on-Chip (LoC) cartridges can be challenging as LoC systems show significantly different thermal properties than qPCR cyclers. We demonstrate how an adequate thermal model of the specific LoC system can help us to identify a suitable thermal profile, even for complex HeavyMethyl qPCRs, with reduced experimental effort. Using a simulation-based approach, we demonstrate a proof-of-principle for the successful LoC transfer of colorectal SEPT9/ACTB-qPCR from Epi Procolon® colorectal carcinoma test, by avoidance of oligonucleotide interactions.
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Affiliation(s)
- Janik Kärcher
- Robert Bosch GmbH, Corporate Research, Robert Bosch Campus 1, 71272 Renninge, Germany
| | - Britta Schulze
- Robert Bosch GmbH, Corporate Research, Robert Bosch Campus 1, 71272 Renninge, Germany
| | - Aaron Dörr
- Robert Bosch GmbH, Corporate Research, Robert Bosch Campus 1, 71272 Renninge, Germany
| | - Sascha Tierling
- University of Saarland, Institute for Genetics and Epigenetics, Campus Saarbrücken, 66123 Saarbrücken, Germany
| | - Jörn Walter
- University of Saarland, Institute for Genetics and Epigenetics, Campus Saarbrücken, 66123 Saarbrücken, Germany
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3
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Andriukaitis D, Vargalis R, Šerpytis L, Drevinskas T, Kornyšova O, Stankevičius M, Bimbiraitė-Survilienė K, Kaškonienė V, Maruškas AS, Jonušauskas L. Fabrication of Microfluidic Tesla Valve Employing Femtosecond Bursts. MICROMACHINES 2022; 13:mi13081180. [PMID: 35893178 PMCID: PMC9332475 DOI: 10.3390/mi13081180] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/10/2022] [Revised: 07/13/2022] [Accepted: 07/17/2022] [Indexed: 11/16/2022]
Abstract
Expansion of the microfluidics field dictates the necessity to constantly improve technologies used to produce such systems. One of the approaches which are used more and more is femtosecond (fs) direct laser writing (DLW). The subtractive model of DLW allows for directly producing microfluidic channels via ablation in an extremely simple and cost-effective manner. However, channel surface roughens are always a concern when direct fs ablation is used, as it normally yields an RMS value in the range of a few µm. One solution to improve it is the usage of fs bursts. Thus, in this work, we show how fs burst mode ablation can be optimized to achieve sub-µm surface roughness in glass channel fabrication. It is done without compromising on manufacturing throughput. Furthermore, we show that a simple and cost-effective channel sealing methodology of thermal bonding can be employed. Together, it allows for production functional Tesla valves, which are tested. Demonstrated capabilities are discussed.
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Affiliation(s)
- Deividas Andriukaitis
- Femtika Ltd., Saulėtekio Ave. 15, LT-10224 Vilnius, Lithuania; (D.A.); (R.V.); (L.J.)
- Laser Research Center, Vilnius University, Saulėtekio Ave. 10, LT-10223 Vilnius, Lithuania
| | - Rokas Vargalis
- Femtika Ltd., Saulėtekio Ave. 15, LT-10224 Vilnius, Lithuania; (D.A.); (R.V.); (L.J.)
| | - Lukas Šerpytis
- Institute of Chemistry, Vilnius University, Naugarduko 24, LT-03225 Vilnius, Lithuania;
| | - Tomas Drevinskas
- Instrumental Analysis Open Access Centre, Vytautas Magnus University, Vileikos 8, LT-44404 Kaunas, Lithuania; (T.D.); (O.K.); (M.S.); (K.B.-S.); (V.K.)
| | - Olga Kornyšova
- Instrumental Analysis Open Access Centre, Vytautas Magnus University, Vileikos 8, LT-44404 Kaunas, Lithuania; (T.D.); (O.K.); (M.S.); (K.B.-S.); (V.K.)
| | - Mantas Stankevičius
- Instrumental Analysis Open Access Centre, Vytautas Magnus University, Vileikos 8, LT-44404 Kaunas, Lithuania; (T.D.); (O.K.); (M.S.); (K.B.-S.); (V.K.)
| | - Kristina Bimbiraitė-Survilienė
- Instrumental Analysis Open Access Centre, Vytautas Magnus University, Vileikos 8, LT-44404 Kaunas, Lithuania; (T.D.); (O.K.); (M.S.); (K.B.-S.); (V.K.)
| | - Vilma Kaškonienė
- Instrumental Analysis Open Access Centre, Vytautas Magnus University, Vileikos 8, LT-44404 Kaunas, Lithuania; (T.D.); (O.K.); (M.S.); (K.B.-S.); (V.K.)
| | - Audrius Sigitas Maruškas
- Instrumental Analysis Open Access Centre, Vytautas Magnus University, Vileikos 8, LT-44404 Kaunas, Lithuania; (T.D.); (O.K.); (M.S.); (K.B.-S.); (V.K.)
- Correspondence:
| | - Linas Jonušauskas
- Femtika Ltd., Saulėtekio Ave. 15, LT-10224 Vilnius, Lithuania; (D.A.); (R.V.); (L.J.)
- Laser Research Center, Vilnius University, Saulėtekio Ave. 10, LT-10223 Vilnius, Lithuania
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4
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5
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Iliescu FS, Poenar DP, Yu F, Ni M, Chan KH, Cima I, Taylor HK, Cima I, Iliescu C. Recent advances in microfluidic methods in cancer liquid biopsy. BIOMICROFLUIDICS 2019; 13:041503. [PMID: 31431816 PMCID: PMC6697033 DOI: 10.1063/1.5087690] [Citation(s) in RCA: 33] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/03/2019] [Accepted: 06/24/2019] [Indexed: 05/04/2023]
Abstract
Early cancer detection, its monitoring, and therapeutical prediction are highly valuable, though extremely challenging targets in oncology. Significant progress has been made recently, resulting in a group of devices and techniques that are now capable of successfully detecting, interpreting, and monitoring cancer biomarkers in body fluids. Precise information about malignancies can be obtained from liquid biopsies by isolating and analyzing circulating tumor cells (CTCs) or nucleic acids, tumor-derived vesicles or proteins, and metabolites. The current work provides a general overview of the latest on-chip technological developments for cancer liquid biopsy. Current challenges for their translation and their application in various clinical settings are discussed. Microfluidic solutions for each set of biomarkers are compared, and a global overview of the major trends and ongoing research challenges is given. A detailed analysis of the microfluidic isolation of CTCs with recent efforts that aimed at increasing purity and capture efficiency is provided as well. Although CTCs have been the focus of a vast microfluidic research effort as the key element for obtaining relevant information, important clinical insights can also be achieved from alternative biomarkers, such as classical protein biomarkers, exosomes, or circulating-free nucleic acids. Finally, while most work has been devoted to the analysis of blood-based biomarkers, we highlight the less explored potential of urine as an ideal source of molecular cancer biomarkers for point-of-care lab-on-chip devices.
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Affiliation(s)
- Florina S. Iliescu
- School of Applied Science, Republic Polytechnic, Singapore 738964, Singapore
| | - Daniel P. Poenar
- VALENS-Centre for Bio Devices and Signal Analysis, School of EEE, Nanyang Technological University, Singapore 639798, Singapore
| | - Fang Yu
- Singapore Institute of Manufacturing Technology, A*STAR, Singapore 138634, Singapore
| | - Ming Ni
- School of Biological Sciences and Engineering, Yachay Technological University, San Miguel de Urcuquí 100105, Ecuador
| | - Kiat Hwa Chan
- Division of Science, Yale-NUS College, Singapore 138527, Singapore
| | | | - Hayden K. Taylor
- Department of Mechanical Engineering, University of California, Berkeley, California 94720, USA
| | - Igor Cima
- DKFZ-Division of Translational Oncology/Neurooncology, German Cancer Consortium (DKTK), Heidelberg and University Hospital Essen, Essen 45147, Germany
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6
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Wang J, Yan Y, Geng Y, Gan Y, Fang Z. Fabrication of polydimethylsiloxane nanofluidic chips under AFM tip-based nanomilling process. NANOSCALE RESEARCH LETTERS 2019; 14:136. [PMID: 30997583 PMCID: PMC6470239 DOI: 10.1186/s11671-019-2962-6] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/26/2018] [Accepted: 04/01/2019] [Indexed: 05/03/2023]
Abstract
In current research realm, polydimethylsiloxane (PDMS)-based nanofluidic devices are widely used in medical, chemical, and biological applications. In the present paper, a novel nanomilling technique (consisting of an AFM system and a piezoelectric actuator) was proposed to fabricate nanochannels (with controllable sizes) on PDMS chips, and nanochannel size was controlled by the driving voltage and frequency inputted to the piezoelectric actuator. Moreover, microchannel and nanochannel molds were respectively fabricated by UV lithography and AFM tip-based nanomilling, and finally, PDMS slabs with micro/nanochannels were obtained by transfer process. The influences of PDMS weight ratio on nanochannel size were also investigated. The bonding process of microchannel and nanochannel slabs was conducted on a homemade alignment system consisted of an optical monocular microscope and precision stages. Furthermore, the effects of nanochannel size on electrical characteristics of KCl solution (concentration of 1 mM) were analyzed. Therefore, it can be concluded that PDMS nanofluidic devices with multiple nanochannels of sub-100-nm depth can be efficiently and economically fabricated by the proposed method.
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Affiliation(s)
- Jiqiang Wang
- Key Laboratory of Micro-systems and Micro-structures Manufacturing of Ministry of Education, Harbin Institute of Technology, Harbin, 150001 Heilongjiang People’s Republic of China
- Center for Precision Engineering, Harbin Institute of Technology, Harbin, 150001 Heilongjiang People’s Republic of China
| | - Yongda Yan
- Key Laboratory of Micro-systems and Micro-structures Manufacturing of Ministry of Education, Harbin Institute of Technology, Harbin, 150001 Heilongjiang People’s Republic of China
- Center for Precision Engineering, Harbin Institute of Technology, Harbin, 150001 Heilongjiang People’s Republic of China
| | - Yanquan Geng
- Key Laboratory of Micro-systems and Micro-structures Manufacturing of Ministry of Education, Harbin Institute of Technology, Harbin, 150001 Heilongjiang People’s Republic of China
- Center for Precision Engineering, Harbin Institute of Technology, Harbin, 150001 Heilongjiang People’s Republic of China
- School of Chemistry and Chemical Engineering, Harbin Institute of Technology, Harbin, 150001 People’s Republic of China
| | - Yang Gan
- School of Chemistry and Chemical Engineering, Harbin Institute of Technology, Harbin, 150001 People’s Republic of China
| | - Zhuo Fang
- Center for Precision Engineering, Harbin Institute of Technology, Harbin, 150001 Heilongjiang People’s Republic of China
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7
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Paper-Based Microfluidics for Point-of-Care Medical Diagnostics. Bioanalysis 2019. [DOI: 10.1007/978-981-13-6229-3_13] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022] Open
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8
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Gong H, Woolley AT, Nordin GP. 3D printed selectable dilution mixer pumps. BIOMICROFLUIDICS 2019; 13:014106. [PMID: 30766649 PMCID: PMC6353643 DOI: 10.1063/1.5070068] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/18/2018] [Accepted: 01/16/2019] [Indexed: 05/03/2023]
Abstract
In this paper, we demonstrate the ability to 3D print tightly integrated structures with active valves, pumps, and mixers, and we use our compact chip-to-chip interconnects [Gong et al., Lab Chip 18, 639-647 (2018)] to move bulky world-to-chip connections to separate interface chips for both post-print flushing and post-cure device operation. As example devices, we first examine 3D printed pumps, followed by two types of selectable ratio mixer pumps, a linear dilution mixer pump (LDMP) and a parallelized dilution mixer pump (PDMP), which occupy volumes of only 1.5 mm 3 and 2.6 mm 3 , respectively. The LDMP generates a selectable dilution ratio from a linear set of possibilities, while the PDMP generates a denser set of possible dilutions with a maximum dilution ratio of 1/16. The PDMP also incorporates a new 4-to-1 valve to simultaneously control 4 inlet channels. To characterize LDMP and PDMP operation and performance, we present a new, low-cost video method to directly measure the relative concentration of an absorptive dye on a pixel-by-pixel basis for each video frame. Using this method, we find that 6 periods of the active mixer that forms the core of the LDMP and PDMP are sufficient to fully mix the fluid, and that the generated concentrations track the designed dilution ratios as expected. The LDMP mixes 20 nl per 4.6 s mixer pump period, while the PDMP uses parallelized input pumps to process the same fluid volume with greater choice of dilution ratios in a 3.6 s period.
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Affiliation(s)
- Hua Gong
- Electrical and Computer Engineering Department, Brigham Young University, Provo, Utah 84602, USA
| | - Adam T Woolley
- Chemistry and Biochemistry Department, Brigham Young University, Provo, Utah 84602, USA
| | - Gregory P Nordin
- Electrical and Computer Engineering Department, Brigham Young University, Provo, Utah 84602, USA
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9
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Microfluidic Technologies and Platforms for Protein Crystallography. Bioanalysis 2019. [DOI: 10.1007/978-981-13-6229-3_2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022] Open
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10
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Povedano E, Vargas E, Montiel VRV, Torrente-Rodríguez RM, Pedrero M, Barderas R, Segundo-Acosta PS, Peláez-García A, Mendiola M, Hardisson D, Campuzano S, Pingarrón JM. Electrochemical affinity biosensors for fast detection of gene-specific methylations with no need for bisulfite and amplification treatments. Sci Rep 2018; 8:6418. [PMID: 29686400 PMCID: PMC5913137 DOI: 10.1038/s41598-018-24902-1] [Citation(s) in RCA: 52] [Impact Index Per Article: 8.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/26/2018] [Accepted: 04/11/2018] [Indexed: 12/11/2022] Open
Abstract
This paper describes two different electrochemical affinity biosensing approaches for the simple, fast and bisulfite and PCR-free quantification of 5-methylated cytosines (5-mC) in DNA using the anti-5-mC antibody as biorecognition element. One of the biosensing approaches used the anti-5-mC as capture bioreceptor and a sandwich type immunoassay, while the other one involved the use of a specific DNA probe and the anti-5-mC as a detector bioreceptor of the captured methylated DNA. Both strategies, named for simplicity in the text as immunosensor and DNA sensor, respectively, were implemented on the surface of magnetic microparticles and the transduction was accomplished by amperometry at screen-printed carbon electrodes by means of the hydrogen peroxide/hydroquinone system. The resulting amperometric biosensors demonstrated reproducibility throughout the entire protocol, sensitive determination with no need for using amplification strategies, and competitiveness with the conventional enzyme-linked immunosorbent assay methodology and the few electrochemical biosensors reported so far in terms of simplicity, sensitivity and assay time. The DNA sensor exhibited higher sensitivity and allowed the detection of the gene-specific methylations conversely to the immunosensor, which detected global DNA methylation. In addition, the DNA sensor demonstrated successful applicability for 1 h-analysis of specific methylation in two relevant tumor suppressor genes in spiked biological fluids and in genomic DNA extracted from human glioblastoma cells.
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Affiliation(s)
- Eloy Povedano
- Departamento de Química Analítica, Facultad de CC. Químicas, Universidad Complutense de Madrid, E-28040, Madrid, Spain
| | - Eva Vargas
- Departamento de Química Analítica, Facultad de CC. Químicas, Universidad Complutense de Madrid, E-28040, Madrid, Spain
| | | | - Rebeca M Torrente-Rodríguez
- Departamento de Química Analítica, Facultad de CC. Químicas, Universidad Complutense de Madrid, E-28040, Madrid, Spain
| | - María Pedrero
- Departamento de Química Analítica, Facultad de CC. Químicas, Universidad Complutense de Madrid, E-28040, Madrid, Spain
| | - Rodrigo Barderas
- Unidad Funcional de Investigación de Enfermedades Crónicas, Instituto de Salud Carlos III, 28220, Majadahonda, Madrid, Spain
| | - Pablo San Segundo-Acosta
- Unidad Funcional de Investigación de Enfermedades Crónicas, Instituto de Salud Carlos III, 28220, Majadahonda, Madrid, Spain
| | - Alberto Peláez-García
- Department of Pathology, Molecular Pathology and Therapeutic Targets Group, Hospital Universitario La Paz IdiPAZ, Madrid, Spain
| | - Marta Mendiola
- Molecular Pathology and Therapeutic Targets Group and Molecular Pathology Section, INGEMM, Hospital Universitario La Paz IdiPAZ, Madrid, Spain
| | - David Hardisson
- Department of Pathology, Molecular Pathology and Therapeutic Targets Group, Hospital Universitario La Paz IdiPAZ, Madrid, Spain.,Facultad de Medicina, Universidad Autonoma de Madrid, Madrid, Spain
| | - Susana Campuzano
- Departamento de Química Analítica, Facultad de CC. Químicas, Universidad Complutense de Madrid, E-28040, Madrid, Spain.
| | - José M Pingarrón
- Departamento de Química Analítica, Facultad de CC. Químicas, Universidad Complutense de Madrid, E-28040, Madrid, Spain.
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11
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Advances in microfluidics for lipid nanoparticles and extracellular vesicles and applications in drug delivery systems. Adv Drug Deliv Rev 2018; 128:84-100. [PMID: 29567396 DOI: 10.1016/j.addr.2018.03.008] [Citation(s) in RCA: 173] [Impact Index Per Article: 28.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/17/2017] [Revised: 03/15/2018] [Accepted: 03/16/2018] [Indexed: 02/06/2023]
Abstract
Lipid-based nanobiomaterials as liposomes and lipid nanoparticles (LNPs) are the most widely used nanocarriers for drug delivery systems (DDSs). Extracellular vesicles (EVs) and exosomes are also expected to be applied as DDS nanocarriers. The performance of nanomedicines relies on their components such as lipids, targeting ligands, encapsulated DNA, encapsulated RNA, and drugs. Recently, the importance of the nanocarrier sizes smaller than 100nm is attracting attention as a means to improve nanomedicine performance. Microfluidics and lab-on-a chip technologies make it possible to produce size-controlled LNPs by a simple continuous flow process and to separate EVs from blood samples by using a surface marker, ligand, or electric charge or by making a mass or particle size discrimination. Here, we overview recent advances in microfluidic devices and techniques for liposomes, LNPs, and EVs and their applications for DDSs.
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12
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Liu FW, Liao HF, Lin SP, Lu YW. DNA methylation assay using droplet-based DNA melting curve analysis. LAB ON A CHIP 2018; 18:514-521. [PMID: 29327010 DOI: 10.1039/c7lc01240c] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/07/2023]
Abstract
DNA methylation is an epigenetic regulation of gene expression, which has drawn great attention in biomedical research due to its association with various diseases. A robust, inexpensive platform to detect and quantify the methylation status in a specific genomic region is necessary. In this study, an on-chip analytical technique of cytosine methylation with droplets in a microchannel is proposed. Genomic DNA samples are encapsulated into a series of droplets and transported through a detection region, where a stable temperature gradient is created. As the temperature is elevated from 60 °C to 85 °C, the DNA samples denature and the associated fluorescence signals decay, with the relationship being acquired as the melting curve. The droplets serve as discrete reactors for conducting DNA melting curve analysis in the liquid phase, thereby eliminating the need for immobilization of reagents. Due to a high heating rate and greater enhanced thermal stability, this microchip allows larger melting temperature differences for the samples at different percentages of methylated DNA. It has an enhanced discrimination ability and lower volume consumption, compared to the commercial qPCR machine. This chip enables quantification of the methylation levels of the pluripotent stem cell factor Oct-4 in its distal enhancer (DE) region, with a designed probe after bisulfite treatment and asymmetric PCR.
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Affiliation(s)
- F-W Liu
- Dept. of Bio-Industrial Mechatronics Engineering, National Taiwan University, Taipei, Taiwan, ROC.
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13
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Campuzano S, Pingarrón JM. Electrochemical Sensing of Cancer-related Global and Locus-specific DNA Methylation Events. ELECTROANAL 2018. [DOI: 10.1002/elan.201800004] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
Affiliation(s)
- Susana Campuzano
- Departamento de Química Analítica, Facultad de CC. Químicas; Universidad Complutense de Madrid; E-28040 Madrid Spain
| | - José M. Pingarrón
- Departamento de Química Analítica, Facultad de CC. Químicas; Universidad Complutense de Madrid; E-28040 Madrid Spain
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14
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Abstract
Small-molecule drug discovery can be viewed as a challenging multidimensional problem in which various characteristics of compounds - including efficacy, pharmacokinetics and safety - need to be optimized in parallel to provide drug candidates. Recent advances in areas such as microfluidics-assisted chemical synthesis and biological testing, as well as artificial intelligence systems that improve a design hypothesis through feedback analysis, are now providing a basis for the introduction of greater automation into aspects of this process. This could potentially accelerate time frames for compound discovery and optimization and enable more effective searches of chemical space. However, such approaches also raise considerable conceptual, technical and organizational challenges, as well as scepticism about the current hype around them. This article aims to identify the approaches and technologies that could be implemented robustly by medicinal chemists in the near future and to critically analyse the opportunities and challenges for their more widespread application.
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15
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Kurita R, Yanagisawa H, Kamata T, Kato D, Niwa O. On-Chip Evaluation of DNA Methylation with Electrochemical Combined Bisulfite Restriction Analysis Utilizing a Carbon Film Containing a Nanocrystalline Structure. Anal Chem 2017; 89:5976-5982. [DOI: 10.1021/acs.analchem.7b00533] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Affiliation(s)
- Ryoji Kurita
- Biomedical Research Institute,
National
Institute of Advanced Industrial Science and Technology (AIST) and
DAILAB, Tsukuba Central 6, 1-1-1 Higashi, Tsukuba, Ibaraki, Japan 305-8566
| | - Hiroyuki Yanagisawa
- Biomedical Research Institute,
National
Institute of Advanced Industrial Science and Technology (AIST) and
DAILAB, Tsukuba Central 6, 1-1-1 Higashi, Tsukuba, Ibaraki, Japan 305-8566
| | - Tomoyuki Kamata
- Biomedical Research Institute,
National
Institute of Advanced Industrial Science and Technology (AIST) and
DAILAB, Tsukuba Central 6, 1-1-1 Higashi, Tsukuba, Ibaraki, Japan 305-8566
| | - Dai Kato
- Biomedical Research Institute,
National
Institute of Advanced Industrial Science and Technology (AIST) and
DAILAB, Tsukuba Central 6, 1-1-1 Higashi, Tsukuba, Ibaraki, Japan 305-8566
| | - Osamu Niwa
- Biomedical Research Institute,
National
Institute of Advanced Industrial Science and Technology (AIST) and
DAILAB, Tsukuba Central 6, 1-1-1 Higashi, Tsukuba, Ibaraki, Japan 305-8566
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16
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Ma S, Murphy TW, Lu C. Microfluidics for genome-wide studies involving next generation sequencing. BIOMICROFLUIDICS 2017; 11:021501. [PMID: 28396707 PMCID: PMC5346105 DOI: 10.1063/1.4978426] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/06/2017] [Accepted: 02/16/2017] [Indexed: 05/11/2023]
Abstract
Next-generation sequencing (NGS) has revolutionized how molecular biology studies are conducted. Its decreasing cost and increasing throughput permit profiling of genomic, transcriptomic, and epigenomic features for a wide range of applications. Microfluidics has been proven to be highly complementary to NGS technology with its unique capabilities for handling small volumes of samples and providing platforms for automation, integration, and multiplexing. In this article, we review recent progress on applying microfluidics to facilitate genome-wide studies. We emphasize on several technical aspects of NGS and how they benefit from coupling with microfluidic technology. We also summarize recent efforts on developing microfluidic technology for genomic, transcriptomic, and epigenomic studies, with emphasis on single cell analysis. We envision rapid growth in these directions, driven by the needs for testing scarce primary cell samples from patients in the context of precision medicine.
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Affiliation(s)
- Sai Ma
- Department of Biomedical Engineering and Mechanics, Virginia Tech , Blacksburg, Virginia 24061, USA
| | - Travis W Murphy
- Department of Chemical Engineering, Virginia Tech , Blacksburg, Virginia 24061, USA
| | - Chang Lu
- Department of Chemical Engineering, Virginia Tech , Blacksburg, Virginia 24061, USA
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