Name: counting proteins in single cells with addressable droplet microarrays
Uploaded: 2018-07-06T13:00:00.000+00:00
Duration: 12 min 25 s
Description: Watch this Scientific Journal Video about Counting Proteins in Single Cells with Addressable Droplet Microarrays at JoVE.com

ASR deneyleri, protokolleri tasarlanıp geliştirildi veri analiz. SC ve PS hücre boyutu deneyleri yürüttü. ASR ve OC el yazması yazdı. Yazarlar minnetle Prof. David R. Klug destek ekipman erişim sağlamak için kabul etmek istiyorum. Yazarlar Imperial College gelişmiş Hackspace imalat ve prototip oluşturma özellikleri erişim için teşekkür etmek istiyorum.

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	<li>Willison, K. R., Klug, D. R. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Quantitative+single+cell+and+single+molecule+proteomics+for+clinical+studies.">Quantitative single cell and single molecule proteomics for clinical studies.</a> Curr. Opin. Biotechnol. 24 (4), 745-751 (2013).</li><li>Heath, J. R., Ribas, A., Mischel, P. S. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Single-cell+analysis+tools+for+drug+discovery+and+development.">Single-cell analysis tools for drug discovery and development.</a> Nat. Rev. Drug Discov. 15 (3), 204-216 (2016).</li><li>Eyer, K., Stratz, S., Kuhn, P., K&#252;ster, S. K., Dittrich, P. 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Adresli damlacık Microarrays kantitatif tek bir hücrede bulunan protein mutlak kopya sayısını belirlemek için hassas ve genişletilebilir bir yöntemdir.
Non-spesifik bağlama düzeyini sınırlama (NSB) bir sınır tespiti mümkün olduğunca düşük olarak ulaşmak için iletişim kuralına önemlidir. Protein ve diğer biyokimyasal türler özellikle sigara bağlamak için arabirimler damlacıkları içinde mevcut bir dizi — coverslip yüzey, antikor nokta ve yağ/su arabirimi. Pro...

Bu yöntemin amacı bereket bir hedef proteinin hücre popülasyondaki özneleri, tek hücre çözünürlük varyasyon tespit etmektir. Tek hücre Analizi birçok geleneksel ensemble biyokimyasal yöntemlerle kullanılamaz avantaj sağlar. 1 , 2 , 3 , 4 , 5 öncelikle, tek hücre düzeyinde çalışan nüfusunun geleneksel ensemble biyokimyasal teknikleri ile oluşan sayı ortalaması alınarak kaybeden bir hücre zengin heterojenite yakalayabilirsiniz. Genellikle yapmak gibi çoğu iş-at biyokimyasal Yöntemler ile toplu, gerektiren, milyonlarca hücre bir sonucu elde etmek için çalışır. Tabii ki, tüm hücre popülasyonlarının değerlendirme sonuçlarını bağlı bir dizi faktöre, örneğin, heterojenite protein ifadesindeki nerede bazı önemli özellikleri protein bereket dağılımı özledim. Pratik bir bakış açısından, tek hücre teknikleri gerekli hassasiyeti onları çalışmaya bile daha duyarlı toplu teknikleri için yetersiz biyolojik malzeme miktarları ile çalışma yeteneğine sahip olun. Bu anahtar bir örnek gibi tümör hücreleri (CTCs) nerede kötü prognostik outlook olan hastalar için bile 10 CTCs bir tek 7.5 mL kan mevcut olabilecek daha az çizmek dolaşan nadir hücre tipleri çalışmadır. 6 burada tek hücre proteini ölçümleri antikor tabanlı tahlil petrol şapkalı damlacıkları istihdam bir antikor Mikroarray baskılı azaltılmış bir birim için gerçekleştirmek için gereken yöntemi mevcut.
Mikrosıvısal damlacık platformlarına yüksek işlem hacmi, damlacıkları ikinci ve yetenekli yalıtma ve hatta kültür, tek hücre başına binlerce bireysel damlacıkları biyokimyasal testleri geniş bir dizi gerçekleştirmek için elde edebilecektir. Damlacık tabanlı teknikleri de tek hücre analizi,7,8,9 ile hangi büyük ölçüde gücüyle destekli DropSeq1110 ve inDrop, dahil olmak üzere önemli son örnek için uygundur güçlendirme teknikleri. Malzeme sınırlı miktarda amplifikasyon hiçbir yöntem proteinler için yapmak ve tek hücre proteomik özellikle zorlu.
Damlacıkları birkaç yöntem tarafından analiz edilecek ve floresans mikroskobu yaygın olarak kullanılmıştır. Toplam iç yansıma Floresan (TIRF) mikroskopi gibi tek molekül teknikleri ile eşsiz sinyal-gürültü oranı görüntülenmeyecektir floresan molekülleri sağlar. 12 fani alan üstel çürümesi nedeniyle, TIRF iyi bir strateji karmaşık bir karışımı bir hedef molekül küçük miktarlarda saptamada yapma sadece fluorophores (sırasıyla 100nm) yüzeyine yüksek birbirine heyecanlı mısın. Zaman ve karmaşıklık sınırları tahlil ve TIRF doğal optik parça gücünü de yıkama adımları önlemek için yardımcı olur. Ancak, TIRF düzlemsel yüzeyler gerektirir ve bir düzlemsel yüzeyine hangi görüntü oluşumu damlacıkları akışı uygulanan TIRF mikroskobu örnekleri içerir. 13 bu amaçla, tek hücre proteomik teknikler kez mikrosıvısal çip çevresinde yüzey immobilize yakalama ajanlar bir Mikroarray biçimde tasarlayın. 4 , 14
Damlacıkları, kendilerini, düzlemsel yüzeylerde, sözde damlacık microarrays dizilerde oluşmuş. 15 , 16 , 17 dağınık şekilde organize damlacıkları dizilerden onlara uygun dizine, kolayca zaman içinde izlenen, ayrı ayrı ele alınması ve gerekirse, alındı sağlar. Damlacık microarrays yüksek yoğunluklu mikro-reaktörler müstakil veya microwell yapıları tarafından desteklenen elemanları küçük parça başına binlerce elde edebilirsiniz. 18 , 19 , 20 oluşturdular tarafından sıvı işleme robotlar, mürekkep püskürtmeli spotters, sıralı ifade tarafından microarrayers21,22,23,24,25, iletişim 26 ya da kendi kendine bir araya superhydrophillic gibi yüzeylerde lekeler desenli bir superhydrophobic yüzeye. 27 , 28 , 29
Bunu göz önünde bulundurarak, adresli damlacık Microarrays (ADM'ler) çok yönlülük, kayma adreslenebilirliği ve damlacık microarrays düşük hacimli teminatlarının tek molekül TIRF Mikroskopi için duyarlılık ile birleştirmek için tasarlanmıştır protein bereket ölçmek. 5 daha sonra buharlaşma önlemek için yağ ile kaplıdır bir antikor Mikroarray üzerinde tek hücreleri içeren bir damlacık Mikroarray oluşturan tek hücre Analizi ADM'ler etkinleştirin. Damlacıkları hacimleri üstünde-küçük parça içinde sürekli akışı Havacilik valving tarafından elde örnek kaybını önlemek için ayrı. 30 hedef protein tek bir hücreden mutlak miktarı son derece küçüktür; Ancak, damlacıkları azaltılmış hacmi için nispeten yüksek yerel yoğunlaşması sağlar bir sandviç antikor tahlil kullanarak algılanır - antikor ayrı bir bölgede ya da nokta, hangi sırayla bağlayan protein yakalar bir yüzey üzerinde immobilize umulur ki için bir fluorescently etiketli algılama antikor damlacık hacmindeki mevcut. Bir etiket içermeyen bir yaklaşım (yani protein hedefler doğrudan etiketli gerek yok), ADM'ler işlenmiş kan gibi birincil kaynakları hücrelerinden analiz için genellikle tabidir, iyi örnekleri ve Disosiye tümör biyopsi yanı sıra kültür hücrelerden gerekir ve onların lysates.
Buna karşılık, örneğin, heterojen bir ilaç belirlemede önemlidir varyasyon protein bolluk içinde bir hücre nüfus arasında ölçme ve hücresel işlevler ve yollar, altgrupları değerlendirme sağlamada yardımcı olacak ve onların Aksi takdirde toplu yöntemlerle maskeli nadir olayları tanımlayın yanı sıra davranış. Bu iletişim kuralı üretmek ve adresli damlacık microarrays kantitatif transkripsiyon faktörü p53 insan kanser hücrelerinin içinde bolluk belirlemek için nasıl kullanılacağını açıklar ve p53 kemoterapötik ilaçlara yanıt rolünü araştırmak için kullanılabilir olur. Hedef protein yakalama ve algılama antikorları seçimi ile belirlenir ve daha fazla veya farklı hedefleri içerecek şekilde değiştirilmiş. Genel Laboratuvar sarf malzemeleri el ile yağ ile şapkalı 10 nL damlacıkları dizi için gelen eş merkezli bir meme birleştiren bir basit aparatı oluşturmak için yönergeler sağlanmıştır. Her damlacık sonra sonra lysed tek bir hücre TIRF mikroskobu kullanılarak tek molekül çözümleme ile belirlenen protein ifade dolu olan sayede tam deneysel işlemi açıklanmıştır.

<table><tbody><tr><td>&lt;strong&gt;Cell culture&lt;/strong&gt;</td><td></td><td></td><td></td></tr><tr><td>Phosphate-Buffered Saline (PBS)</td><td>Life Technologies</td><td>10010015</td><td></td></tr><tr><td>DMEM high glucose</td><td>Sigma</td><td>D6429</td><td></td></tr><tr><td>Foetal Bovine Serum (FBS)</td><td>Biochrom</td><td>S0115</td><td></td></tr><tr><td>cell culture flasks</td><td>Corning</td><td>SIAL0639</td><td></td></tr><tr><td>Trypsin/EDTA</td><td>Biochrom</td><td>L2153</td><td></td></tr><tr><td>&lt;strong&gt;Name&lt;/strong&gt;</td><td>&lt;strong&gt;Company&lt;/strong&gt;</td><td>&lt;strong&gt;Catalog Number&lt;/strong&gt;</td><td>&lt;strong&gt;Comments&lt;/strong&gt;</td></tr><tr><td>&lt;strong&gt;Microarray&lt;/strong&gt;</td><td></td><td></td><td></td></tr><tr><td>Microcontact Arrayer</td><td>DigiLab, UK</td><td>OmniGrid Micro</td><td></td></tr><tr><td>Microcontact pin</td><td>ArrayIt, USA</td><td>946MP2</td><td></td></tr><tr><td>Coverslips (Nexterion)</td><td>Schott, Europe</td><td>1098523</td><td>Size (mm): 65.0 x 25.0; Thickness (mm) 0.17</td></tr><tr><td>p53 capture antibody</td><td>Enzo</td><td>ADI-960-070</td><td></td></tr><tr><td>p53 detection antibody, Alexa Fluor 488 labelled</td><td>Santa Cruz</td><td>sc-126</td><td>stock concentration 200&amp;mu;g/mL</td></tr><tr><td>Saline-sodium citrate buffer</td><td>Gibco</td><td>15557-044</td><td></td></tr><tr><td>Betaine</td><td>Sigma</td><td>61962</td><td></td></tr><tr><td>Sodium dodecyl sulphate</td><td>Sigma</td><td>L3771</td><td></td></tr><tr><td>384 well plate (low volume)</td><td>Sigma</td><td>CLS4511</td><td></td></tr><tr><td>Nitrogen gas cylinder</td><td>BOC</td><td>Industrial grade, oxygen-free</td><td></td></tr><tr><td>&lt;strong&gt;Name&lt;/strong&gt;</td><td>&lt;strong&gt;Company&lt;/strong&gt;</td><td>&lt;strong&gt;Catalog Number&lt;/strong&gt;</td><td>&lt;strong&gt;Comments&lt;/strong&gt;</td></tr><tr><td>&lt;strong&gt;Droplets&lt;/strong&gt;</td><td></td><td></td><td></td></tr><tr><td>Micromanipulator</td><td>Eppendorf</td><td>Patchman NP2</td><td></td></tr><tr><td>Manual Microinjector</td><td>Eppendorf</td><td>CellTram Vario</td><td></td></tr><tr><td>Micropipette</td><td>Origio, Denmark</td><td>MBB-FP-L-0</td><td></td></tr><tr><td>Syringe pumps</td><td>KD Scientific</td><td>KDS-210</td><td></td></tr><tr><td>100 &amp;mu;L syringe</td><td>Hamilton</td><td>81020</td><td>Gas tight, PTFE Luer lock</td></tr><tr><td>1 mL syringe</td><td>Hamilton</td><td>81327</td><td>Gas tight, PTFE Luer lock</td></tr><tr><td>Silicone isolator</td><td>Grace Bio-Labs</td><td>JTR24R-A-0.5</td><td>6x4 well silicone isolator with adhesive</td></tr><tr><td>Laser cutter</td><td>VersaLASE</td><td>VLS2.30 CO2 Laser 3W</td><td>for laser cutting of custom isolators</td></tr><tr><td>1mm thick acrylic sheet</td><td>Weatherall-UK</td><td>Clarex Precision Sheet 001</td><td>for laser cutting of custom isolators</td></tr><tr><td>Adhesive sheet</td><td>3M</td><td></td><td>used to adhere custom isolators to microarrayed coverslips</td></tr><tr><td>Super glue</td><td>Loctite</td><td>LOCPFG3T</td><td></td></tr><tr><td>150 &amp;mu;m ID/360 &amp;mu;m OD fused silica tubing</td><td>IDEX</td><td>FS-115</td><td></td></tr><tr><td>1.0 mm ID/1/16&amp;rdquo; OD PFA tubing</td><td>IDEX</td><td>1503</td><td></td></tr><tr><td>0.014&amp;rdquo; ID/0.062&amp;rdquo; OD PTFE tubing</td><td>Kinesis</td><td>008T16-100</td><td></td></tr><tr><td>1.0 mm ID/2.0 mm OD FEP tubing</td><td>IDEX</td><td>1673</td><td></td></tr><tr><td>Bovine Serum Albumen (BSA)</td><td>Fisher Scientific</td><td>BP9700100</td><td></td></tr><tr><td>Mineral oil</td><td>Sigma</td><td>M5904</td><td></td></tr><tr><td>Ultra-pure water</td><td>Millipore, Germany</td><td>MilliQ</td><td></td></tr><tr><td>&lt;strong&gt;Name&lt;/strong&gt;</td><td>&lt;strong&gt;Company&lt;/strong&gt;</td><td>&lt;strong&gt;Catalog Number&lt;/strong&gt;</td><td>&lt;strong&gt;Comments&lt;/strong&gt;</td></tr><tr><td>&lt;strong&gt;Microscopy &amp;amp; Optics&lt;/strong&gt;</td><td></td><td></td><td></td></tr><tr><td>TIRF microscope with encoded XY stage</td><td>Nikon, Japan</td><td>Nikon Ti-E</td><td></td></tr><tr><td>EM-CCD</td><td>Andor Technologies, Ireland</td><td>IXON DU-897E</td><td></td></tr><tr><td>Laser excitation source</td><td>Vortran, USA</td><td>Stradus 488-50</td><td></td></tr><tr><td>Optical lysis laser source</td><td>Continuum, USA</td><td>Surelite SLI-10</td><td></td></tr><tr><td>Microscope filter cube for TIRF</td><td>Chroma, USA</td><td>z488bp</td><td></td></tr><tr><td>Microscope filter cube for Optical Lysis</td><td>Laser 2000, UK</td><td>LPD01-532R-25</td><td></td></tr><tr><td>&lt;strong&gt;Name&lt;/strong&gt;</td><td>&lt;strong&gt;Company&lt;/strong&gt;</td><td>&lt;strong&gt;Catalog Number&lt;/strong&gt;</td><td>&lt;strong&gt;Comments&lt;/strong&gt;</td></tr><tr><td>&lt;strong&gt;Software&lt;/strong&gt;</td><td></td><td></td><td></td></tr><tr><td>Fiji</td><td>Open Source</td><td></td><td>Image analysis software</td></tr><tr><td>Matlab</td><td>Mathworks</td><td>version 7.14 or higher</td><td>Image analysis software</td></tr></tbody></table>

counting proteins in single cells with addressable droplet microarrays

Sık sık hücresel davranış ve hücresel yanıt nerede birçok hücre yanıtları birlikte zengin tek hücre davranış karmaşık bir nüfus içinde maskeleme ortalama bir sonucu olarak havuza nüfus düzeyinde analiz edilir. Tek hücre proteini algılama ve miktar teknolojileri son yıllarda kayda değer bir etki yapmış. Burada bir pratik ve esnek tek hücre Analizi platform adresli damlacık microarrays üzerinde tabanlı açıklayın. Bu çalışma nasıl hedef proteinler mutlak kopya sayısına tek hücre çözünürlük ile ölçülen açıklar. Tümör baskılayıcı p53 ile toplam kanser vakalarının bir sigara sağlıklı p53 ifade deseni sergileyen % 50'den fazla insan kanseri en sık mutasyona uğramış gen var. Protokolü ile tam ifade değişkenlik belirlemek için tek molekül kararlılık içinde olan tek insan kanser hücreleri izole edilmiştir ve p53 protein kopya sayısı ölçülen 10 nL damlacıkları oluşturmak için adımları açıklar. Yöntem ilgi herhangi bir hedef proteinler mutlak kopya sayısını belirlemek için birincil malzeme dahil olmak üzere herhangi bir hücre türüne uygulanabilir.

P53 mutlak bazal protein kopya sayısı bir insan kolon kanseri hücre kültürünü, BE hücreleri tek hücre çözünürlük ile tespit edilmiştir. Biz nasıl p53 ifade büyüklükte birkaç emir üzerinde değişir ve hücre boyutu ve protein kopya sayısı içinde dinlenme BE hücre nüfus arasında bir zayıf pozitif korelasyon göstermek göstermek.
Sulu damlacıkları antikor spot yerlerde reçete ve yağ ile şapkalı a...

Watch this Scientific Journal Video about Counting Proteins in Single Cells with Addressable Droplet Microarrays at JoVE.com

Counting Proteins in Single Cells with Addressable Droplet Microarrays

Burada adresli damlacık microarrays (ADM'ler), bir damlacık array tabanlı yöntemi mutlak protein bolluk içinde tek hücreleri belirlemek mümkün mevcut. Biz heterojenite tümör baskılayıcı protein p53 bir insan kanser hücre satırı ifade derecesinin ADM'ler kapasitesini göstermek.

Proteinler adresli damlacık Microarrays ile tek kişilik hücrelerde sayma

Often cellular behavior and cellular responses are analyzed at the population level where the responses of many cells are pooled together as an average ...

counting-proteins-in-single-cells-with-addressable-droplet-microarrays

Research

JoVE Journal

Cancer Research

8.5K Görüntüleme.  Imperial College London. Burada adresli damlacık microarrays (ADM'ler), bir damlacık array tabanlı yöntemi mutlak protein bolluk içinde tek hücreleri belirlemek mümkün mevcut. Biz heterojenite tümör baskılayıcı protein p53 bir insan kanser hücre satırı ifade derecesinin ADM'ler kapasitesini göstermek.

Video: Counting Proteins in Single Cells with Addressable Droplet Microarrays

Fluorescence detection methods for microfluidic droplet platforms

The development of microfluidic platforms for performing chemistry and biology has in large part been driven by a range of potential benefits that accompany system miniaturisation. Advantages include the ability to efficiently process nano- to femoto- liter volumes of sample, facile integration of functional components, an intrinsic predisposition towards large-scale multiplexing, enhanced analytical throughput, improved control and reduced instrumental footprints.1
In recent years much interest has focussed on the development of droplet-based (or segmented flow) microfluidic systems and their potential as platforms in high-throughput experimentation.2-4 Here water-in-oil emulsions are made to spontaneously form in microfluidic channels as a result of capillary instabilities between the two immiscible phases. Importantly, microdroplets of precisely defined volumes and compositions can be generated at frequencies of several kHz. Furthermore, by encapsulating reagents of interest within isolated compartments separated by a continuous immiscible phase, both sample cross-talk and dispersion (diffusion- and Taylor-based) can be eliminated, which leads to minimal cross-contamination and the ability to time analytical processes with great accuracy. Additionally, since there is no contact between the contents of the droplets and the channel walls (which are wetted by the continuous phase) absorption and loss of reagents on the channel walls is prevented.
Once droplets of this kind have been generated and processed, it is necessary to extract the required analytical information. In this respect the detection method of choice should be rapid, provide high-sensitivity and low limits of detection, be applicable to a range of molecular species, be non-destructive and be able to be integrated with microfluidic devices in a facile manner. To address this need we have developed a suite of experimental tools and protocols that enable the extraction of large amounts of photophysical information from small-volume environments, and are applicable to the analysis of a wide range of physical, chemical and biological parameters. Herein two examples of these methods are presented and applied to the detection of single cells and the mapping of mixing processes inside picoliter-volume droplets. We report the entire experimental process including microfluidic chip fabrication, the optical setup and the process of droplet generation and detection.

Droplet-based microfluidic platforms are promising candidates for high throughput experimentation since they are able to generate picoliter, self-compartmentalized vessels inexpensively at kHz rates. Through integration with fast, sensitive and high resolution fluorescence spectroscopic methods, the large amounts of information generated within these systems can be efficiently extracted, harnessed and utilized.

Mikroakışkan damlacık platformları için Floresan algılama yöntemleri

The development of microfluidic platforms for performing chemistry and biology has in large part been driven by a range of potential benefits that ...

Biyomühendislik

Flow-pattern Guided Fabrication of High-density Barcode Antibody Microarray

Antibody microarray as a well-developed technology is currently challenged by a few other established or emerging high-throughput technologies. In this report, we renovate the antibody microarray technology by using a novel approach for manufacturing and by introducing new features. The fabrication of our high-density antibody microarray is accomplished through perpendicularly oriented flow-patterning of single stranded DNAs and subsequent conversion mediated by DNA-antibody conjugates. This protocol outlines the critical steps in flow-patterning DNA, producing and purifying DNA-antibody conjugates, and assessing the quality of the fabricated microarray. The uniformity and sensitivity are comparable with conventional microarrays, while our microarray fabrication does not require the assistance of an array printer and can be performed in most research laboratories. The other major advantage is that the size of our microarray units is 10 times smaller than that of printed arrays, offering the unique capability of analyzing functional proteins from single cells when interfacing with generic microchip designs. This barcode technology can be widely employed in biomarker detection, cell signaling studies, tissue engineering, and a variety of clinical applications.

This protocol outlines the fabrication of a large-scale, multiplexed two-dimensional DNA or antibody array, with potential applications in cell signaling studies and biomarker detection.

Yüksek yoğunluklu Barkod Antikor Mikroarray Akışı-desen Rehberli Fabrikasyon

Antibody microarray as a well-developed technology is currently challenged by a few other established or emerging high-throughput technologies. In this ...

Kimya

A Microfluidic Chip for the Versatile Chemical Analysis of Single Cells

We present a microfluidic device that enables the quantitative determination of intracellular biomolecules in multiple single cells in parallel. For this purpose, the cells are passively trapped in the middle of a microchamber. Upon activation of the control layer, the cell is isolated from the surrounding volume in a small chamber. The surrounding volume can then be exchanged without affecting the isolated cell. However, upon short opening and closing of the chamber, the solution in the chamber can be replaced within a few hundred milliseconds. Due to the reversibility of the chambers, the cells can be exposed to different solutions sequentially in a highly controllable fashion, e.g. for incubation, washing, and finally, cell lysis. The tightly sealed microchambers enable the retention of the lysate, minimize and control the dilution after cell lysis. Since lysis and analysis occur at the same location, high sensitivity is retained because no further dilution or loss of the analytes occurs during transport. The microchamber design therefore enables the reliable and reproducible analysis of very small copy numbers of intracellular molecules (attomoles, zeptomoles) released from individual cells. Furthermore, many microchambers can be arranged in an array format, allowing the analysis of many cells at once, given that suitable optical instruments are used for monitoring. We have already used the platform for proof-of-concept studies to analyze intracellular proteins, enzymes, cofactors and second messengers in either relative or absolute quantifiable manner.

In this article we present a microfluidic chip for single cell analysis. It allows the quantification of intracellular proteins, enzymes, cofactors, and second messengers by means of fluorescent assays or immunoassays.&#160;

Tek Hücrelerinin yönlü Kimyasal Analiz için mikroakışkan Chip

We present a microfluidic device that enables the quantitative determination of intracellular biomolecules in multiple single cells in parallel. For this ...

Proteome-wide Quantification of Labeling Homogeneity at the Single Molecule Level

Cell proteomes are often characterized using electrophoresis assays, where all species of proteins in the cells are non-specifically labeled with a fluorescent dye and are spotted by a photodetector following their separation. Single molecule fluorescence imaging can provide ultrasensitive protein detection with its ability for visualizing individual fluorescent molecules. However, the application of this powerful imaging method to electrophoresis assays is hampered by the lack of ways to characterize the homogeneity of fluorescent labeling of each protein species across the proteome. Here, we developed a method to evaluate the labeling homogeneity across the proteome based on a single molecule fluorescence imaging assay. In our measurement using a HeLa cell sample, the proportion of proteins labeled with at least one dye, which we termed &#8216;labeling occupancy&#8217; (LO), was determined to range from 50% to 90%, supporting the high potential of the application of single molecule imaging to sensitive and precise proteome analysis.

Here, we present a protocol to assess the labeling homogeneity for each protein species in a complex protein sample at the single molecule level.

Proteom çapında Quantification maddelerinin homojenliği tek molekül düzeyinde etiketlenmesi

Cell proteomes are often characterized using electrophoresis assays, where all species of proteins in the cells are non-specifically labeled with a ...

Biyokimya

Circulating MicroRNA Quantification Using DNA-binding Dye Chemistry and Droplet Digital PCR

Circulating (of cell-free) microRNAs (miRNAs) are released from cells into the blood stream. The amount of specific microRNAs in the circulation has been linked to a disease state and has the potential to be used as disease biomarker. A sensitive and accurate method for circulating microRNA quantification using a dye-based chemistry and droplet digital PCR technology has been recently developed. Specifically, using Locked Nucleic Acid (LNA)-based miRNA-specific primers with a green fluorescent DNA-binding dye in a compatible droplet digital PCR system it is possible to obtain the absolute quantification of specific miRNAs. Here, we describe how performing this technique to assess miRNA amount in biological fluids, such as plasma and serum, is both feasible and effective.

A sensitive and accurate method for cell-free microRNAs quantification using a dye-based chemistry and droplet digital PCR technology is described.

MicroRNA Niceleme DNA bağlayıcı Boya Kimya ve Damlacık Dijital PCR kullanarak Sirkülasyon

Circulating (of cell-free) microRNAs (miRNAs) are released from cells into the blood stream. The amount of specific microRNAs in the circulation has been ...

A Femtoliter Droplet Array for Massively Parallel Protein Synthesis from Single DNA Molecules

Advances in spatial resolution and detection sensitivity of scientific instrumentation make it possible to apply small reactors for biological and chemical research. To meet the demand for high-performance microreactors, we developed a femtoliter droplet array (FemDA) device and exemplified its application in massively parallel cell-free protein synthesis (CFPS) reactions. Over one million uniform droplets were readily generated within a finger-sized area using a two-step oil-sealing protocol. Every droplet was anchored in a femtoliter microchamber composed of a hydrophilic bottom and a hydrophobic sidewall. The hybrid hydrophilic-in-hydrophobic structure and the dedicated sealing oils and surfactants are crucial for stably retaining the femtoliter aqueous solution in the femtoliter space without evaporation loss. The femtoliter configuration and the simple structure of the FemDA device allowed minimal reagent consumption. The uniform dimension of the droplet reactors made large-scale quantitative and time-course measurements convincing and reliable. The FemDA technology correlated the protein yield of the CFPS reaction with the number of DNA molecules in each droplet. We streamlined the procedures about the microfabrication of the device, the formation of the femtoliter droplets, and the acquisition and analysis of the microscopic image data. The detailed protocol with the optimized low running cost makes the FemDA technology accessible to everyone who has standard cleanroom facilities and a conventional fluorescence microscope in their own place.

The overall goal of the protocol is to prepare over one million ordered, uniform, stable, and biocompatible femtoliter droplets on a 1 cm2 planar substrate that can be used for cell-free protein synthesis.

Tek DNA Moleküllerinden Kitlesel Paralel Protein Sentezi için Femtolitre Damlacık Dizisi

Advances in spatial resolution and detection sensitivity of scientific instrumentation make it possible to apply small reactors for biological and ...

Snap Chip for Cross-reactivity-free and Spotter-free Multiplexed Sandwich Immunoassays

Multiplexed protein analysis has shown superior diagnostic sensitivity and accuracy compared to single proteins. Antibody microarrays allow for thousands of micro-scale immunoassays performed simultaneously on a single chip. Sandwich assay format improves assay specificity by detecting each target with two antibodies, but suffers from cross-reactivity between reagents thus limiting their multiplexing capabilities. Antibody colocalization microarray (ACM) has been developed for cross-reactivity-free multiplexed protein detection, but requires an expensive spotter on-site for microarray fabrication during assays. In this work, we demonstrate a snap chip technology that transfers reagent from microarray-to-microarray by simply snapping two chips together, thus no spotter is needed during the sample incubation and subsequent application of detection antibodies (dAbs) upon storage of pre-spotted slides, dissociating the slide preparation from assay execution. Both single and double transfer methods are presented to achieve accurate alignment between the two microarrays and the slide fabrication for both methods are described. Results show that &#60;40 &#956;m alignment has been achieved with double transfer, reaching an array density of 625 spots/cm2. A 50-plexed immunoassay has been conducted to demonstrate the usability of the snap chip in multiplexed protein analysis. Limits of detection of 35 proteins are in the range of pg/mL.

We demonstrate a snap chip technology for performing cross-reactivity-free multiplexed sandwich immunoassays by simply snapping two slides. A snap apparatus is used for reliably transferring reagents from microarray-to-microarray. The snap chip can be used for any biochemical reactions requiring colocalization of different reagents without cross-contamination.

Çip için çapraz-reactivity ücretsiz ve gözcü-Alerjik çoğaltılmış sandviç uzun snap

Multiplexed protein analysis has shown superior diagnostic sensitivity and accuracy compared to single proteins. Antibody microarrays allow for thousands ...

<meta charset="utf8"></head><body>Tek Hücreli Sitokin Sekresyon Analizi için Mikroakışkan Damlacık Testi

Microfluidic Approach to Resolve Simultaneous and Sequential Cytokine Secretion of Individual Polyfunctional Cells

Infections, autoimmune diseases, desired and adverse immunological responses to treatment can lead to a complex and dynamic cytokine response in vivo. This response involves numerous immune cells secreting various cytokines to orchestrate the immune reaction. However, the secretion dynamics, amounts, and co-occurrence of the different cytokines by various cell subtypes remain poorly understood due to a lack of appropriate tools to study them. Here, we describe a protocol using a microfluidic droplet platform that allows the time-resolved quantitative measurement of secretion dynamics for several cytokines in parallel on the single-cell level. This is enabled by the encapsulation of individual cells into microfluidic droplets together with a multiplexed immunoassay for parallel quantification of cytokine concentrations, their immobilization for dynamic fluorescent imaging, and the analysis of the respective images to derive secreted quantities and dynamics. The protocol describes the preparation of functionalized magnetic nanoparticles, calibration experiments, cell preparation, and the encapsulation of the cells and nanoparticles into droplets for fluorescent imaging and subsequent image and data analysis using the example of lipopolysaccharide-stimulated human peripheral blood mononuclear cells. The presented platform identified distinct cytokine secretion behavior for single and co-secreting cells, characterizing the expected phenotypic heterogeneity in the measured cell sample. Furthermore, the modular nature of the assay allows its adaptation and application to study a variety of proteins, cytokines, and cell samples, potentially leading to a deeper understanding of the interplay between different immune cell types and the role of the different cytokines secreted dynamically to shape the tightly regulated immune response. These new insights could be particularly interesting in the studies of immune dysregulations or in identifying target populations in therapy and drug development.

<meta charset="utf8"></head><body>Yazar Gündemi: Bağışıklık Tepkilerinde Çok İşlevlilik ve Heterojenliğin Ortaya Çıkarılması

The protocol describes an advanced microfluidic platform to quantitatively measure cytokine secretion dynamics of individual human peripheral blood mononuclear cells. The platform measures up to three cytokines in parallel (IL-6, TNF&#945;, and IL-1&#946;) for each individual cell stimulated with lipopolysaccharide as an example.

Bireysel Çok Fonksiyonlu Hücrelerin Eşzamanlı ve Ardışık Sitokin Sekresyonunu Çözmek için Mikroakışkan Yaklaşım 

Infections, autoimmune diseases, desired and adverse immunological responses to treatment can lead to a complex and dynamic cytokine response in vivo. ...

Proteinler adresli damlacık Microarrays ile tek kişilik hücrelerde sayma

Özet

Daha Fazla Video Keşfet

Bu videodaki bölümler

Mikroakışkan damlacık platformları için Floresan algılama yöntemleri

Yüksek yoğunluklu Barkod Antikor Mikroarray Akışı-desen Rehberli Fabrikasyon

Tek Hücrelerinin yönlü Kimyasal Analiz için mikroakışkan Chip

Proteom çapında Quantification maddelerinin homojenliği tek molekül düzeyinde etiketlenmesi

MicroRNA Niceleme DNA bağlayıcı Boya Kimya ve Damlacık Dijital PCR kullanarak Sirkülasyon

Tek DNA Moleküllerinden Kitlesel Paralel Protein Sentezi için Femtolitre Damlacık Dizisi

Çip için çapraz-reactivity ücretsiz ve gözcü-Alerjik çoğaltılmış sandviç uzun snap

Bireysel Çok Fonksiyonlu Hücrelerin Eşzamanlı ve Ardışık Sitokin Sekresyonunu Çözmek için Mikroakışkan Yaklaşım

Bireysel Çok Fonksiyonlu Hücrelerin Eşzamanlı ve Ardışık Sitokin Sekresyonunu Çözmek için Mikroakışkan Yaklaşım

Bireysel Çok Fonksiyonlu Hücrelerin Eşzamanlı ve Ardışık Sitokin Sekresyonunu Çözmek için Mikroakışkan Yaklaşım