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Journal articles on the topic 'Picodroplet'

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Author: Grafiati

Published: 1 April 2023

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1

Perroud, Thomas D., Robert J. Meagher, Michael P. Kanouff, Ronald F. Renzi, Meiye Wu, Anup K. Singh, and Kamlesh D. Patel. "Isotropically etched radial micropore for cell concentration, immobilization, and picodroplet generation." Lab on a Chip 9, no. 4 (2009): 507. http://dx.doi.org/10.1039/b817285d.

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2

Wei, F., X. Guo, J. Yin, Y. Shi, and D. Chen. "Performance of picodroplet digital PCR for quantitative detection of HCV RNA." Journal of Clinical Virology 69 (August 2015): 226–27. http://dx.doi.org/10.1016/j.jcv.2015.06.018.

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3

Josephides, Dimitris, Serena Davoli, William Whitley, Raphael Ruis, Robert Salter, Sinan Gokkaya, Maeva Vallet, et al. "Cyto-Mine: An Integrated, Picodroplet System for High-Throughput Single-Cell Analysis, Sorting, Dispensing, and Monoclonality Assurance." SLAS TECHNOLOGY: Translating Life Sciences Innovation 25, no. 2 (January 15, 2020): 177–89. http://dx.doi.org/10.1177/2472630319892571.

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The primary goal of bioprocess cell line development is to obtain high product yields from robustly growing and well-defined clonal cell lines in timelines measured in weeks rather than months. Likewise, high-throughput screening of B cells and hybridomas is required for most cell line engineering workflows. A substantial bottleneck in these processes is detecting and isolating rare clonal cells with the required characteristics. Traditionally, this was achieved by the resource-intensive method of limiting dilution cloning, and more recently aided by semiautomated technologies such as cell sorting (e.g., fluorescence-activated cell sorting) and colony picking. In this paper we report on our novel Cyto-Mine Single Cell Analysis and Monoclonality Assurance System, which overcomes the limitations of current technologies by screening hundreds of thousands of individual cells for secreted target proteins, and then isolating and dispensing the highest producers into microtiter plate wells (MTP). The Cyto-Mine system performs this workflow using a fully integrated, microfluidic Cyto-Cartridge. Critically, all reagents and Cyto-Cartridges used are animal component-free (ACF) and sterile, thus allowing fast, robust, and safe isolation of desired cells.

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4

Mosbach, Marcus, Heiko Zimmermann, Thomas Laurell, Johan Nilsson, Elisabeth Csöregi, and Wolfgang Schuhmann. "Picodroplet-deposition of enzymes on functionalized self-assembled monolayers as a basis for miniaturized multi-sensor structures." Biosensors and Bioelectronics 16, no. 9-12 (December 2001): 827–37. http://dx.doi.org/10.1016/s0956-5663(01)00205-6.

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5

Taly, Valerie, Deniz Pekin, Leonor Benhaim, Steve K. Kotsopoulos, Delphine Le Corre, Xinyu Li, Ivan Atochin, et al. "Multiplex Picodroplet Digital PCR to Detect KRAS Mutations in Circulating DNA from the Plasma of Colorectal Cancer Patients." Clinical Chemistry 59, no. 12 (December 1, 2013): 1722–31. http://dx.doi.org/10.1373/clinchem.2013.206359.

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BACKGROUND Multiplex digital PCR (dPCR) enables noninvasive and sensitive detection of circulating tumor DNA with performance unachievable by current molecular-detection approaches. Furthermore, picodroplet dPCR facilitates simultaneous screening for multiple mutations from the same sample. METHODS We investigated the utility of multiplex dPCR to screen for the 7 most common mutations in codons 12 and 13 of the KRAS (Kirsten rat sarcoma viral oncogene homolog) oncogene from plasma samples of patients with metastatic colorectal cancer. Fifty plasma samples were tested from patients for whom the primary tumor biopsy tissue DNA had been characterized by quantitative PCR. RESULTS Tumor characterization revealed that 19 patient tumors had KRAS mutations. Multiplex dPCR analysis of the plasma DNA prepared from these samples identified 14 samples that matched the mutation identified in the tumor, 1 sample contained a different KRAS mutation, and 4 samples had no detectable mutation. Among the tumor samples that were wild type for KRAS, 2 KRAS mutations were identified in the corresponding plasma samples. Duplex dPCR (i.e., wild-type and single-mutation assay) was also used to analyze plasma samples from patients with KRAS-mutated tumors and 5 samples expected to contain the BRAF (v-raf murine sarcoma viral oncogene homolog B) V600E mutation. The results for the duplex analysis matched those for the multiplex analysis for KRAS-mutated samples and, owing to its higher sensitivity, enabled detection of 2 additional samples with low levels of KRAS-mutated DNA. All 5 samples with BRAF mutations were detected. CONCLUSIONS This work demonstrates the clinical utility of multiplex dPCR to screen for multiple mutations simultaneously with a sensitivity sufficient to detect mutations in circulating DNA obtained by noninvasive blood collection.

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6

Laurent-Puig, Pierre, Deniz Pekin, Corinne Normand, Steve K. Kotsopoulos, Philippe Nizard, Karla Perez-Toralla, Rachel Rowell, et al. "Clinical Relevance of KRAS-Mutated Subclones Detected with Picodroplet Digital PCR in Advanced Colorectal Cancer Treated with Anti-EGFR Therapy." Clinical Cancer Research 21, no. 5 (September 23, 2014): 1087–97. http://dx.doi.org/10.1158/1078-0432.ccr-14-0983.

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7

Borsu, Laetitia, Julie Intrieri, Linta Thampi, Helena Yu, Gregory Riely, Khedoudja Nafa, Raghu Chandramohan, Marc Ladanyi, and Maria E. Arcila. "Clinical Application of Picodroplet Digital PCR Technology for Rapid Detection of EGFR T790M in Next-Generation Sequencing Libraries and DNA from Limited Tumor Samples." Journal of Molecular Diagnostics 18, no. 6 (November 2016): 903–11. http://dx.doi.org/10.1016/j.jmoldx.2016.07.004.

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8

Watanabe, Masaru, Tomoya Kawaguchi, Shun-ichi Isa, Masahiko Ando, Akihiro Tamiya, Akihito Kubo, Hideo Saka, et al. "Multiplex Ultrasensitive Genotyping of Patients with Non-Small Cell Lung Cancer for Epidermal Growth Factor Receptor (EGFR) Mutations by Means of Picodroplet Digital PCR." EBioMedicine 21 (July 2017): 86–93. http://dx.doi.org/10.1016/j.ebiom.2017.06.003.

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9

Liu, X., R. E. Painter, K. Enesa, D. Holmes, G. Whyte, C. G. Garlisi, F. J. Monsma, M. Rehak, F. F. Craig, and C. A. Smith. "High-throughput screening of antibiotic-resistant bacteria in picodroplets." Lab on a Chip 16, no. 9 (2016): 1636–43. http://dx.doi.org/10.1039/c6lc00180g.

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10

Pybus, Leon P., Devika Kalsi, Joe T. Matthews, Ellie Hawke, Nicholas Barber, Rachel Richer, Alison Young, and Fay L. Saunders. "Coupling picodroplet microfluidics with plate imaging for the rapid creation of biomanufacturing suitable cell lines with high probability and improved multi‐step assurance of monoclonality." Biotechnology Journal 17, no. 1 (October 25, 2021): 2100357. http://dx.doi.org/10.1002/biot.202100357.

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11

Nunziato, Marcella, Maria Valeria Esposito, Flavio Starnone, Maria Angela Diroma, Alessandra Calabrese, Valentina Del Monaco, Pasqualina Buono, et al. "A multi-gene panel beyond BRCA1/BRCA2 to identify new breast cancer-predisposing mutations by a picodroplet PCR followed by a next-generation sequencing strategy: a pilot study." Analytica Chimica Acta 1046 (January 2019): 154–62. http://dx.doi.org/10.1016/j.aca.2018.09.032.

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12

Pekas, Nikola, Marc D. Porter, Mark Tondra, Anthony Popple, and Albrecht Jander. "Giant magnetoresistance monitoring of magnetic picodroplets in an integrated microfluidic system." Applied Physics Letters 85, no. 20 (November 15, 2004): 4783–85. http://dx.doi.org/10.1063/1.1825059.

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13

Buchheim, C., G. Kittler, V. Cimalla, V. Lebedev, M. Fischer, S. Krischok, V. Yanev, et al. "Tuning of Surface Properties of AlGaN/GaN Sensors for Nanodroplets and Picodroplets." IEEE Sensors Journal 6, no. 4 (August 2006): 881–86. http://dx.doi.org/10.1109/jsen.2006.877984.

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14

Ross, Breyan, Stephan Krapp, Ruth Geiss-Friedlander, Walter Littmann, Robert Huber, and Reiner Kiefersauer. "Aerosol-based ligand soaking of reservoir-free protein crystals." Journal of Applied Crystallography 54, no. 3 (May 28, 2021): 895–902. http://dx.doi.org/10.1107/s1600576721003551.

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Soaking of macromolecular crystals allows the formation of complexes via diffusion of molecules into a preformed crystal for structural analysis. Soaking offers various advantages over co-crystallization, e.g. small samples and high-throughput experimentation. However, this method has disadvantages, such as inducing mechanical stress on crystals and reduced success rate caused by low affinity/solubility of the ligand. To bypass these issues, the Picodropper was previously developed in the authors' laboratory. This technique aimed to deliver small volumes of compound solution in response to crystal dehydration supported by the Free Mounting System humidity control or by IR-laser-induced protein crystal transformation. Herein, a new related soaking development, the Aerosol-Generator, is introduced. This device delivers compounds onto the solution-free surface of protein crystals using an ultrasonic technique. The produced aerosol stream enables an easier and more accurate control of solution volumes, reduced crystal handling, and crystal-size-independent soaking. The Aerosol-Generator has been used to produce complexes of DPP8 crystals, where otherwise regular soaking did not achieve complex formation. These results demonstrate the potential of this device in challenging ligand-binding scenarios and contribute to further understanding of DPP8 inhibitor binding.

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15

Colin, Pierre-Yves, Balint Kintses, Fabrice Gielen, Charlotte M. Miton, Gerhard Fischer, Mark F. Mohamed, Marko Hyvönen, Diego P. Morgavi, Dick B. Janssen, and Florian Hollfelder. "Ultrahigh-throughput discovery of promiscuous enzymes by picodroplet functional metagenomics." Nature Communications 6, no. 1 (December 2015). http://dx.doi.org/10.1038/ncomms10008.

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16

Zhang, Pengfei, Aniruddha Kaushik, Kuangwen Hsieh, and Tza-Huei Wang. "Customizing droplet contents and dynamic ranges via integrated programmable picodroplet assembler." Microsystems & Nanoengineering 5, no. 1 (July 1, 2019). http://dx.doi.org/10.1038/s41378-019-0062-5.

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17

Meng, Yujie, Shuang Li, Chong Zhang, and Hao Zheng. "Strain-level profiling with picodroplet microfluidic cultivation reveals host-specific adaption of honeybee gut symbionts." Microbiome 10, no. 1 (August 31, 2022). http://dx.doi.org/10.1186/s40168-022-01333-9.

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Abstract Background Symbiotic gut microbes have a rich genomic and metabolic pool and are closely related to hosts’ health. Traditional sequencing profiling masks the genomic and phenotypic diversity among strains from the same species. Innovative droplet-based microfluidic cultivation may help to elucidate the inter-strain interactions. A limited number of bacterial phylotypes colonize the honeybee gut, while individual strains possess unique genomic potential and critical capabilities, which provides a particularly good model for strain-level analyses. Results Here, we construct a droplet-based microfluidic platform and generated ~ 6 × 108 droplets encapsulated with individual bacterial cells from the honeybee gut and cultivate in different media. Shotgun metagenomic analysis reveals significant changes in community structure after droplet-based cultivation, with certain species showing higher strain-level diversity than in gut samples. We obtain metagenome-assembled genomes, and comparative analysis reveal a potential novel cluster from Bifidobacterium in the honeybee. Interestingly, Lactobacillus panisapium strains obtained via droplet cultivation from Apis mellifera contain a unique set of genes encoding l-arabinofuranosidase, which is likely important for the survival of bacteria in competitive environments. Conclusions By encapsulating single bacteria cells inside microfluidic droplets, we exclude potential interspecific competition for the enrichment of rare strains by shotgun sequencing at high resolution. The comparative genomic analysis reveals underlying mechanisms for host-specific adaptations, providing intriguing insights into microbe-microbe interactions. The current approach may facilitate the hunting for elusive bacteria and paves the way for large-scale studies of more complex animal microbial communities.

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18

Hammond, Maria, Felix Homa, Helene Andersson-Svahn, Thijs J. G. Ettema, and Haakan N. Joensson. "Picodroplet partitioned whole genome amplification of low biomass samples preserves genomic diversity for metagenomic analysis." Microbiome 4, no. 1 (October 6, 2016). http://dx.doi.org/10.1186/s40168-016-0197-7.

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19

Chang, Mun Young, Ah Reum Kim, Min Young Kim, Soyoung Kim, Jinsun Yoon, Jae Joon Han, Soyeon Ahn, Changsoo Kang, and Byung Yoon Choi. "Development of novel noninvasive prenatal testing protocol for whole autosomal recessive disease using picodroplet digital PCR." Scientific Reports 6, no. 1 (December 2016). http://dx.doi.org/10.1038/srep37153.

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