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Composite Pattern Discovery for PCR Application [chapter]

Stanislav Angelov, Shunsuke Inenaga
<span title="">2005</span> <i title="Springer Berlin Heidelberg"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/2w3awgokqne6te4nvlofavy5a4" style="color: black;">Lecture Notes in Computer Science</a> </i> &nbsp;
The problem was introduced in [1] and is motivated by the optimization of multiplexed nested PCR.  ...  We study algorithms for the following two cases; the special case when the two patterns in the pair are required to have the same length, and the more general case when the patterns can have different  ...  The authors would like to thank Teemu Kivioja of VTT Biotechnology and Veli Mäkinen of Bielefeld University, for their contributions to the pioneering work on finding missing pattern pairs in [1] and  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1007/11575832_19">doi:10.1007/11575832_19</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/jldoodom4zcaflkrnbg72byeru">fatcat:jldoodom4zcaflkrnbg72byeru</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20170810154730/https://str.i.kyushu-u.ac.jp/~inenaga/papers/spire2005.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/91/9c/919cf82c3ddd55b9912cdef1338182e74e5e23e9.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1007/11575832_19"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> springer.com </button> </a>

Engineering Anisotropic Biomimetic Fibrocartilage Microenvironment by Bioprinting Mesenchymal Stem Cells in Nanoliter Gel Droplets

Umut A. Gurkan, Rami El Assal, Simin E. Yildiz, Yuree Sung, Alexander J. Trachtenberg, Winston P. Kuo, Utkan Demirci
<span title="2014-03-13">2014</span> <i title="American Chemical Society (ACS)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/y5sludjkwbh5nkrrwedrml62lq" style="color: black;">Molecular Pharmaceutics</a> </i> &nbsp;
important role in drug discovery and development. 17−19 The need for complex microengineered 3D methods for tissue engineering applications is well accepted due to the limitations of 2D systems in effectively  ...  For GeneGo Metacore pathway and network analysis, fold regulation data obtained from qRT-PCR results were used.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1021/mp400573g">doi:10.1021/mp400573g</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/24495169">pmid:24495169</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC4096228/">pmcid:PMC4096228</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/6p5nddsm5ngo3cnyr2zlzxx6oa">fatcat:6p5nddsm5ngo3cnyr2zlzxx6oa</a> </span>
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Multiplexed discovery of sequence polymorphisms using base-specific cleavage and MALDI-TOF MS

M. Ehrich
<span title="2005-02-23">2005</span> <i title="Oxford University Press (OUP)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/hfp6p6inqbdexbsu4r7usndpte" style="color: black;">Nucleic Acids Research</a> </i> &nbsp;
To find an efficient solution for these applications, we developed a novel method that allows simultaneous analysis of multiple independent target regions (Multiplexed Comparative Sequence Analysis) by  ...  Sequence drafts and completed sequences for several other species are also available to researchers worldwide.  ...  Nelson for critical reading of the manuscript and helpful suggestions. Funding to pay the Open Access publication charges for this article was provided by SEQUENOM Inc., San Diego.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/nar/gni038">doi:10.1093/nar/gni038</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/15731331">pmid:15731331</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC549577/">pmcid:PMC549577</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/4evol4wpevbnrdbrdr6gipkihi">fatcat:4evol4wpevbnrdbrdr6gipkihi</a> </span>
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Automated comparative sequence analysis by base-specific cleavage and mass spectrometry for nucleic acid-based microbial typing

C. Honisch, Y. Chen, C. Mortimer, C. Arnold, O. Schmidt, D. van den Boom, C. R. Cantor, H. N. Shah, S. E. Gharbia
<span title="2007-06-11">2007</span> <i title="Proceedings of the National Academy of Sciences"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/nvtuoas5pbdsllkntnhizy4f4q" style="color: black;">Proceedings of the National Academy of Sciences of the United States of America</a> </i> &nbsp;
A model pathogen, Neisseria meningitidis, was used to validate the technology and explore its applicability as an alternative to dideoxy sequencing.  ...  Data derived from the public multilocus sequence typing (MLST) database (http://pubmlst.org/ neisseria) established a reference set of expected peak patterns.  ...  We thank Rick Crawford, Brian Groff, Michael Mosko, and Mark Swaisgood for their significant contributions to the development of the technology.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1073/pnas.0704152104">doi:10.1073/pnas.0704152104</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/17563374">pmid:17563374</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC1890566/">pmcid:PMC1890566</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/poaga67a3rdf7iyugd4frnclta">fatcat:poaga67a3rdf7iyugd4frnclta</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20180726195900/http://www.pnas.org/content/pnas/104/25/10649.full.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/ec/7a/ec7ac3907988b1f29b8faf04a2178978622e2c70.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1073/pnas.0704152104"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> Publisher / doi.org </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1890566" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Application of mass spectrometry to molecular diagnostics of viral infections

Lilia M Ganova-Raeva, Yury E Khudyakov
<span title="">2013</span> <i title="Informa UK Limited"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/ujdc57r5kfbs5gbib2dpazawfq" style="color: black;">Expert Review of Molecular Diagnostics</a> </i> &nbsp;
During the last decade, however, MS has successfully been used for molecular diagnostics of microbial and viral infections with the most notable applications being identification of pathogens, genomic  ...  tools for extracting clinical information from MS-derived data.  ...  For these applications, many oligonucleotide-size fragments generated by the cleavage may have the same length but different nucleotide compositions.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1586/erm.13.24">doi:10.1586/erm.13.24</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/23638820">pmid:23638820</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC5831079/">pmcid:PMC5831079</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/qqbgrodr3bagnccjzyhuzma4a4">fatcat:qqbgrodr3bagnccjzyhuzma4a4</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20190303125746/http://pdfs.semanticscholar.org/c9d5/a5e860ffb9dfde73de7211fa7eddb42bfee4.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/c9/d5/c9d5a5e860ffb9dfde73de7211fa7eddb42bfee4.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1586/erm.13.24"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> Publisher / doi.org </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5831079" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Discovery of nucleotide polymorphisms in the Musa gene pool by Ecotilling

Bradley J. Till, Joanna Jankowicz-Cieslak, László Sági, Owen A. Huynh, Hiroe Utsushi, Rony Swennen, Ryohei Terauchi, Chikelu Mba
<span title="2010-06-30">2010</span> <i title="Springer Nature"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/uujcme4xu5f5np4ytlgfenn5nm" style="color: black;">Theoretical and Applied Genetics</a> </i> &nbsp;
We describe the application of the Ecotilling method for the discovery and characterization of nucleotide polymorphisms in diploid and polyploid accessions of Musa.  ...  This strategy can be used to develop hypotheses for inheritance patterns of nucleotide polymorphisms within and between genome types.  ...  Acknowledgments We thank Pierre Lagoda (Plant Breeding and Genetics Section, IAEA) for useful discussions about banana accessions, and Mike Soriano (Chemical Analysis Unit, IAEA) for helpful discussions  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1007/s00122-010-1395-5">doi:10.1007/s00122-010-1395-5</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/20589365">pmid:20589365</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC2955235/">pmcid:PMC2955235</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/cznlnsvnmnaxhgyxos4q5l72pu">fatcat:cznlnsvnmnaxhgyxos4q5l72pu</a> </span>
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Progress of science from microscopy to microarrays (Part 1): Diagnosis of parasitic diseases

Sarman Singh, Ayan Dey
<span title="">2009</span> <i title="Medknow"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/5zzeehssqvfgdfar6xdsgmq36a" style="color: black;">Journal of Laboratory Physicians</a> </i> &nbsp;
Application of microarrays is new for parasites.  ...  This suggests that every discovery has scope for improvement, be it physics or be it biology.  ...  Application of microarrays is new for parasites.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.4103/0974-2727.54800">doi:10.4103/0974-2727.54800</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/21938240">pmid:21938240</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC3167961/">pmcid:PMC3167961</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/w7pdqju2o5cenicdu72piprnwi">fatcat:w7pdqju2o5cenicdu72piprnwi</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20210126100937/https://www.thieme-connect.de/products/ejournals/pdf/10.4103/0974-2727.54800.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/37/96/3796f69ee2373750291be76d89e41d58835b1438.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.4103/0974-2727.54800"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> Publisher / doi.org </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3167961" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Molecular approaches to study the insect gut symbiotic microbiota at the 'omics' age

Weibing Shi, Ryan Syrenne, Jian-Zhong Sun, Joshua S. Yuan
<span title="2010-02-07">2010</span> <i title="Wiley"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/3a3rxocdfjcntmdpefigd2lmki" style="color: black;">Insect Science</a> </i> &nbsp;
The traditional molecular techniques like DGGE, RFLP and FISH are covered with respect to how they are applied to study the composition, diversity and dynamics of insect gut symbiotic microbiota.  ...  The molecular and systems level analysis of insect gut symbiotic microbial community will allow us to discover novel biocatalysts for biomass deconstruction and to develop innovative strategies for pest  ...  Acknowledgments This research was supported by the Texas Agrilife Research Bioenergy Research Initiative, Sungrant and a spe-cial research initiative for Bioenergy sponsored by Jiangsu University, China  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1111/j.1744-7917.2010.01340.x">doi:10.1111/j.1744-7917.2010.01340.x</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/iadfniphwvbmdcrw3hn4jjol5a">fatcat:iadfniphwvbmdcrw3hn4jjol5a</a> </span>
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Host transcriptomics for diagnosis of infectious diseases: one step closer to clinical application

Octavio Ramilo, Asuncion Mejias
<span title="">2017</span> <i title="European Respiratory Society (ERS)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/atorwtwpevgcpi2i5crcljmqoe" style="color: black;">European Respiratory Journal</a> </i> &nbsp;
Measuring global patterns of host response to infection represents a new paradigm for the diagnosis of infectious diseases.  ...  They confirmed this observation in two additional cohorts using, also microarray-based assays, and subsequently in three discovery cohorts (n=111) using a PCR-based assay.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1183/13993003.00993-2017">doi:10.1183/13993003.00993-2017</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/28619965">pmid:28619965</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/lsyawecklzasregcnlfh3dbhem">fatcat:lsyawecklzasregcnlfh3dbhem</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20180722141624/http://erj.ersjournals.com/content/erj/49/6/1700993.full.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/9d/2d/9d2dc516679e4a8a7de34f2d8d2b96db2630e5ea.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1183/13993003.00993-2017"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> Publisher / doi.org </button> </a>

DNA Microarrays in Herbal Drug Research

Preeti Chavan, Kalpana Joshi, Bhushan Patwardhan
<span title="">2006</span> <i title="Hindawi Limited"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/zncaxvmd7zbqjjpq55yaq6a3ay" style="color: black;">Evidence-Based Complementary and Alternative Medicine</a> </i> &nbsp;
Natural products are gaining increased applications in drug discovery and development. Being chemically diverse they are able to modulate several targets simultaneously in a complex system.  ...  DNA microarrays serve as suitable high throughput tool for simultaneous analysis of multiple genes. Major practical applicability of DNA microarrays remains in DNA mutation and polymorphism analysis.  ...  Acknowledgments The authors thank CSIR, India for financial assistance (PC) during writing of this review.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/ecam/nel075">doi:10.1093/ecam/nel075</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/17173108">pmid:17173108</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC1697755/">pmcid:PMC1697755</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/5cdis3fl75az5nastl2uubzf3y">fatcat:5cdis3fl75az5nastl2uubzf3y</a> </span>
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Page 269 of Acta Physiologica Vol. 166, Issue 4 [page]

<span title="">1999</span> <i title="John Wiley &amp; Sons, Inc."> <a target="_blank" rel="noopener" href="https://archive.org/details/pub_acta-physiologica" style="color: black;">Acta Physiologica</a> </i> &nbsp;
\cta Physiol Scand 1999, 166, 261-277 Qualitative and quantitative measurement of mRNA in single fibre fragments by RI—PCR The application of RT combined with PCR has expanded the potential of MHC isoform  ...  for MHC protein isoform content (Uber & Pette 1993).  ... 
<span class="external-identifiers"> </span>
<a target="_blank" rel="noopener" href="https://archive.org/details/sim_acta-physiologica_1999-08_166_4/page/269" title="read fulltext microfilm" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Archive [Microfilm] <div class="menu fulltext-thumbnail"> <img src="https://archive.org/serve/sim_acta-physiologica_1999-08_166_4/__ia_thumb.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a>

AFLP-SSCP: A Useful AFLP-Based Method for Informative SNPs Discovery in Non-Model Organisms

Te-Hua Hsu, Yue Ning, Jin-Chywan Gwo
<span title="">2014</span> <i title="Scientific Research Publishing, Inc,"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/cqh2fc3uczgr3bldsyszxc5w5i" style="color: black;">Advances in Biological Chemistry</a> </i> &nbsp;
However, the high costs of SNPs discovery and genotyping assay limit the applications of SNP markers in non-model organisms.  ...  Recently, in spite of the development of high-throughput genotyping technologies, SNPs have been applied as markers for population genetic and high-density genetic mapping.  ...  Chang (Fisheries Research Institue, TAIWAN) for providing samples and Dr. Z.-Y. Wang (Ji-Mei University, Xiamen, PROC) for technical advice.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.4236/abc.2014.46042">doi:10.4236/abc.2014.46042</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/nzovex4uzjf6neyrb3fera32iu">fatcat:nzovex4uzjf6neyrb3fera32iu</a> </span>
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AmpliconDuo: A Split-Sample Filtering Protocol for High-Throughput Amplicon Sequencing of Microbial Communities

Anja Lange, Steffen Jost, Dominik Heider, Christina Bock, Bettina Budeus, Elmar Schilling, Axel Strittmatter, Jens Boenigk, Daniel Hoffmann, Maurizio Casiraghi
<span title="2015-11-02">2015</span> <i title="Public Library of Science (PLoS)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/s3gm7274mfe6fcs7e3jterqlri" style="color: black;">PLoS ONE</a> </i> &nbsp;
High throughput sequencing (HTSeq) of small ribosomal subunit amplicons has the potential for a comprehensive characterization of microbial community compositions, down to rare species.  ...  According to this protocol, we split samples and submit both halves to independent PCR and sequencing runs.  ...  Overall, comparison of the two panels suggests that application of the AmpliconDuo filter does not change community compositions.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1371/journal.pone.0141590">doi:10.1371/journal.pone.0141590</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/26523925">pmid:26523925</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC4629888/">pmcid:PMC4629888</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/rrywjr3lpnchzjhowo46yuupaa">fatcat:rrywjr3lpnchzjhowo46yuupaa</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20190504231340/https://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0141590&amp;type=printable" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/fd/53/fd537dffe7713bf58cad4f8a5308857381711e28.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1371/journal.pone.0141590"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> plos.org </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4629888" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

MESA: automated assessment of synthetic DNA fragments and simulation of DNA synthesis, storage, sequencing, and PCR errors

Michael Schwarz, Marius Welzel, Tolganay Kabdullayeva, Anke Becker, Bernd Freisleben, Dominik Heider, Alfonso Valencia
<span title="2020-03-04">2020</span> <i title="Oxford University Press (OUP)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/wmo54ba2jnemdingjj4fl3736a" style="color: black;">Bioinformatics</a> </i> &nbsp;
In this paper, we present MESA (Mosla Error Simulator), a web application for the assessment of DNA fragments based on limitations of DNA synthesis, amplification, cloning, sequencing methods, and biological  ...  To reduce the error probabilities of these techniques, DNA composition has to adhere to method-dependent restrictions.  ...  Acknowledgement The authors want to thank Janik Mesch for his contributions to the code base.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/bioinformatics/btaa140">doi:10.1093/bioinformatics/btaa140</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/32129840">pmid:32129840</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC7267826/">pmcid:PMC7267826</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/ug6b3xcw7vfqhdocrryknvjxae">fatcat:ug6b3xcw7vfqhdocrryknvjxae</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20220413064906/https://watermark.silverchair.com/btaa140.pdf?token=AQECAHi208BE49Ooan9kkhW_Ercy7Dm3ZL_9Cf3qfKAc485ysgAAAuIwggLeBgkqhkiG9w0BBwagggLPMIICywIBADCCAsQGCSqGSIb3DQEHATAeBglghkgBZQMEAS4wEQQMFKQ85OqCn23anRcXAgEQgIIClTQvBMXIVks0E3a6koVo7aCaCDSd5zewn7mAMCYLOIjcVEKkf_DLfrIjjUofOrCMaZgJUWkKd4EGiRIZ-VBlPeLJvnJq03VPIFtDIbwDGvLWg9ngZFpx8Ln8qEqL7HX4eQcF2_FDu95ESASkBRR7K2f1_gkJVMFypwHduOqUb_0LWQagAI1XmcnZzJfFBYFcsEvO1c6OGKH0qbmxAnAQuMGDqTLiSnC5oHs5-fzrx5b8Lp0kRPPh1YIT9kuzV-FId7Tu8k5tqoNJ3s7b7b6b_CdrIY4Fybi_FQzqJXesb8GJ3gW6tvnloS6A9GzL30iz7Ou3PzbXD8LUtx0wMFCml15b92POOqTlnVIdzIBKkeuix-Xuf7PexOjzlzCddfa6THE4TQVV_Ef3E1LPCPX9Wv_G-naU9Y8Vc_YeiQpD-5l7lQxgzBwOH5ZFd9OrigM8-xm4mHO4lS0khwRQ3RvuihkuqdQygxeqTlOD3BXn4PSPmCUlpLqMYcPt6AC3VtSE99gCto31IajLVXImw2DzQKs318vMNSas5wFEe79ZOoZP5jGJ24tjHRsVz-DFOndFc9STUqc8vQSFsnpjqbm2DnJl0zB1vet_U2NkCEYLdv0RJkjsH6SfTQt51P5UDIcOw13Ah3V25AZDWIWu8P_wS-mNgN8GDTOhBhdF8kpqOmFhI7_bVc46IPNW0zsucXD_fubi4bjkuVXouZmoHXvxtrq3Z6yBHtlA8aKIre_d64oYHD1u7KvHCCekcm4JwMl40q9Miu-3zeBYDwQ9YX05fypHH-QL9DzFV1u40m9nPlFkM2JjxKnl3MaRyb0zZM43aq_K0xwvrBQt447e8qG1MMBrQ5EEjgmU45zfiqQhtm6JJGX1qFA" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/3b/9e/3b9e0056bdce44527688da250ccd5cacea484420.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/bioinformatics/btaa140"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> oup.com </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7267826" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Resolvin E1 Reverses Experimental Periodontitis and Dysbiosis

Chun-Teh Lee, Ricardo Teles, Alpdogan Kantarci, Tsute Chen, Jon McCafferty, Jacqueline R. Starr, Luciana Carla Neves Brito, Bruce J. Paster, Thomas E. Van Dyke
<span title="2016-08-19">2016</span> <i title="The American Association of Immunologists"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/pbkbyur74rdkdgx2mbqyooa75e" style="color: black;">Journal of Immunology</a> </i> &nbsp;
Keerthana Krishnan for processing the samples in the sequencing analysis. Disclosures T.E.V.D. holds unlicensed patents relating to RvE1 in periodontal disease.  ...  This p value is then corrected for multiple comparisons using the false discovery rate method. Quantitative RT-PCR Quantitative RT-PCR (qRT-PCR) was used to confirm the results of RNAseq.  ...  Comparing mean fold changes (log 2 ) of 10 selected genes in RNA-seq and qRT-PCR, 10 genes have similar expression patterns (Table II) .  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.4049/jimmunol.1600859">doi:10.4049/jimmunol.1600859</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/27543615">pmid:27543615</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC5026932/">pmcid:PMC5026932</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/xxcqy64xjnglxmq2aqq5dsljuy">fatcat:xxcqy64xjnglxmq2aqq5dsljuy</a> </span>
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