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OD-seq: outlier detection in multiple sequence alignments

Peter Jehl, Fabian Sievers, Desmond G. Higgins
<span title="2015-08-25">2015</span> <i title="Springer Nature"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/n5zrklrhlzhtdorf4rk4rmeo3i" style="color: black;">BMC Bioinformatics</a> </i> &nbsp;
Using a MSA as input, OD-seq is able to detect outliers with very high sensitivity and specificity. Conclusion: OD-seq is a practical and simple method to detect outliers in MSAs.  ...  Multiple sequence alignments (MSA) are widely used in sequence analysis for a variety of tasks.  ...  In this paper, we introduce the OD-Seq package which attempts to identify outlier sequences in a multiple alignment.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1186/s12859-015-0702-1">doi:10.1186/s12859-015-0702-1</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/26303676">pmid:26303676</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC4548304/">pmcid:PMC4548304</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/jnvljanvxbbtlpxq3obdttpb6a">fatcat:jnvljanvxbbtlpxq3obdttpb6a</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20171012151311/http://publisher-connector.core.ac.uk/resourcesync/data/Springer-OA/pdf/50e/aHR0cDovL2xpbmsuc3ByaW5nZXIuY29tLzEwLjExODYvczEyODU5LTAxNS0wNzAyLTEucGRm.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/13/92/139245efeb6524d6edc2075899b4648b3b383a62.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1186/s12859-015-0702-1"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> springer.com </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4548304" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

EvalMSA: A Program to Evaluate Multiple Sequence Alignments and Detect Outliers

Alvaro Chiner-Oms, Fernando González-Candelas
<span title="">2016</span> <i title="SAGE Publications"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/if2lxezisvecpgymxjdulyfwky" style="color: black;">Evolutionary Bioinformatics</a> </i> &nbsp;
We present EvalMSA, a software tool for evaluating and detecting outliers in multiple sequence alignments (MSAs).  ...  This tool allows the identification of divergent sequences in MSAs by scoring the contribution of each row in the alignment to its quality using a sum-of-pair-based method and additional analyses.  ...  Acknowledgment We thank Dr Garcia-Garcerá for his help and comments in testing EvalMSA during its development.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.4137/ebo.s40583">doi:10.4137/ebo.s40583</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/27920488">pmid:27920488</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC5127606/">pmcid:PMC5127606</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/xnbabs42dnho7pst4apjgjgxpy">fatcat:xnbabs42dnho7pst4apjgjgxpy</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20180720205658/http://insights.sagepub.com/redirect_file.php?fileId=8021&amp;filename=6046-EBO-EvalMSA:-A-Program-to-Evaluate-Multiple-Sequence-Alignments-and-Detect.pdf&amp;fileType=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/7e/24/7e242e065bffad71f3cb9b4e22618466b3a50b05.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.4137/ebo.s40583"> <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/PMC5127606" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

LEON-BIS: multiple alignment evaluation of sequence neighbours using a Bayesian inference system

Renaud Vanhoutreve, Arnaud Kress, Baptiste Legrand, Hélène Gass, Olivier Poch, Julie D. Thompson
<span title="2016-07-07">2016</span> <i title="Springer Nature"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/n5zrklrhlzhtdorf4rk4rmeo3i" style="color: black;">BMC Bioinformatics</a> </i> &nbsp;
A standard procedure in many areas of bioinformatics is to use a multiple sequence alignment (MSA) as the basis for various types of homology-based inference.  ...  The accuracy and reliability of the predictions are demonstrated in large-scale comparisons using well annotated alignment databases, where the homologous sequence segments are detected with very high  ...  Acknowledgements We would like to thank the members of the BISTRO and BICS Bioinformatics Platforms in Strasbourg for their support.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1186/s12859-016-1146-y">doi:10.1186/s12859-016-1146-y</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/27387560">pmid:27387560</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC4936259/">pmcid:PMC4936259</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/d7rlg76umnhbhbzzx75rk37pum">fatcat:d7rlg76umnhbhbzzx75rk37pum</a> </span>
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Creating De Novo Overlapped Genes [article]

Dominic Y Logel, Paul R Jaschke
<span title="2022-02-16">2022</span> <i title="Cold Spring Harbor Laboratory"> bioRxiv </i> &nbsp; <span class="release-stage" >pre-print</span>
In this workflow we detail the methods to collect large numbers of related protein sequences, produce multiple sequence alignments (MSAs), use the MSAs to generate Hidden Markov Models and Markov Random  ...  Currently, a significant roadblock to this application is the potential for deactivating mutations in engineered genes.  ...  We thank G Sullivan for assistance with FASTX-toolkit, and T Blazejewski for explaining in detail to us how CAMEOS works.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1101/2022.02.15.480625">doi:10.1101/2022.02.15.480625</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/wgfdvtx7mnca5f3rezncnd3aea">fatcat:wgfdvtx7mnca5f3rezncnd3aea</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20220424012835/https://www.biorxiv.org/content/biorxiv/early/2022/02/16/2022.02.15.480625.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/7d/af/7daf815fb1e9505e7c3a117e07ebfbfe1d1f33a2.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1101/2022.02.15.480625"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> biorxiv.org </button> </a>

Evaluating the usefulness of alignment filtering methods to reduce the impact of errors on evolutionary inferences

Arnaud Di Franco, Raphaël Poujol, Denis Baurain, Hervé Philippe
<span title="2019-01-11">2019</span> <i title="Springer Nature"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/frh6t5i3jveazlshhan2ekhgcq" style="color: black;">BMC Evolutionary Biology</a> </i> &nbsp;
Multiple Sequence Alignments (MSAs) are the starting point of molecular evolutionary analyses. Errors in MSAs generate a non-historical signal that can lead to incorrect inferences.  ...  However, MSAs do not only contain alignment errors, but also primary sequence errors.  ...  Publisher's Note Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1186/s12862-019-1350-2">doi:10.1186/s12862-019-1350-2</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/30634908">pmid:30634908</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC6330419/">pmcid:PMC6330419</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/cr555dqdxfcjdgl5fdfsg6xnbm">fatcat:cr555dqdxfcjdgl5fdfsg6xnbm</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20190429134549/https://bmcevolbiol.biomedcentral.com/track/pdf/10.1186/s12862-019-1350-2" 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/e7/3d/e73df8f2e081a45c1384a35277b407ac52f5017e.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1186/s12862-019-1350-2"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> springer.com </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6330419" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

LMAP_S: Lightweight Multigene Alignment and Phylogeny eStimation

Emanuel Maldonado, Agostinho Antunes
<span title="2019-12-30">2019</span> <i title="Springer Science and Business Media LLC"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/n5zrklrhlzhtdorf4rk4rmeo3i" style="color: black;">BMC Bioinformatics</a> </i> &nbsp;
Therefore, multiple sequence alignments (MSA) and phylogenetic trees (PT) need to be estimated with optimal results.  ...  Recent advances in genome sequencing technologies and the cost drop in high-throughput sequencing continue to give rise to a deluge of data available for downstream analyses.  ...  ; MP: Maximum Parsimony; MSA: Multiple Sequence Alignment; MSF: Multiple Sequence File; MUSCLE: MUltiple Sequence Comparison by Log-Expectation; NCBI: National Center for Biotechnology Information; NDP  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1186/s12859-019-3292-5">doi:10.1186/s12859-019-3292-5</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/31888452">pmid:31888452</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC6937843/">pmcid:PMC6937843</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/s2i37zgqnrafdpvsxghj7skzgy">fatcat:s2i37zgqnrafdpvsxghj7skzgy</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20191231013551/https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-019-3292-5" 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/88/6a/886ab2f9a881482fc16ce41191bbaba3ad92c556.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1186/s12859-019-3292-5"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> springer.com </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6937843" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Current Trends and Ongoing Progress in the Computational Alignment of Biological Sequences

Muhammad Ishaq, Asfandyar Khan, Majid Khan, Muhammad Imran
<span title="">2019</span> <i title="Institute of Electrical and Electronics Engineers (IEEE)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/q7qi7j4ckfac7ehf3mjbso4hne" style="color: black;">IEEE Access</a> </i> &nbsp;
INDEX TERMS Dynamic programming optimization, multiple sequence alignment, evolutionary computations, categories of sequence alignment, recent trends in sequence alignment, local and global alignment,  ...  Researchers recently explore proposing novel computational techniques for simultaneous matching of multiple sequences or multiple sequence alignment (MSA).  ...  OD-seq detects outlier through the examination of average distance of individual sequence from other sequences. The sensitivity and specificity of OD-seq is very high [13] .  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1109/access.2019.2916154">doi:10.1109/access.2019.2916154</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/yovnluecmbashh4bmqsi6cas4i">fatcat:yovnluecmbashh4bmqsi6cas4i</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20210428222757/https://ieeexplore.ieee.org/ielx7/6287639/8600701/08712461.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/f6/7b/f67bdebca18f680f57a659816eb0d95f24b4865d.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1109/access.2019.2916154"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> ieee.com </button> </a>

A Species-Wide Inventory of NLR Genes and Alleles in Arabidopsis thaliana

Anna-Lena Van de Weyer, Freddy Monteiro, Oliver J. Furzer, Marc T. Nishimura, Volkan Cevik, Kamil Witek, Jonathan D.G. Jones, Jeffery L. Dangl, Detlef Weigel, Felix Bemm
<span title="2019-08-22">2019</span> <i title="Elsevier BV"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/iwommhyo5bdk7c3u37mhjzexfe" style="color: black;">Cell</a> </i> &nbsp;
Here, we define a nearly complete species-wide pan-NLRome in Arabidopsis thaliana based on sequence enrichment and long-read sequencing.  ...  Infectious disease is both a major force of selection in nature and a prime cause of yield loss in agriculture.  ...  methods before publication, Eunyoung Chae for contributing with alleles for bait design, Burkhard Steuernagel for assistance with demultiplexing, and Johannes Hofberger and Eric Schranz for providing sequences  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1016/j.cell.2019.07.038">doi:10.1016/j.cell.2019.07.038</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/31442410">pmid:31442410</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC6709784/">pmcid:PMC6709784</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/b3ok5fabbnct3k7qblamyjl7a4">fatcat:b3ok5fabbnct3k7qblamyjl7a4</a> </span>
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Mining metagenomes for natural product biosynthetic gene clusters: unlocking new potential with ultrafast techniques [article]

Emiliano Pereira, Marnix Medema, Pier Luigi Buttigieg, Peter Meinicke, Frank Oliver Gloeckner, Antonio Fernandez-Guerra
<span title="2021-01-20">2021</span> <i title="Cold Spring Harbor Laboratory"> bioRxiv </i> &nbsp; <span class="release-stage" >pre-print</span>
In these analyses, we demonstrate BiG-MEx's applicability to study the distribution, diversity, and ecological roles of BGCs in metagenomic data, and guide the exploration of natural products with clinical  ...  Metagenomics, as a culture-independent approach, has greatly enhanced our ability to survey the functional potential of microorganisms and is growing in popularity for the mining of BGCs.  ...  For each set of domain representative sequences, we generated an MSA with MAFFT using the E-INS-I algorithm, removed sequence outliers with OD-seq 52 and constructed a phylogenetic tree with RAxML 53 .  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1101/2021.01.20.427441">doi:10.1101/2021.01.20.427441</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/saepbmj43vdrflmgmj2aznvcb4">fatcat:saepbmj43vdrflmgmj2aznvcb4</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20210128010055/https://www.biorxiv.org/content/biorxiv/early/2021/01/20/2021.01.20.427441.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/7d/0a/7d0abda2d9197c3c0297c7ef5583790f0148e118.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1101/2021.01.20.427441"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> biorxiv.org </button> </a>

Evolutionary Patterns of Thylakoid Architecture in Cyanobacteria

Jan Mareš, Otakar Strunecký, Lenka Bučinská, Jana Wiedermannová
<span title="2019-02-22">2019</span> <i title="Frontiers Media SA"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/67anf6qgandy5adz4rakospiuq" style="color: black;">Frontiers in Microbiology</a> </i> &nbsp;
The last comprehensive study addressing their evolutionary history in cyanobacteria was published 15 years ago. Since then both DNA sequence and electron microscopy data have grown rapidly.  ...  Changes in thylakoid architecture in general follow the phylogeny of housekeeping loci.  ...  The validity of the 260 selected protein alignments was tested using OD-seq (Jehl et al., 2015) and Guidance v. 2.02 (Sela et al., 2015) detecting no sequence outliers.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.3389/fmicb.2019.00277">doi:10.3389/fmicb.2019.00277</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/30853950">pmid:30853950</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC6395441/">pmcid:PMC6395441</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/g3lx43vldnbctd3fjxjrtnbwym">fatcat:g3lx43vldnbctd3fjxjrtnbwym</a> </span>
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A genome-scale CRISPR interference guide library enables comprehensive phenotypic profiling in yeast

Nicholas J. McGlincy, Zuriah A. Meacham, Kendra K. Reynaud, Ryan Muller, Rachel Baum, Nicholas T. Ingolia
<span title="2021-03-23">2021</span> <i title="Springer Science and Business Media LLC"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/4srzxifvfrdlhjhg3dimznkp7m" style="color: black;">BMC Genomics</a> </i> &nbsp;
In order to obtain more accurate and robust guide abundance measurements in pooled screens, we link guides with random nucleotide barcodes and carry out linear amplification by in vitro transcription.  ...  Conclusions Taken together, we demonstrate a broadly useful platform for comprehensive, high-precision CRISPRi screening in yeast.  ...  Target sequences with multiple perfect genomic alignments were considered non-unique.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1186/s12864-021-07518-0">doi:10.1186/s12864-021-07518-0</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/33757429">pmid:33757429</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC7986282/">pmcid:PMC7986282</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/uqgx7va2ifc2bhhqf4lucdccqm">fatcat:uqgx7va2ifc2bhhqf4lucdccqm</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20210329061856/https://bmcgenomics.biomedcentral.com/track/pdf/10.1186/s12864-021-07518-0.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/7b/fb/7bfb40ec774f6fad52539b355b3c542f12c56573.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1186/s12864-021-07518-0"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> springer.com </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7986282" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Phylogeny and taxonomy of Synechococcus-like cyanobacteria

Jiri Komarek, Jeffrey R. Johansen, Jan Smarda, Otakar Strunecky
<span title="2020-10-14">2020</span> <i title="Palacky University Olomouc"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/mnmzvqb75fbh7eqxfmo4sh3aqa" style="color: black;">Fottea</a> </i> &nbsp;
Solitary, elongated cyanobacterial cells without apparent slime envelopes and dividing in a single plane perpendicular to the longitudinal axis were traditionally classified into the genus Synechococcus  ...  corresponding to various morphotypes and genotypes similar to the genus Synechococcus (Cyanobium, Parasynechococcus, Picosynechococcus, Prochlorococcus, Thermosynechococcus, Thermostichus) are discussed in  ...  The validity of the 260 selected protein alignments was tested using OD-seq (Jehl et al. 2015) and Guidance v. 2.02 (Sela et al. 2015) detecting no sequence outliers.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.5507/fot.2020.006">doi:10.5507/fot.2020.006</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/heduys4h6fca5oozllf6tbrh7y">fatcat:heduys4h6fca5oozllf6tbrh7y</a> </span>
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