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Clustal W and Clustal X version 2.0

M.A. Larkin, G. Blackshields, N.P. Brown, R. Chenna, P.A. McGettigan, H. McWilliam, F. Valentin, I.M. Wallace, A. Wilm, R. Lopez, J.D. Thompson, T.J. Gibson (+1 others)
<span title="2007-09-10">2007</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;
The Clustal W and Clustal X multiple sequence alignment programs have been completely rewritten in Cþþ.  ...  This will facilitate the further development of the alignment algorithms in the future and has allowed proper porting of the programs to the latest versions of Linux, Macintosh and Windows operating systems  ...  It is in this context that we developed Clustal W 2.0 and Clustal X 2.0.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/bioinformatics/btm404">doi:10.1093/bioinformatics/btm404</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/17846036">pmid:17846036</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/bqbwcirmdbasna7blti66oubxi">fatcat:bqbwcirmdbasna7blti66oubxi</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20160616112554/http://bioinformatics.oxfordjournals.org:80/content/23/21/2947.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/3f/87/3f871a6e7cfe07412db97c597fb22eb8e3e464c2.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/bioinformatics/btm404"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> oup.com </button> </a>

Determination of the quaternary structure of a bacterial ATP-binding cassette (ABC) transporter in living cells

Deo R. Singh, Mohammad M. Mohammad, Suparna Patowary, Michael R. Stoneman, Julie A. Oliver, Liviu Movileanu, Valerică Raicu
<span title="">2013</span> <i title="Royal Society of Chemistry (RSC)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/6gpfpfolznegfa5kxsrfefrvqi" style="color: black;">Integrative Biology</a> </i> &nbsp;
Larkin, et al., Clustal W and Clustal X version 2.0, Bioinformatics, 2007, 23, 2947-2948.  ...  Asterisks represent identical amino acids and periods represent similar amino acids.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1039/c2ib20218b">doi:10.1039/c2ib20218b</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/23223798">pmid:23223798</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC3558595/">pmcid:PMC3558595</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/vtwtocm43vfj5bgjtbo4afdxpu">fatcat:vtwtocm43vfj5bgjtbo4afdxpu</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20190303150535/http://pdfs.semanticscholar.org/b783/b098a18b66f846c7873e7889c549acfc5804.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/b7/83/b783b098a18b66f846c7873e7889c549acfc5804.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1039/c2ib20218b"> <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/PMC3558595" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Oceanibacterium hippocampi gen. nov., sp. nov., isolated from cutaneous mucus of wild seahorses (Hippocampus guttulatus)

José Luis Balcázar, Miquel Planas, José Pintado
<span title="2012-03-28">2012</span> <i title="Springer Nature"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/sezxmuacp5agtpp4lpszyixfae" style="color: black;">Antonie van Leeuwenhoek. International Journal of General and Molecular Microbiology</a> </i> &nbsp;
(2007) Clustal W and Clustal X version 2.0. Bioinformatics 23:2947-2948.  ...  Phylogenetic analysis was performed using the software MEGA 107 version 5.0 (Tamura et al. 2011) after multiple alignments of data by CLUSTAL W 108 (Larkin et al. 2007 ).  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1007/s10482-012-9726-y">doi:10.1007/s10482-012-9726-y</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/22453519">pmid:22453519</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/fvhet4jmvfcqtk7bkqqwdsp75u">fatcat:fvhet4jmvfcqtk7bkqqwdsp75u</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20171128232238/https://core.ac.uk/download/pdf/36063216.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/5c/65/5c6567e6ec83245759c385b3246976963c2212c6.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1007/s10482-012-9726-y"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> springer.com </button> </a>

NGS for Studying Viruses "Beyond the Consensus"

Jan T Kim
<span title="2014-12-30">2014</span> <i title="EMBnet Stichting"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/safaaq4uondrvmmn5dstg3qpp4" style="color: black;">EMBnet journal</a> </i> &nbsp;
J Bioinform Comput Biol 2, 289-307. http://dx.doi.org/10.1142/ S0219720004000569 Larkin M, Blackshields G, Brown N, Chenna R, McGettigan P, et al. (2007) Clustal W and Clustal X version 2.0.  ...  I will demonstrate their construction, outline some opportunities for their future use in studying viral diversity and quasispecies, and discuss technical requirements for their appropriate and efficient  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.14806/ej.20.a.774">doi:10.14806/ej.20.a.774</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/qc5u4uphjvg77cn4gh5uc4zsxa">fatcat:qc5u4uphjvg77cn4gh5uc4zsxa</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20180721134009/http://journal.embnet.org/index.php/embnetjournal/article/download/774/1130" 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/12/63/1263bb6d630b01dae75daa085d2af2a66d97b25e.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.14806/ej.20.a.774"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> Publisher / doi.org </button> </a>

A Plasmodium falciparum PHIST protein binds the virulence factor PfEMP1 and comigrates to knobs on the host cell surface

Alexander Oberli, Leanne M. Slater, Erin Cutts, Françoise Brand, Esther Mundwiler-Pachlatko, Sebastian Rusch, Martin F. G. Masik, Michèle C. Erat, Hans-Peter Beck, Ioannis Vakonakis
<span title="">2014</span> <i title="FASEB"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/hgtmuqdd5zhxlk42ziziwna6jy" style="color: black;">The FASEB Journal</a> </i> &nbsp;
J., and Higgins, D. G. (2007) Clustal W and Clustal X version 2.0. Bioinformatics 23, 2947-2948 2. Lavstsen, T., Salanti, A., Jensen, A. T., Arnot, D. E., and Theander, T.  ...  B., Arendall, W. B., 3rd, Headd, J. J., Keedy, D. A., Immormino, R. M., Kapral, G. J., Murray, L. W., Richardson, J. S., and Richardson, D.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1096/fj.14-256057">doi:10.1096/fj.14-256057</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/24983468">pmid:24983468</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC4202109/">pmcid:PMC4202109</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/6tq3q4qzqzhide7yhcu4ksetza">fatcat:6tq3q4qzqzhide7yhcu4ksetza</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20190307151055/http://pdfs.semanticscholar.org/d873/40bc42412cd4e36e089795d28de7a0e7c9c3.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/d8/73/d87340bc42412cd4e36e089795d28de7a0e7c9c3.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1096/fj.14-256057"> <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/PMC4202109" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Multiple sequence alignment accuracy and evolutionary distance estimation

Michael S Rosenberg
<span title="2005-11-23">2005</span> <i title="Springer (Biomed Central Ltd.)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/n5zrklrhlzhtdorf4rk4rmeo3i" style="color: black;">BMC Bioinformatics</a> </i> &nbsp;
Sequence alignment is a common tool in bioinformatics and comparative genomics.  ...  These results have implications for choosing new taxa and genomes to sequence when resources are limited.  ...  Acknowledgements Thanks to Heath Ogden and anonymous reviewers for comments on this manuscript. This work was partially supported by the NIH R03-LM008637 and Arizona State University.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1186/1471-2105-6-278">doi:10.1186/1471-2105-6-278</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/16305750">pmid:16305750</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC1318491/">pmcid:PMC1318491</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/7zvc77pksneufjc6pppzj5z6hy">fatcat:7zvc77pksneufjc6pppzj5z6hy</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20190430023338/https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/1471-2105-6-278" 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/10/71/10716181f3b3316b5f7c24ed1f679e58564fc11b.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1186/1471-2105-6-278"> <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/PMC1318491" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Page 21 of Genetics Vol. 181, Issue 1 [page]

<span title="">2009</span> <i title="Genetics Society of America"> <a target="_blank" rel="noopener" href="https://archive.org/details/pub_genetics" style="color: black;">Genetics </a> </i> &nbsp;
McGrrriGan et al., 2007 Clustal W and clustal X version 2.0. Bioinformatics 23: 2947-2948. — , Ler, YN. and P. D. Brentasz, 2007 Reconstitution of an infectious human endogenous retrovirus.  ...  W. Boyer and R. B. HELLING, 1973 Construction of biologically functional bacterial plasmids in vitro. Proc. Natl Acad. Sci. USA 70: 3240-3244 Druin, D.A., J.C. Way and P. A.  ... 
<span class="external-identifiers"> </span>
<a target="_blank" rel="noopener" href="https://archive.org/details/sim_genetics_2009-01_181_1/page/21" 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_genetics_2009-01_181_1/__ia_thumb.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a>

Identification of Non‐B Human Immunodeficiency Virus Type 1 Subtypes in Rural Georgia

Chad Womack, William Roth, Cheryl Newman, J. Peter Rissing, Roger Lovell, David Haburchak, Max Essex, V. Craig Bond
<span title="">2001</span> <i title="Oxford University Press (OUP)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/6eizmyf7jjbndicuzr52yx465q" style="color: black;">Journal of Infectious Diseases</a> </i> &nbsp;
Two patients, GA132 and GA169, were infected with pol sequences of non-B subtype origin that were found to cluster phylogenetically with subtype A-E of Thai origin.  ...  These data demonstrate an increasing diversity of HIV-1 subtypes and the potential emergence of previously unidentified HIV-1 A-E/B recombinants in the rural United States.  ...  Stuart Ray (Johns Hopkins University School of Medicine, Baltimore), who developed the Simplot program, and Dr. Jean Carr (Henry M.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1086/317649">doi:10.1086/317649</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/11106540">pmid:11106540</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/zyg4qxjvcrcvbcivg7x5rr4xu4">fatcat:zyg4qxjvcrcvbcivg7x5rr4xu4</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20180730185456/https://watermark.silverchair.com/183-1-138.pdf?token=AQECAHi208BE49Ooan9kkhW_Ercy7Dm3ZL_9Cf3qfKAc485ysgAAAZ0wggGZBgkqhkiG9w0BBwagggGKMIIBhgIBADCCAX8GCSqGSIb3DQEHATAeBglghkgBZQMEAS4wEQQMjpCF8KQsmLgtIF_XAgEQgIIBUK1gXozw9XtDP_iP9f-A5lEJBFR0wQV4-sKHAbaqXdfyDBFDZ4QmLhjBsYsbScS22tUbVUu3h59zF_IwkWmUpoobP25zz1zsfD0IKvqPZ91P0oXrIcf3j1QGYDyU5J2F0XK_Ka7G_UpnUeofdHrSw66NkzgadBP-3g1jCIKesOgQPZMxtizvq4vEaWB3zxZdbZuxejdQuOlsu7AAK6HJmw5O007xHbBorfVNImwOUQg0IFZSKHqAqJuVi6GSrDBruXw-fLPaUO7HwfQhi7F7zIWo0shmsjRPFCYhMfIAmHMgQtjVXUWM0Ia-gMNDy7q4W6E_8khBnNu3kBrORdGj6ZJfdIrQGhKhCAf4fFJeOpOcozyYiIENGd2QH4IjUrnBYNLt_L-6oKgV9KpY8_GapRLhBrNXgz-6_ZtDWZwv1JXgBi7bZ_xS1t-ha08kGxKqaw" 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/52/7b525d6847563e5cfb580809bd9c01a90bf866df.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1086/317649"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> Publisher / doi.org </button> </a>

Comparison of two alignment techniques within a single complex data set: POY versus Clustal

Matthew D. Terry, Michael F. Whiting
<span title="">2005</span> <i title="Wiley"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/en7cpxbttbgfjkakndiqypwfey" style="color: black;">Cladistics</a> </i> &nbsp;
Exploration of the performance of both POY and Clustal for a large insect data set incorporating three genes (18S, 28S, H3) and morphology reveals that the performance of POY, as measured by and ILD metric  ...  Such investigations are rarely, if ever, performed for Clustal alignments as some manual adjustments are nearly always incorporated in the final alignment.  ...  Clement and Q. Snell, based on code made freely available by W. Wheeler. This work was supported by NSF grants DEB-0206363 and DEB-9983195 with NSF REU supplements.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1111/j.1096-0031.2005.00063.x">doi:10.1111/j.1096-0031.2005.00063.x</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/2b5ymnnnszgkdjdwwdlwv3epxq">fatcat:2b5ymnnnszgkdjdwwdlwv3epxq</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20060906071315/http://www.gwu.edu/~clade/bisc%20207/Terry%20&amp;%20Whiting%202005.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/b0/16/b0167df6e490dd2db6ec6b0dd32f6622d9d88b34.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1111/j.1096-0031.2005.00063.x"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> Publisher / doi.org </button> </a>

An Improved Chemical Reaction-Based Approach for Multiple Sequence Alignment

Rohit Kumar Yadav, Haider Banka
<span title="2017-02-10">2017</span> <i title="Current Science Association"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/nmkyx56qrjdvxaaigyk7fay56y" style="color: black;">Current Science</a> </i> &nbsp;
In the performance analysis, we have taken benchmark datasets from Bali base version 2.0.  ...  The Bali score of the proposed approach is compared with those of the existing approaches such as SB-PIMA, SAGA, RBT-GA and GAPAM, HMMT.  ...  Dataset For comparison, we have taken a dataset from BAliBASE version 2.0.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.18520/cs/v112/i03/527-538">doi:10.18520/cs/v112/i03/527-538</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/kxh2s3bomjehzb7g5ggfjkqule">fatcat:kxh2s3bomjehzb7g5ggfjkqule</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20180602172958/http://www.currentscience.ac.in/Volumes/112/03/0527.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/e5/04/e504ba2f1317538e62868c08d9c5bcecee04cf61.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.18520/cs/v112/i03/527-538"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> Publisher / doi.org </button> </a>

The accuracy of several multiple sequence alignment programs for proteins

Paulo A S Nuin, Zhouzhi Wang, Elisabeth R M Tillier
<span title="2006-10-24">2006</span> <i title="Springer (Biomed Central Ltd.)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/n5zrklrhlzhtdorf4rk4rmeo3i" style="color: black;">BMC Bioinformatics</a> </i> &nbsp;
We also considered benchmark alignments from the latest version of BAliBASE and the results relative to BAliBASE- and Simprot-generated data sets were consistent in most cases.  ...  and controlled evolutionary scenarios.  ...  Acknowledgements We thank Daniel Lei for helping in the analysis, RL Charlebois for critical reading of the manuscript and Joy Abramson for Simprot support.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1186/1471-2105-7-471">doi:10.1186/1471-2105-7-471</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/17062146">pmid:17062146</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC1633746/">pmcid:PMC1633746</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/2slzmchfdvccpko6jkxfkelvha">fatcat:2slzmchfdvccpko6jkxfkelvha</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20190427182052/https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/1471-2105-7-471" 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/3d/7d3df7bca6dc758307267f2ad7d2eda05375e006.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1186/1471-2105-7-471"> <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/PMC1633746" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Kalium 2.0, a comprehensive database of polypeptide ligands of potassium channels

Valentin M. Tabakmakher, Nikolay A. Krylov, Alexey I. Kuzmenkov, Roman G. Efremov, Alexander A. Vassilevski
<span title="2019-05-27">2019</span> <i title="Springer Science and Business Media LLC"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/a577b42d4nfhddl7kurxnuyzem" style="color: black;">Scientific Data</a> </i> &nbsp;
To address this issue, here we present the updated and improved Kalium 2.0 that covers virtually all known polypeptide ligands of potassium channels and reviews all available pharmacological data.  ...  They take vital parts in numerous physiological processes and their malfunction gives rise to a range of pathologies.  ...  This work was funded by the Molecular and Cell Biology Program of the Russian Academy of Sciences, the Basic Research Program at the National Research University Higher School of Economics and by the Russian  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1038/s41597-019-0074-x">doi:10.1038/s41597-019-0074-x</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/31133708">pmid:31133708</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC6536513/">pmcid:PMC6536513</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/y6us5hw6q5f7teymyevwkoowxq">fatcat:y6us5hw6q5f7teymyevwkoowxq</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20200315040149/https://www.nature.com/articles/s41597-019-0074-x.pdf?error=cookies_not_supported&amp;code=7d3af2d1-dcbf-4d2f-8961-b28ce1cbed7f" 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/32/ed/32ed3f579a61b10eeaf45666b913f267c46335c0.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1038/s41597-019-0074-x"> <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/PMC6536513" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice

Julie D. Thompson, Desmond G. Higgins, Toby J. Gibson
<span title="">1994</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;
These modifications are incorporated into a new program, CLUSTAL W which is freely available.  ...  Firstly, individual weights are assigned to each sequence in a partial alignment in order to downweight near-duplicate sequences and up-weight the most divergent ones.  ...  ACKNOWLEDGEMENTS Numerous people have offered advice and suggestions for improvements to earlier versions of the CLUSTAL programs.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/nar/22.22.4673">doi:10.1093/nar/22.22.4673</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/7984417">pmid:7984417</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC308517/">pmcid:PMC308517</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/bxks5rxhmfej7gioz3xl22lafy">fatcat:bxks5rxhmfej7gioz3xl22lafy</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20100816101227/http://www-stat.stanford.edu/~nzhang/345_web/papers/Sequence/ClustalW.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/fc/8f/fc8f0f1fa26be5393a141b242841f587d873a893.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/nar/22.22.4673"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> oup.com </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC308517" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Screening bacterial metabolites for inhibitory effects against Batrachochytrium dendrobatidis using a spectrophotometric assay

SC Bell, RA Alford, S Garland, G Padilla, AD Thomas
<span title="2013-03-13">2013</span> <i title="Inter-Research Science Center"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/to323l4vlrbfhial3g4bvzkdpi" style="color: black;">Diseases of Aquatic Organisms</a> </i> &nbsp;
The taxonomic affiliation of bacterial isolates that were totally inhibitory to Batrachochytrium dendrobatidis and details of the molecular methods that were used to generate these data MATERIALS AND METHODS  ...  The thermocycling parameters were: 95°C for 15 min followed by 35 cycles of 94°C for 1 min, 48°C for 1 min, 72°C for 1.5 min and a final elongation for 10 min at 72°C.  ...  John Wiley & Sons, Chichester, p 115-175 Larkin MA, Blackshields G, Brown NP, Chenna R and others (2007) Clustal W and Clustal X version 2.0.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.3354/dao02560">doi:10.3354/dao02560</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/23482387">pmid:23482387</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/v7szotwh5ndjlhtmrnw464zcyu">fatcat:v7szotwh5ndjlhtmrnw464zcyu</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20150922082503/http://www.int-res.com/articles/suppl/d103p077_supp.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/af/7b/af7bdc1173b35e184c7d61a4f3c696233c1a7205.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.3354/dao02560"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> Publisher / doi.org </button> </a>

Multiple Sequence Alignment with Evolutionary Computation

Conrad Shyu, Luke Sheneman, James A. Foster
<span title="">2004</span> <i title="Springer Nature"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/kaqfiyu23jaedmsqlirt7rbdxq" style="color: black;">Genetic Programming and Evolvable Machines</a> </i> &nbsp;
We compare both of our novel approaches to the popular progressive alignment program Clustal W.  ...  Experiments have confirmed that EC constitutes an attractive and promising alternative to traditional heuristic algorithms for MSA.  ...  The authors would like to thank Jason Evans for helpful reviews and comments.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1023/b:genp.0000023684.05565.78">doi:10.1023/b:genp.0000023684.05565.78</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/x4lqgrbmbbb5xot23xee427csi">fatcat:x4lqgrbmbbb5xot23xee427csi</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20170811222823/http://people.ibest.uidaho.edu/~foster/Papers/47749.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/49/16/4916003112aba1ebc3dcc56af5946f6f7bdaf9e8.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1023/b:genp.0000023684.05565.78"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> Publisher / doi.org </button> </a>
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