Updating benchtop sequencing performance comparison

Jünemann S, Sedlazeck FJ, Prior K, Albersmeier A, John U, Kalinowski J, Mellmann A, Goesmann A, von Haeseler A, Stoye J, Harmsen D (2013)
Nature Biotechnology 31(4): 294-296.

Zeitschriftenaufsatz | Veröffentlicht | Englisch
 
Download
Es wurden keine Dateien hochgeladen. Nur Publikationsnachweis!
DOI
Autor*in
Jünemann, SebastianUniBi; Sedlazeck, Fritz Joachim; Prior, Karola; Albersmeier, AndreasUniBi; John, Uwe; Kalinowski, JörnUniBi; Mellmann, Alexander; Goesmann, AlexanderUniBi ; von Haeseler, Arndt; Stoye, JensUniBi ; Harmsen, Dag
Einrichtung
Centrum für Biotechnologie > Arbeitsgruppe J. Kalinowski
Centrum für Biotechnologie > Arbeitsgruppe A. Goesmann
Technische Fakultät > AG Genominformatik
Centrum für Biotechnologie > Arbeitsgruppe J. Stoye
Centrum für Biotechnologie > Institut für Bioinformatik
Centrum für Biotechnologie > Institut für Genomforschung und Systembiologie
Technische Fakultät > Computational Genomics
Erscheinungsjahr
2013
Zeitschriftentitel
Nature Biotechnology
Band
31
Ausgabe
4
Seite(n)
294-296
ISSN
1087-0156
eISSN
1546-1696
Page URI
https://pub.uni-bielefeld.de/record/2566922

Zitieren

Jünemann S, Sedlazeck FJ, Prior K, et al. Updating benchtop sequencing performance comparison. Nature Biotechnology. 2013;31(4):294-296.
Jünemann, S., Sedlazeck, F. J., Prior, K., Albersmeier, A., John, U., Kalinowski, J., Mellmann, A., et al. (2013). Updating benchtop sequencing performance comparison. Nature Biotechnology, 31(4), 294-296. doi:10.1038/nbt.2522
Jünemann, Sebastian, Sedlazeck, Fritz Joachim, Prior, Karola, Albersmeier, Andreas, John, Uwe, Kalinowski, Jörn, Mellmann, Alexander, et al. 2013. “Updating benchtop sequencing performance comparison”. Nature Biotechnology 31 (4): 294-296.
Jünemann, S., Sedlazeck, F. J., Prior, K., Albersmeier, A., John, U., Kalinowski, J., Mellmann, A., Goesmann, A., von Haeseler, A., Stoye, J., et al. (2013). Updating benchtop sequencing performance comparison. Nature Biotechnology 31, 294-296.
Jünemann, S., et al., 2013. Updating benchtop sequencing performance comparison. Nature Biotechnology, 31(4), p 294-296.
S. Jünemann, et al., “Updating benchtop sequencing performance comparison”, Nature Biotechnology, vol. 31, 2013, pp. 294-296.
Jünemann, S., Sedlazeck, F.J., Prior, K., Albersmeier, A., John, U., Kalinowski, J., Mellmann, A., Goesmann, A., von Haeseler, A., Stoye, J., Harmsen, D.: Updating benchtop sequencing performance comparison. Nature Biotechnology. 31, 294-296 (2013).
Jünemann, Sebastian, Sedlazeck, Fritz Joachim, Prior, Karola, Albersmeier, Andreas, John, Uwe, Kalinowski, Jörn, Mellmann, Alexander, Goesmann, Alexander, von Haeseler, Arndt, Stoye, Jens, and Harmsen, Dag. “Updating benchtop sequencing performance comparison”. Nature Biotechnology 31.4 (2013): 294-296.

107 Zitationen in Europe PMC

Daten bereitgestellt von Europe PubMed Central.

The use of next generation sequencing for improving food safety: Translation into practice.
Jagadeesan B, Gerner-Smidt P, Allard MW, Leuillet S, Winkler A, Xiao Y, Chaffron S, Van Der Vossen J, Tang S, Katase M, McClure P, Kimura B, Ching Chai L, Chapman J, Grant K., Food Microbiol 79(), 2019
PMID: 30621881
Draft Genome Sequences of Legionella taurinensis Recovered from a Hot Water System in Austria, 2018.
Chakeri A, Allerberger F, Kundi M, Stöger A, Rehak S, Ruppitsch W, Schmid D., Microbiol Resour Announc 8(3), 2019
PMID: 30687833
Comparative genomics reveals a lack of evidence for pigeons as a main source of stx2f-carrying Escherichia coli causing disease in humans and the common existence of hybrid Shiga toxin-producing and enteropathogenic E. coli pathotypes.
van Hoek AHAM, van Veldhuizen JNJ, Friesema I, Coipan C, Rossen JWA, Bergval IL, Franz E., BMC Genomics 20(1), 2019
PMID: 30953471
Genetic diversity and delineation of Salmonella Agona outbreak strains by next generation sequencing, Bavaria, Germany, 1993 to 2018.
Dangel A, Berger A, Messelhäußer U, Konrad R, Hörmansdorfer S, Ackermann N, Sing A., Euro Surveill 24(18), 2019
PMID: 31064635
"Enhanced acquisition of antibiotic-resistant intestinal E. coli during the first year of life assessed in a prospective cohort study".
Hetzer B, Orth-Höller D, Würzner R, Kreidl P, Lackner M, Müller T, Knabl L, Geisler-Moroder DR, Mellmann A, Sesli Ö, Holzknecht J, Noce D, Boonpala O, Akarathum N, Chotinaruemol S, Prelog M, Oberdorfer P., Antimicrob Resist Infect Control 8(), 2019
PMID: 31139362
Vaginal lactobacilli inhibit growth and hyphae formation of Candida albicans.
Jang SJ, Lee K, Kwon B, You HJ, Ko G., Sci Rep 9(1), 2019
PMID: 31148560
Core Genome Multilocus Sequence Typing: a Standardized Approach for Molecular Typing of Mycoplasma gallisepticum.
Ghanem M, Wang L, Zhang Y, Edwards S, Lu A, Ley D, El-Gazzar M., J Clin Microbiol 56(1), 2018
PMID: 29070657
Outbreak of Salmonella Bovismorbificans associated with the consumption of uncooked ham products, the Netherlands, 2016 to 2017.
Brandwagt D, van den Wijngaard C, Tulen AD, Mulder AC, Hofhuis A, Jacobs R, Heck M, Verbruggen A, van den Kerkhof H, Slegers-Fitz-James I, Mughini-Gras L, Franz E., Euro Surveill 23(1), 2018
PMID: 29317018
Multifactorial chromosomal variants regulate polymyxin resistance in extensively drug-resistant Klebsiella pneumoniae.
Pitt ME, Elliott AG, Cao MD, Ganesamoorthy D, Karaiskos I, Giamarellou H, Abboud CS, Blaskovich MAT, Cooper MA, Coin LJM., Microb Genom 4(3), 2018
PMID: 29431605
Identification of a Novel Genomic Island Associated with vanD-Type Vancomycin Resistance in Six Dutch Vancomycin-Resistant Enterococcus faecium Isolates.
Top J, Sinnige JC, Brouwer EC, Werner G, Corander J, Severin JA, Jansen R, Bathoorn E, Bonten MJM, Rossen JWA, Willems RJL., Antimicrob Agents Chemother 62(3), 2018
PMID: 29311068
Robust inference of population structure from next-generation sequencing data with systematic differences in sequencing.
Liao P, Satten GA, Hu YJ., Bioinformatics 34(7), 2018
PMID: 29186324
Distinctiveness and Similarities Between Extended-Spectrum β-Lactamase-Producing Escherichia coli Isolated from Cattle and the Community in Israel.
Lifshitz Z, Sturlesi N, Parizade M, Blum SE, Gordon M, Taran D, Adler A., Microb Drug Resist 24(6), 2018
PMID: 29664687
Do we treat our patients or rather periodontal microbes with adjunctive antibiotics in periodontal therapy? A 16S rDNA microbial community analysis.
Hagenfeld D, Koch R, Jünemann S, Prior K, Harks I, Eickholz P, Hoffmann T, Kim TS, Kocher T, Meyle J, Kaner D, Schlagenhauf U, Ehmke B, Harmsen D., PLoS One 13(4), 2018
PMID: 29668720
Long-Term, Low-Frequency Cluster of a German-Imipenemase-1-Producing Enterobacter hormaechei ssp. steigerwaltii ST89 in a Tertiary Care Hospital in Germany.
Wendel AF, Meyer S, Deenen R, Köhrer K, Kolbe-Busch S, Pfeffer K, Willmann M, Kaasch AJ, MacKenzie CR., Microb Drug Resist 24(9), 2018
PMID: 29750595
Defining and Evaluating a Core Genome Multilocus Sequence Typing Scheme for Genome-Wide Typing of Clostridium difficile.
Bletz S, Janezic S, Harmsen D, Rupnik M, Mellmann A., J Clin Microbiol 56(6), 2018
PMID: 29618503
High prevalence of MRSA and multi-resistant gram-negative bacteria in refugees admitted to the hospital-But no hint of transmission.
Kossow A, Stühmer B, Schaumburg F, Becker K, Glatz B, Möllers M, Kampmeier S, Mellmann A., PLoS One 13(5), 2018
PMID: 29851962
Genome analysis of methicillin resistance in Macrococcus caseolyticus from dairy cattle in England and Wales.
MacFadyen AC, Fisher EA, Costa B, Cullen C, Paterson GK., Microb Genom 4(8), 2018
PMID: 29916803
Geographically Diverse Clusters of Nontoxigenic Corynebacterium diphtheriae Infection, Germany, 2016-2017.
Dangel A, Berger A, Konrad R, Bischoff H, Sing A., Emerg Infect Dis 24(7), 2018
PMID: 29912709
New Nodule Type Found in the Lungs of Pomacea canaliculata, an Intermediate Host of Angiostrongylus cantonensis.
Guo Y, Zhou HC, Dong Y, Zhang T, Sun YY, Zhong JF, Cao YL, Shao SW, Pan YL, Dong HY., Iran J Parasitol 13(3), 2018
PMID: 30483326
Whole genome analyses of CMY-2-producing Escherichia coli isolates from humans, animals and food in Germany.
Pietsch M, Irrgang A, Roschanski N, Brenner Michael G, Hamprecht A, Rieber H, Käsbohrer A, Schwarz S, Rösler U, Kreienbrock L, Pfeifer Y, Fuchs S, Werner G, RESET Study Group., BMC Genomics 19(1), 2018
PMID: 30092762
Core Genome Multilocus Sequence Typing and Single Nucleotide Polymorphism Analysis in the Epidemiology of Brucella melitensis Infections.
Janowicz A, De Massis F, Ancora M, Cammà C, Patavino C, Battisti A, Prior K, Harmsen D, Scholz H, Zilli K, Sacchini L, Di Giannatale E, Garofolo G., J Clin Microbiol 56(9), 2018
PMID: 29925641
One-year molecular surveillance of carbapenem-susceptible A. baumannii on a German intensive care unit: diversity or clonality.
Wendel AF, Malecki M, Otchwemah R, Tellez-Castillo CJ, Sakka SG, Mattner F., Antimicrob Resist Infect Control 7(), 2018
PMID: 30505434
Slope aspect influences arbuscular mycorrhizal fungus communities in arid ecosystems of the Daqingshan Mountains, Inner Mongolia, North China.
Liu M, Zheng R, Bai S, Bai YE, Wang J., Mycorrhiza 27(3), 2017
PMID: 27838854
Application of next generation sequencing in clinical microbiology and infection prevention.
Deurenberg RH, Bathoorn E, Chlebowicz MA, Couto N, Ferdous M, García-Cobos S, Kooistra-Smid AM, Raangs EC, Rosema S, Veloo AC, Zhou K, Friedrich AW, Rossen JW., J Biotechnol 243(), 2017
PMID: 28042011
High Interlaboratory Reproducibility and Accuracy of Next-Generation-Sequencing-Based Bacterial Genotyping in a Ring Trial.
Mellmann A, Andersen PS, Bletz S, Friedrich AW, Kohl TA, Lilje B, Niemann S, Prior K, Rossen JW, Harmsen D., J Clin Microbiol 55(3), 2017
PMID: 28053217
GATK hard filtering: tunable parameters to improve variant calling for next generation sequencing targeted gene panel data.
De Summa S, Malerba G, Pinto R, Mori A, Mijatovic V, Tommasi S., BMC Bioinformatics 18(suppl 5), 2017
PMID: 28361668
Characterization of NIST human mitochondrial DNA SRM-2392 and SRM-2392-I standard reference materials by next generation sequencing.
Riman S, Kiesler KM, Borsuk LA, Vallone PM., Forensic Sci Int Genet 29(), 2017
PMID: 28460352
Complete Genome Sequence of the Disinfectant Susceptibility Testing Reference Strain Staphylococcus aureus subsp. aureus ATCC 6538.
Makarova O, Johnston P, Walther B, Rolff J, Roesler U., Genome Announc 5(19), 2017
PMID: 28495771
Complete Genome Sequence of the Livestock-Associated Methicillin-Resistant Strain Staphylococcus aureus subsp. aureus 08S00974 (Sequence Type 398).
Makarova O, Johnston P, Walther B, Rolff J, Roesler U., Genome Announc 5(19), 2017
PMID: 28495772
Ultrasensitive and high-efficiency screen of de novo low-frequency mutations by o2n-seq.
Wang K, Lai S, Yang X, Zhu T, Lu X, Wu CI, Ruan J., Nat Commun 8(), 2017
PMID: 28530222
Lost in plasmids: next generation sequencing and the complex genome of the tick-borne pathogen Borrelia burgdorferi.
Margos G, Hepner S, Mang C, Marosevic D, Reynolds SE, Krebs S, Sing A, Derdakova M, Reiter MA, Fingerle V., BMC Genomics 18(1), 2017
PMID: 28558786
Development and evaluation of a core genome multilocus typing scheme for whole-genome sequence-based typing of Acinetobacter baumannii.
Higgins PG, Prior K, Harmsen D, Seifert H., PLoS One 12(6), 2017
PMID: 28594944
Targeted next-generation sequencing of the 16S-23S rRNA region for culture-independent bacterial identification - increased discrimination of closely related species.
Sabat AJ, van Zanten E, Akkerboom V, Wisselink G, van Slochteren K, de Boer RF, Hendrix R, Friedrich AW, Rossen JWA, Kooistra-Smid AMDM., Sci Rep 7(1), 2017
PMID: 28611406
Increasing the reach of forensic genetics with massively parallel sequencing.
Budowle B, Schmedes SE, Wendt FR., Forensic Sci Med Pathol 13(3), 2017
PMID: 28631109
Comparison of classical multi-locus sequence typing software for next-generation sequencing data.
Page AJ, Alikhan NF, Carleton HA, Seemann T, Keane JA, Katz LS., Microb Genom 3(8), 2017
PMID: 29026660
Evaluation of metagenetic community analysis of planktonic copepods using Illumina MiSeq: Comparisons with morphological classification and metagenetic analysis using Roche 454.
Hirai J, Nagai S, Hidaka K., PLoS One 12(7), 2017
PMID: 28715458
Evolution and dissemination of the Klebsiella pneumoniae clonal group 258 throughout Israeli post-acute care hospitals, 2008-13.
Adler A, Lifshitz Z, Gordon M, Ben-David D, Khabra E, Masarwa S, Zion O, Schwaber MJ, Carmeli Y., J Antimicrob Chemother 72(8), 2017
PMID: 28486697
The efficacy and further functional advantages of random-base molecular barcodes for absolute and digital quantification of nucleic acid molecules.
Ogawa T, Kryukov K, Imanishi T, Shiroguchi K., Sci Rep 7(1), 2017
PMID: 29051542
High Throughput Sequencing for Detection of Foodborne Pathogens.
Sekse C, Holst-Jensen A, Dobrindt U, Johannessen GS, Li W, Spilsberg B, Shi J., Front Microbiol 8(), 2017
PMID: 29104564
Epidemiological information is key when interpreting whole genome sequence data - lessons learned from a large Legionella pneumophila outbreak in Warstein, Germany, 2013.
Petzold M, Prior K, Moran-Gilad J, Harmsen D, Lück C., Euro Surveill 22(45), 2017
PMID: 29162202
Burkholderia stabilis outbreak associated with contaminated commercially-available washing gloves, Switzerland, May 2015 to August 2016.
Sommerstein R, Führer U, Lo Priore E, Casanova C, Meinel DM, Seth-Smith HM, Kronenberg A, On Behalf Of Anresis, Koch D, Senn L, Widmer AF, Egli A, Marschall J, On Behalf Of Swissnoso., Euro Surveill 22(49), 2017
PMID: 29233255
Denoising DNA deep sequencing data-high-throughput sequencing errors and their correction.
Laehnemann D, Borkhardt A, McHardy AC., Brief Bioinform 17(1), 2016
PMID: 26026159
Intra-individual polymorphism in chloroplasts from NGS data: where does it come from and how to handle it?
Scarcelli N, Mariac C, Couvreur TL, Faye A, Richard D, Sabot F, Berthouly-Salazar C, Vigouroux Y., Mol Ecol Resour 16(2), 2016
PMID: 26388536
Genome mining of astaxanthin biosynthetic genes from Sphingomonas sp. ATCC 55669 for heterologous overproduction in Escherichia coli.
Ma T, Zhou Y, Li X, Zhu F, Cheng Y, Liu Y, Deng Z, Liu T., Biotechnol J 11(2), 2016
PMID: 26580858
Next-generation genotyping of hypervariable loci in many individuals of a non-model species: technical and theoretical implications.
Grogan KE, McGinnis GJ, Sauther ML, Cuozzo FP, Drea CM., BMC Genomics 17(), 2016
PMID: 26957424
Ultra-precise detection of mutations by droplet-based amplification of circularized DNA.
Wang K, Ma Q, Jiang L, Lai S, Lu X, Hou Y, Wu CI, Ruan J., BMC Genomics 17(), 2016
PMID: 26960407
Amplicon-based semiconductor sequencing of human exomes: performance evaluation and optimization strategies.
Damiati E, Borsani G, Giacopuzzi E., Hum Genet 135(5), 2016
PMID: 27003585
Detecting hybridization using ancient DNA.
Schaefer NK, Shapiro B, Green RE., Mol Ecol 25(11), 2016
PMID: 26826668
Human norovirus hyper-mutation revealed by ultra-deep sequencing.
Cuevas JM, Combe M, Torres-Puente M, Garijo R, Guix S, Buesa J, Rodríguez-Díaz J, Sanjuán R., Infect Genet Evol 41(), 2016
PMID: 27094861
Unveiling the molecular basis of antimicrobial resistance in Staphylococcus aureus from the Democratic Republic of the Congo using whole genome sequencing.
Phaku P, Lebughe M, Strauß L, Peters G, Herrmann M, Mumba D, Mellmann A, Muyembe-Tamfum JJ, Schaumburg F., Clin Microbiol Infect 22(7), 2016
PMID: 27102139
Using ultra-sensitive next generation sequencing to dissect DNA damage-induced mutagenesis.
Wang K, Ma X, Zhang X, Wu D, Sun C, Sun Y, Lu X, Wu CI, Guo C, Ruan J., Sci Rep 6(), 2016
PMID: 27122023
OrfM: a fast open reading frame predictor for metagenomic data.
Woodcroft BJ, Boyd JA, Tyson GW., Bioinformatics 32(17), 2016
PMID: 27153669
Evolutionary Events Associated with an Outbreak of Meningococcal Disease in Men Who Have Sex with Men.
Taha MK, Claus H, Lappann M, Veyrier FJ, Otto A, Becher D, Deghmane AE, Frosch M, Hellenbrand W, Hong E, Parent du Châtelet I, Prior K, Harmsen D, Vogel U., PLoS One 11(5), 2016
PMID: 27167067
Real-Time Genome Sequencing of Resistant Bacteria Provides Precision Infection Control in an Institutional Setting.
Mellmann A, Bletz S, Böking T, Kipp F, Becker K, Schultes A, Prior K, Harmsen D., J Clin Microbiol 54(12), 2016
PMID: 27558178
Gene panel sequencing improves the diagnostic work-up of patients with idiopathic erythrocytosis and identifies new mutations.
Camps C, Petousi N, Bento C, Cario H, Copley RR, McMullin MF, van Wijk R, Ratcliffe PJ, Robbins PA, Taylor JC, WGS500 Consortium., Haematologica 101(11), 2016
PMID: 27651169
Next Generation Sequencing of Pooled Samples: Guideline for Variants' Filtering.
Anand S, Mangano E, Barizzone N, Bordoni R, Sorosina M, Clarelli F, Corrado L, Martinelli Boneschi F, D'Alfonso S, De Bellis G., Sci Rep 6(), 2016
PMID: 27670852
Pathogenicity phenomena in three model systems: from network mining to emerging system-level properties.
Castelhano Santos N, Pereira MO, Lourenço A., Brief Bioinform 16(1), 2015
PMID: 24106130
Comparative analysis of subtyping methods against a whole-genome-sequencing standard for Salmonella enterica serotype Enteritidis.
Deng X, Shariat N, Driebe EM, Roe CC, Tolar B, Trees E, Keim P, Zhang W, Dudley EG, Fields PI, Engelthaler DM., J Clin Microbiol 53(1), 2015
PMID: 25378576
Comparing High-throughput Platforms for Sequencing the V4 Region of SSU-rDNA in Environmental Microbial Eukaryotic Diversity Surveys.
Mahé F, Mayor J, Bunge J, Chi J, Siemensmeyer T, Stoeck T, Wahl B, Paprotka T, Filker S, Dunthorn M., J Eukaryot Microbiol 62(3), 2015
PMID: 25312509
Monitoring gastric cancer progression with circulating tumour DNA.
Hamakawa T, Kukita Y, Kurokawa Y, Miyazaki Y, Takahashi T, Yamasaki M, Miyata H, Nakajima K, Taniguchi K, Takiguchi S, Mori M, Doki Y, Kato K., Br J Cancer 112(2), 2015
PMID: 25490524
Mutational profiling of therapy-related myelodysplastic syndromes and acute myeloid leukemia by next generation sequencing, a comparison with de novo diseases.
Ok CY, Patel KP, Garcia-Manero G, Routbort MJ, Fu B, Tang G, Goswami M, Singh R, Kanagal-Shamanna R, Pierce SA, Young KH, Kantarjian HM, Medeiros LJ, Luthra R, Wang SA., Leuk Res 39(3), 2015
PMID: 25573287
Integration of whole-genome sequencing into infection control practices: the potential and the hurdles.
Robilotti E, Kamboj M., J Clin Microbiol 53(4), 2015
PMID: 25673795
Analysis of the genetic diversity of influenza A viruses using next-generation DNA sequencing.
Van den Hoecke S, Verhelst J, Vuylsteke M, Saelens X., BMC Genomics 16(), 2015
PMID: 25758772
A platform for leveraging next generation sequencing for routine microbiology and public health use.
Rusu LI, Wyres KL, Reumann M, Queiroz C, Bojovschi A, Conway T, Garg S, Edwards DJ, Hogg G, Holt KE., Health Inf Sci Syst 3(suppl 1 hisa big data in biomedicine and healthcare 201), 2015
PMID: 25870761
HCV NS5A resistance-associated variants in a group of real-world Japanese patients chronically infected with HCV genotype 1b.
Hirotsu Y, Kanda T, Matsumura H, Moriyama M, Yokosuka O, Omata M., Hepatol Int 9(3), 2015
PMID: 25791176
Whole genome sequencing in clinical and public health microbiology.
Kwong JC, McCallum N, Sintchenko V, Howden BP., Pathology 47(3), 2015
PMID: 25730631
Investigating the mobilome in clinically important lineages of Enterococcus faecium and Enterococcus faecalis.
Mikalsen T, Pedersen T, Willems R, Coque TM, Werner G, Sadowy E, van Schaik W, Jensen LB, Sundsfjord A, Hegstad K., BMC Genomics 16(), 2015
PMID: 25885771
NGS-eval: NGS Error analysis and novel sequence VAriant detection tooL.
May A, Abeln S, Buijs MJ, Heringa J, Crielaard W, Brandt BW., Nucleic Acids Res 43(w1), 2015
PMID: 25878034
High-throughput sequencing in mutation detection: A new generation of genotoxicity tests?
Maslov AY, Quispe-Tintaya W, Gorbacheva T, White RR, Vijg J., Mutat Res 776(), 2015
PMID: 25934519
Evaluation of the Ion Torrent Personal Genome Machine for Gene-Targeted Studies Using Amplicons of the Nitrogenase Gene nifH.
Zhang B, Penton CR, Xue C, Wang Q, Zheng T, Tiedje JM., Appl Environ Microbiol 81(13), 2015
PMID: 25911484
TP53 mutation characteristics in therapy-related myelodysplastic syndromes and acute myeloid leukemia is similar to de novo diseases.
Ok CY, Patel KP, Garcia-Manero G, Routbort MJ, Peng J, Tang G, Goswami M, Young KH, Singh R, Medeiros LJ, Kantarjian HM, Luthra R, Wang SA., J Hematol Oncol 8(), 2015
PMID: 25952993
High-Throughput, Amplicon-Based Sequencing of the CREBBP Gene as a Tool to Develop a Universal Platform-Independent Assay.
Fuellgrabe MW, Herrmann D, Knecht H, Kuenzel S, Kneba M, Pott C, Brüggemann M., PLoS One 10(6), 2015
PMID: 26057250
High-fidelity target sequencing of individual molecules identified using barcode sequences: de novo detection and absolute quantitation of mutations in plasma cell-free DNA from cancer patients.
Kukita Y, Matoba R, Uchida J, Hamakawa T, Doki Y, Imamura F, Kato K., DNA Res 22(4), 2015
PMID: 26126624
Whole-genome sequencing in outbreak analysis.
Gilchrist CA, Turner SD, Riley MF, Petri WA, Hewlett EL., Clin Microbiol Rev 28(3), 2015
PMID: 25876885
Defining and Evaluating a Core Genome Multilocus Sequence Typing Scheme for Whole-Genome Sequence-Based Typing of Listeria monocytogenes.
Ruppitsch W, Pietzka A, Prior K, Bletz S, Fernandez HL, Allerberger F, Harmsen D, Mellmann A., J Clin Microbiol 53(9), 2015
PMID: 26135865
Utility of Whole-Genome Sequencing of Escherichia coli O157 for Outbreak Detection and Epidemiological Surveillance.
Holmes A, Allison L, Ward M, Dallman TJ, Clark R, Fawkes A, Murphy L, Hanson M., J Clin Microbiol 53(11), 2015
PMID: 26354815
Introduction to the analysis of next generation sequencing data and its application to venous thromboembolism.
Cunha ML, Meijers JC, Middeldorp S., Thromb Haemost 114(5), 2015
PMID: 26446408
DNA Barcoding through Quaternary LDPC Codes.
Tapia E, Spetale F, Krsticevic F, Angelone L, Bulacio P., PLoS One 10(10), 2015
PMID: 26492348
Quasispecies Analyses of the HIV-1 Near-full-length Genome With Illumina MiSeq.
Ode H, Matsuda M, Matsuoka K, Hachiya A, Hattori J, Kito Y, Yokomaku Y, Iwatani Y, Sugiura W., Front Microbiol 6(), 2015
PMID: 26617593
Evaluation and Validation of Assembling Corrected PacBio Long Reads for Microbial Genome Completion via Hybrid Approaches.
Lin HH, Liao YC., PLoS One 10(12), 2015
PMID: 26641475
Next-generation sequencing-based multigene mutational screening for acute myeloid leukemia using MiSeq: applicability for diagnostics and disease monitoring.
Luthra R, Patel KP, Reddy NG, Haghshenas V, Routbort MJ, Harmon MA, Barkoh BA, Kanagal-Shamanna R, Ravandi F, Cortes JE, Kantarjian HM, Medeiros LJ, Singh RR., Haematologica 99(3), 2014
PMID: 24142997
Bacterial genome sequencing in the clinic: bioinformatic challenges and solutions.
Fricke WF, Rasko DA., Nat Rev Genet 15(1), 2014
PMID: 24281148
Analysis, optimization and verification of Illumina-generated 16S rRNA gene amplicon surveys.
Nelson MC, Morrison HG, Benjamino J, Grim SL, Graf J., PLoS One 9(4), 2014
PMID: 24722003
Bacterial whole-genome sequencing revisited: portable, scalable, and standardized analysis for typing and detection of virulence and antibiotic resistance genes.
Leopold SR, Goering RV, Witten A, Harmsen D, Mellmann A., J Clin Microbiol 52(7), 2014
PMID: 24759713
Next generation restoration genetics: applications and opportunities.
Williams AV, Nevill PG, Krauss SL., Trends Plant Sci 19(8), 2014
PMID: 24767982
Whole genome sequencing as a tool to investigate a cluster of seven cases of listeriosis in Austria and Germany, 2011-2013.
Schmid D, Allerberger F, Huhulescu S, Pietzka A, Amar C, Kleta S, Prager R, Preußel K, Aichinger E, Mellmann A., Clin Microbiol Infect 20(5), 2014
PMID: 24698214
Whole-genome-based Mycobacterium tuberculosis surveillance: a standardized, portable, and expandable approach.
Kohl TA, Diel R, Harmsen D, Rothgänger J, Walter KM, Merker M, Weniger T, Niemann S., J Clin Microbiol 52(7), 2014
PMID: 24789177
OTG-snpcaller: an optimized pipeline based on TMAP and GATK for SNP calling from ion torrent data.
Zhu P, He L, Li Y, Huang W, Xi F, Lin L, Zhi Q, Zhang W, Tang YT, Geng C, Lu Z, Xu X., PLoS One 9(5), 2014
PMID: 24824529
Analysis of plant microbe interactions in the era of next generation sequencing technologies.
Knief C., Front Plant Sci 5(), 2014
PMID: 24904612
Ciliates and the rare biosphere: a review.
Dunthorn M, Stoeck T, Clamp J, Warren A, Mahé F., J Eukaryot Microbiol 61(4), 2014
PMID: 24801645
High-quality and high-throughput massively parallel sequencing of the human mitochondrial genome using the Illumina MiSeq.
King JL, LaRue BL, Novroski NM, Stoljarova M, Seo SB, Zeng X, Warshauer DH, Davis CP, Parson W, Sajantila A, Budowle B., Forensic Sci Int Genet 12(), 2014
PMID: 24973578
WGS Analysis and Interpretation in Clinical and Public Health Microbiology Laboratories: What Are the Requirements and How Do Existing Tools Compare?
Wyres KL, Conway TC, Garg S, Queiroz C, Reumann M, Holt K, Rusu LI., Pathogens 3(2), 2014
PMID: 25437808
Evaluation and optimisation of indel detection workflows for ion torrent sequencing of the BRCA1 and BRCA2 genes.
Yeo ZX, Wong JC, Rozen SG, Lee AS., BMC Genomics 15(), 2014
PMID: 24962530
Screening and genetic characterization of thermo-tolerant Synechocystis sp. PCC6803 strains created by adaptive evolution.
Tillich UM, Wolter N, Franke P, Dühring U, Frohme M., BMC Biotechnol 14(), 2014
PMID: 25029912
Validation of high throughput sequencing and microbial forensics applications.
Budowle B, Connell ND, Bielecka-Oder A, Colwell RR, Corbett CR, Fletcher J, Forsman M, Kadavy DR, Markotic A, Morse SA, Murch RS, Sajantila A, Schmedes SE, Ternus KL, Turner SD, Minot S., Investig Genet 5(), 2014
PMID: 25101166
Cost-efficient HIV-1 drug resistance surveillance using multiplexed high-throughput amplicon sequencing: implications for use in low- and middle-income countries.
Ekici H, Rao SD, Sönnerborg A, Ramprasad VL, Gupta R, Neogi U., J Antimicrob Chemother 69(12), 2014
PMID: 25085657
Efficient CRISPR-Cas9-mediated genome editing in Plasmodium falciparum.
Wagner JC, Platt RJ, Goldfless SJ, Zhang F, Niles JC., Nat Methods 11(9), 2014
PMID: 25108687
Solving the problem of comparing whole bacterial genomes across different sequencing platforms.
Kaas RS, Leekitcharoenphon P, Aarestrup FM, Lund O., PLoS One 9(8), 2014
PMID: 25110940
GABenchToB: a genome assembly benchmark tuned on bacteria and benchtop sequencers.
Jünemann S, Prior K, Albersmeier A, Albaum S, Kalinowski J, Goesmann A, Stoye J, Harmsen D., PLoS One 9(9), 2014
PMID: 25198770
Application of ion torrent sequencing to the assessment of the effect of alkali ballast water treatment on microbial community diversity.
Fujimoto M, Moyerbrailean GA, Noman S, Gizicki JP, Ram ML, Green PA, Ram JL., PLoS One 9(9), 2014
PMID: 25222021
An evaluation of alternative methods for constructing phylogenies from whole genome sequence data: a case study with Salmonella.
Pettengill JB, Luo Y, Davis S, Chen Y, Gonzalez-Escalona N, Ottesen A, Rand H, Allard MW, Strain E., PeerJ 2(), 2014
PMID: 25332847
Reply to Updating benchtop sequencing performance comparison.
Pallen MJ., Nat Biotechnol 31(4), 2013
PMID: 23563422
RNA-Seq facilitates a new perspective on signal transduction and gene regulation in important plant pathogens.
Vorhölter FJ., Mol Microbiol 88(6), 2013
PMID: 23659691
New generation sequencing in pathogen discovery and microbial surveillance.
Calistri A, Salata C, Parolin C, Palù G., Expert Rev Anti Infect Ther 11(9), 2013
PMID: 24053269
MLST revisited: the gene-by-gene approach to bacterial genomics.
Maiden MC, Jansen van Rensburg MJ, Bray JE, Earle SG, Ford SA, Jolley KA, McCarthy ND., Nat Rev Microbiol 11(10), 2013
PMID: 23979428
L_RNA_scaffolder: scaffolding genomes with transcripts.
Xue W, Li JT, Zhu YP, Hou GY, Kong XF, Kuang YY, Sun XW., BMC Genomics 14(), 2013
PMID: 24010822
High-throughput DNA sequencing errors are reduced by orders of magnitude using circle sequencing.
Lou DI, Hussmann JA, McBee RM, Acevedo A, Andino R, Press WH, Sawyer SL., Proc Natl Acad Sci U S A 110(49), 2013
PMID: 24243955

8 References

Daten bereitgestellt von Europe PubMed Central.

Performance comparison of benchtop high-throughput sequencing platforms.
Loman NJ, Misra RV, Dallman TJ, Constantinidou C, Gharbia SE, Wain J, Pallen MJ., Nat. Biotechnol. 30(5), 2012
PMID: 22522955
Complete genome sequence of enterohemorrhagic Escherichia coli O157:H7 and genomic comparison with a laboratory strain K-12.
Hayashi T, Makino K, Ohnishi M, Kurokawa K, Ishii K, Yokoyama K, Han CG, Ohtsubo E, Nakayama K, Murata T, Tanaka M, Tobe T, Iida T, Takami H, Honda T, Sasakawa C, Ogasawara N, Yasunaga T, Kuhara S, Shiba T, Hattori M, Shinagawa H., DNA Res. 8(1), 2001
PMID: 11258796
Assembly complexity of prokaryotic genomes using short reads.
Kingsford C, Schatz MC, Pop M., BMC Bioinformatics 11(), 2010
PMID: 20064276

AUTHOR UNKNOWN, 0
Assessing the quality of the DNA sequence from the Human Genome Project.
Felsenfeld A, Peterson J, Schloss J, Guyer M., Genome Res. 9(1), 1999
PMID: 9927479
Performance comparison of whole-genome sequencing platforms.
Lam HY, Clark MJ, Chen R, Chen R, Natsoulis G, O'Huallachain M, Dewey FE, Habegger L, Ashley EA, Gerstein MB, Butte AJ, Ji HP, Snyder M., Nat. Biotechnol. 30(1), 2011
PMID: 22178993
Genome evolution and adaptation in a long-term experiment with Escherichia coli.
Barrick JE, Yu DS, Yoon SH, Jeong H, Oh TK, Schneider D, Lenski RE, Kim JF., Nature 461(7268), 2009
PMID: 19838166
A tale of three next generation sequencing platforms: comparison of Ion Torrent, Pacific Biosciences and Illumina MiSeq sequencers.
Quail MA, Smith M, Coupland P, Otto TD, Harris SR, Connor TR, Bertoni A, Swerdlow HP, Gu Y., BMC Genomics 13(), 2012
PMID: 22827831
Export

Markieren/ Markierung löschen
Markierte Publikationen

Open Data PUB

Web of Science

Dieser Datensatz im Web of Science®
Quellen

PMID: 23563421
PubMed | Europe PMC

Suchen in

Google Scholar