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Correction: Strategies for achieving high sequencing accuracy for low diversity samples and avoiding sample bleeding using illumina platform

Authors:
Published in the journal: PLoS ONE 15(1)
Category: Correction
doi: https://doi.org/10.1371/journal.pone.0227431

The images for Figs 1 and 2 are incorrectly switched. The image that appears as Fig 1 should be Fig 2, and the image that appears as Fig 2 should be Fig 1. The figure captions appear in the correct order. Please view Figs 1 and 2 with the correct captions here.

Example of differences between base frequencies and raw images from sequencing a low initial sequence diversity sample and a diverse sample. — Fig. 1. Example of differences between base frequencies and raw images from sequencing a low initial sequence diversity sample and a diverse sample.
The low initial sequence diversity sample is highlighted in red (top panel) and a diverse sample is highlighted in blue (bottom panel). Per cycle intensity (which correlates with base frequency) pie charts are shown at the top for each sample. The low diversity sample (top) has an 11bp 5′ -barcode, that causes different base frequencies than in the diverse human sample (bottom). For each sample, the bottom panel shows raw sequencing images from the first cycle of sequencing. The imbalanced frequency distribution in the top panel (barcoded, low diversity sample, highlighted in red) is due to over-representation of the base ‘T’, the first base in the barcode. There is also some signal from base ‘C’ due to linker sequencing.

Lack of sequence diversity in first four positions causes errors in base calling in later cycles. — Fig. 2. Lack of sequence diversity in first four positions causes errors in base calling in later cycles.
Template used for cluster calling is created using only data from the first four cycles (top). Once the template is generated, it is never corrected (bottom). Templates created based on low-sequence diversity cycles tend to be of poor quality (bottom right) and result in poor cluster detection for later, normal diversity cycles as well, thus globally compromising sequencing quality.

Zdroje

1. Mitra A, Skrzypczak M, Ginalski K, Rowicka M (2015) Strategies for Achieving High Sequencing Accuracy for Low Diversity Samples and Avoiding Sample Bleeding Using Illumina Platform. PLoS ONE 10(4): e0120520. https://doi.org/10.1371/journal.pone.0120520 doi: 10.1371/journal.pone.0120520 25860802

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Článek Occupational exposure to particulate matter from air pollution in the outdoor workplaces in Almaty during the cold season

Článek Morphological adjustment in free-living Steinernema feltiae infective juveniles to increasing concentration of Nemafric-BL phytonematicide

Článek Key necroptotic proteins are required for Smac mimetic-mediated sensitization of cholangiocarcinoma cells to TNF-α and chemotherapeutic gemcitabine-induced necroptosis

Článek Concurrent lipidomics and proteomics on malignant plasma cells from multiple myeloma patients: Probing the lipid metabolome

Článek Retraction: SDR9C7 Promotes Lymph Node Metastases in Patients with Esophageal Squamous Cell Carcinoma

Článek Association between tuberculosis and depression on negative outcomes of tuberculosis treatment: A systematic review and meta-analysis

Článek Bioluminescent imaging of Arabidopsis thaliana using an enhanced Nano-lantern luminescence reporter system

Článek Biosynthetic pathway of indole-3-acetic acid in ectomycorrhizal fungi collected from northern Thailand

Článek Sex-specific and opposite modulatory aspects revealed by PPI network and pathway analysis of ischemic stroke in humans

Článek Control of the microsporidian parasite Nosema ceranae in honey bees (Apis mellifera) using nutraceutical and immuno-stimulatory compounds

Článek Role of donor genotype in RT-QuIC seeding activity of chronic wasting disease prions using human and bank vole substrates

Článek Oral magnesium supplementation for leg cramps in pregnancy—An observational controlled trial

Článek Health care professionals’ knowledge of commonly used sedative, analgesic and neuromuscular drugs: A single center (Rambam Health Care Campus), prospective, observational survey

Článek Campylobacter portucalensis sp. nov., a new species of Campylobacter isolated from the preputial mucosa of bulls

Článek Transgenic interleukin 11 expression causes cross-tissue fibro-inflammation and an inflammatory bowel phenotype in mice

Článek Sleep quality and sex modify the relationships between trait energy and fatigue on state energy and fatigue

Článek The role of peer, parental, and school norms in predicting adolescents’ attitudes and behaviours of majority and different minority ethnic groups in Croatia

Článek Availability, prices and affordability of selected antibiotics and medicines against non-communicable diseases in western Cameroon and northeast DR Congo

Článek The effect of mutations derived from mouse-adapted H3N2 seasonal influenza A virus to pathogenicity and host adaptation

Článek Detection of posttraumatic pneumothorax using electrical impedance tomography—An observer-blinded study in pigs with blunt chest trauma

Článek Educators’ perceptions of organisational readiness for implementation of a pre-adolescent transdisciplinary school health intervention for inter-generational outcomes

Článek Beyond the heterodimer model for mineralocorticoid and glucocorticoid receptor interactions in nuclei and at DNA

Článek The effects of sport expertise and shot results on basketball players’ action anticipation

Článek Framework and algorithms for identifying honest blocks in blockchain

Článek Exploring the impact of terminology differences in blood and organ donor decision making

Článek Platelet indices significantly correlate with liver fibrosis in HCV-infected patients

Článek The nitrate content of fresh and cooked vegetables and their health-related risks

Článek Bioreactor for mobilization of mesenchymal stem/stromal cells into scaffolds under mechanical stimulation: Preliminary results

Článek Non-gradient and genotype-dependent patterns of RSV gene expression

Článek Multiplex real-time PCR for the detection of Clavibacter michiganensis subsp. michiganensis, Pseudomonas syringae pv. tomato and pathogenic Xanthomonas species on tomato plants

Článek The 24-hour urinary cortisol in post-traumatic stress disorder: A meta-analysis

Článek Drug-eluting versus bare-metal stents for first myocardial infarction in patients with atrial fibrillation: A nationwide population-based cohort study

Článek Health-related quality of life among patients with type 2 diabetes mellitus in Eastern Province, Saudi Arabia: A cross-sectional study

Článek “I like the way I am, but I feel like I could get a little bit bigger”: Perceptions of body image among adolescents and youth living with HIV in Durban, South Africa

Článek Nanoparticle-based ‘turn-on’ scattering and post-sample fluorescence for ultrasensitive detection of water pollution in wider window

Článek Insights into the strategy of micro-environmental adaptation: Transcriptomic analysis of two alvinocaridid shrimps at a hydrothermal vent

Článek Thirty-day readmission after medical-surgical hospitalization for people who experience imprisonment in Ontario, Canada: A retrospective cohort study

Článek Hyper-spectral response and estimation model of soil degradation in Kenli County, the Yellow River Delta

Článek The association of telomere length and telomerase activity with adverse outcomes in older patients with non-ST-elevation acute coronary syndrome

Článek Construction of a high-density genetic map and fine mapping of a candidate gene locus for a novel branched-spike mutant in barley

Článek Alterations of aqueous humor Aβ levels in Aβ-infused and transgenic mouse models of Alzheimer disease

Článek Natural hybridization between Phyllagathis and Sporoxeia species produces a hybrid without reproductive organs

Článek The impact of peer attachment on prosocial behavior, emotional difficulties and conduct problems in adolescence: The mediating role of empathy

Článek Diagnostic performance of serum interferon gamma, matrix metalloproteinases, and periostin measurements for pulmonary tuberculosis in Japanese patients with pneumonia

Článek Characterization of black patina from the Tiber River embankments using Next-Generation Sequencing

Článek Problem gambling, associations with comorbid health conditions, substance use, and behavioural addictions: Opportunities for pathways to treatment

Článek Nanosheet wrapping-assisted coverslip-free imaging for looking deeper into a tissue at high resolution

Článek Validity of cerebrovascular ICD-9-CM codes in healthcare administrative databases. The Umbria Data-Value Project

Článek Torque teno virus viral load is related to age, CMV infection and HLA type but not to Alzheimer's disease

Článek Associations of cigarette smoking and burden of thoracic aortic calcification in asymptomatic individuals: A dose-response relationship

Článek Transforming assessment of speech in children with cleft palate via online crowdsourcing

Článek Human-raptor conflict in rural settlements of Colombia

Článek Assessment of peritoneal microbial features and tumor marker levels as potential diagnostic tools for ovarian cancer

Článek Deficiency syndromes in top predators associated with large-scale changes in the Baltic Sea ecosystem

Článek Perceived relative social status and cognitive load influence acceptance of unfair offers in the Ultimatum Game

Článek Hepatitis B and C virus infection among HIV patients within the public and private healthcare systems in Chile: A cross-sectional serosurvey

Článek Retraction: Oncogenic Fibulin-5 Promotes Nasopharyngeal Carcinoma Cell Metastasis through the FLJ10540/AKT Pathway and Correlates with Poor Prognosis

Článek From seed to flour: Sowing sustainability in the use of cantaloupe melon residue (Cucumis melo L. var. reticulatus)

Článek Core Scientific Dataset Model: A lightweight and portable model and file format for multi-dimensional scientific data

Článek Learning efficient haptic shape exploration with a rigid tactile sensor array

Článok vyšiel v časopise

PLOS One

2020 Číslo 1

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Získaná hemofilie - Povědomí o nemoci a její diagnostika

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Eozinofilní granulomatóza s polyangiitidou

Autori: doc. MUDr. Martina Doubková, Ph.D.

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