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Macrogen genome sequencing wgs workflow
Genome Sequencing Wgs Workflow, supplied by Macrogen, used in various techniques. Bioz Stars score: 86/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/sequencing+workflows/genome+sequencing+whole/pm41703285-129-2-9
Average 86 stars, based on 1 article reviews
genome sequencing wgs workflow - by Bioz Stars, 2026-10
86/100 stars

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Related Articles

Isolation:

Article Title: Distinct roles for TANGO1S domains in maintaining ER-Golgi architecture
Article Snippet: The synthetic DNA sequences were incorporated into the vector backbone using the NEB HiFi DNA Assembly Kit [New England Biolabs, E5520s] according to the manufacturer’s instructions and the resulting plasmids were transformed into NEB 5-alpha competent cells [New England Biolabs, C2987H], plated onto kanamycin bacterial selection plates, colony cultured, and DNA extracted for sequencing with the Qiagen Mini-Prep Kit [Qiagen, 27106]. .. Isolated plasmid DNA was sent to Macrogen Europe for Whole Plasmid Sequencing to confirm the inclusion of the correct DNA insert (the sequenced plasmid maps from the clones used in this paper can be found in ). ..

Plasmid Preparation:

Article Title: Distinct roles for TANGO1S domains in maintaining ER-Golgi architecture
Article Snippet: The synthetic DNA sequences were incorporated into the vector backbone using the NEB HiFi DNA Assembly Kit [New England Biolabs, E5520s] according to the manufacturer’s instructions and the resulting plasmids were transformed into NEB 5-alpha competent cells [New England Biolabs, C2987H], plated onto kanamycin bacterial selection plates, colony cultured, and DNA extracted for sequencing with the Qiagen Mini-Prep Kit [Qiagen, 27106]. .. Isolated plasmid DNA was sent to Macrogen Europe for Whole Plasmid Sequencing to confirm the inclusion of the correct DNA insert (the sequenced plasmid maps from the clones used in this paper can be found in ). ..

Article Title: Directed mutagenesis of large multi-subunit protein complexes by plasmid sub-fragmentation
Article Snippet: .. When placed back to the pBAD nuo plasmid, the substitution was first confirmed to be present within the inserted fragment, followed by whole plasmid sequencing (Macrogen Europe). .. Positive clones confirmed by sequencing (Eurofins Genomics) led to 100% success rate in whole plasmid sequencing as the only mutation observed in all samples are the nucleotides substituted within the targeted codons (Supplementary Fig. , Supplementary Table ).

Article Title: Diverse structures of mcr-10-bearing plasmids and high colistin resistance in Enterobacter cloacae complex clinical isolates from South Korea.
Article Snippet: This is a PDF of an article that has undergone enhancements after acceptance, such as the addition of a cover page and metadata, and formatting for readability.. This version will undergo additional copyediting, typesetting and review before it is published in its final form.. As such, this version is no longer the Accepted Manuscript, but it is not yet the definitive Version of Record; we are providing this early version to give early visibility of the article.

Article Title: Genome delivery of a contractile tailed phage and its superinfection exclusion mechanism
Article Snippet: .. All plasmids were confirmed using Sanger sequencing or Nanopore whole plasmid sequencing by Macrogen-Europe. ..

Sequencing:

Article Title: Distinct roles for TANGO1S domains in maintaining ER-Golgi architecture
Article Snippet: The synthetic DNA sequences were incorporated into the vector backbone using the NEB HiFi DNA Assembly Kit [New England Biolabs, E5520s] according to the manufacturer’s instructions and the resulting plasmids were transformed into NEB 5-alpha competent cells [New England Biolabs, C2987H], plated onto kanamycin bacterial selection plates, colony cultured, and DNA extracted for sequencing with the Qiagen Mini-Prep Kit [Qiagen, 27106]. .. Isolated plasmid DNA was sent to Macrogen Europe for Whole Plasmid Sequencing to confirm the inclusion of the correct DNA insert (the sequenced plasmid maps from the clones used in this paper can be found in ). ..

Article Title: Clinical and Genetic Characterization of Osteogenesis Imperfecta in Japanese Patients: Outcomes of Sequential Bisphosphonate Therapy.
Article Snippet: .. Whole-genome sequencing (WGS) was also performed by Macrogen Japan in patients with a strong suspicion of OI, family history, and the absence of pathogenic variants identified by WES. ..

Article Title: Directed mutagenesis of large multi-subunit protein complexes by plasmid sub-fragmentation
Article Snippet: .. When placed back to the pBAD nuo plasmid, the substitution was first confirmed to be present within the inserted fragment, followed by whole plasmid sequencing (Macrogen Europe). .. Positive clones confirmed by sequencing (Eurofins Genomics) led to 100% success rate in whole plasmid sequencing as the only mutation observed in all samples are the nucleotides substituted within the targeted codons (Supplementary Fig. , Supplementary Table ).

Article Title: Diverse structures of mcr-10-bearing plasmids and high colistin resistance in Enterobacter cloacae complex clinical isolates from South Korea.
Article Snippet: This is a PDF of an article that has undergone enhancements after acceptance, such as the addition of a cover page and metadata, and formatting for readability.. This version will undergo additional copyediting, typesetting and review before it is published in its final form.. As such, this version is no longer the Accepted Manuscript, but it is not yet the definitive Version of Record; we are providing this early version to give early visibility of the article.

Article Title: Genome delivery of a contractile tailed phage and its superinfection exclusion mechanism
Article Snippet: .. All plasmids were confirmed using Sanger sequencing or Nanopore whole plasmid sequencing by Macrogen-Europe. ..

Article Title: Genome-resolved, preclinical safety evaluation of infant-derived Clostridium butyricum S-45-5 as a probiotic candidate.
Article Snippet: .. Whole-genome sequencing was performed by Macrogen Inc. (Seoul, Republic of Korea) using a hybrid long- and short-read strategy. .. Highmolecular-weight genomic DNA was extracted using the Wizard® HMW DNA Extraction Kit (Promega, Madison, WI, USA).

Clone Assay:

Article Title: Distinct roles for TANGO1S domains in maintaining ER-Golgi architecture
Article Snippet: The synthetic DNA sequences were incorporated into the vector backbone using the NEB HiFi DNA Assembly Kit [New England Biolabs, E5520s] according to the manufacturer’s instructions and the resulting plasmids were transformed into NEB 5-alpha competent cells [New England Biolabs, C2987H], plated onto kanamycin bacterial selection plates, colony cultured, and DNA extracted for sequencing with the Qiagen Mini-Prep Kit [Qiagen, 27106]. .. Isolated plasmid DNA was sent to Macrogen Europe for Whole Plasmid Sequencing to confirm the inclusion of the correct DNA insert (the sequenced plasmid maps from the clones used in this paper can be found in ). ..

Whole Complete genome sequencing:

Article Title: Clinical and Genetic Characterization of Osteogenesis Imperfecta in Japanese Patients: Outcomes of Sequential Bisphosphonate Therapy.
Article Snippet: .. Whole-genome sequencing (WGS) was also performed by Macrogen Japan in patients with a strong suspicion of OI, family history, and the absence of pathogenic variants identified by WES. ..

other:

Article Title: Draft genome sequences of Lactiplantibacillus plantarum strains KABP062 and KABP063 isolated from human feces
Article Snippet: Whole-genome sequences were obtained at Macrogen (Korea).

Article Title: Whole-Genome Sequencing and Comparative Genomic Analysis of Citrobacter farmeri and Enterobacter cloacae from Unhatched Green Turtle Eggs
Article Snippet: Genomic DNA from selected bacterial isolates was submitted to the company, where sequencing was conducted using the Illumina Nova SeqX platform.

DNA Sequencing:

Article Title: Genome delivery of a contractile tailed phage and its superinfection exclusion mechanism
Article Snippet: .. All plasmids were confirmed using Sanger sequencing or Nanopore whole plasmid sequencing by Macrogen-Europe. ..



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Image Search Results


Input and Output of each stage

Journal: Current Protocols

Article Title: A Guide to Enzymatic Targeted Methylation Sequencing Bioinformatics Workflow: Best Practices

doi: 10.1002/cpz1.70464

Figure Lengend Snippet: Input and Output of each stage

Article Snippet: Targeted methylation profiling was performed using the NEBNext EM‐seq Kit combined with the Twist Targeted Methylation Sequencing platform (Twist Bioscience, USA), following the manufacturer's instructions (New England Biolabs, ; “Twist Targeted Methylation Sequencing Protocol | Twist Bioscience,” accessed July 30, 2025).

Techniques: Sequencing, Methylation, Analysis, Control, Tiling

Estimated duration of the complete analysis

Journal: Current Protocols

Article Title: A Guide to Enzymatic Targeted Methylation Sequencing Bioinformatics Workflow: Best Practices

doi: 10.1002/cpz1.70464

Figure Lengend Snippet: Estimated duration of the complete analysis

Article Snippet: Targeted methylation profiling was performed using the NEBNext EM‐seq Kit combined with the Twist Targeted Methylation Sequencing platform (Twist Bioscience, USA), following the manufacturer's instructions (New England Biolabs, ; “Twist Targeted Methylation Sequencing Protocol | Twist Bioscience,” accessed July 30, 2025).

Techniques: Analysis, QC/EQA/Proficiency, Sequencing, Methylation, Tiling

This figure summarizes key quality control and performance metrics across five DNA methylation profiling techniques (ONT, PacBio, RRBS, TWIST, WGEC) applied to blood, fibroblast and GIAB samples. (A): Barplots showing the mean CpG coverage per sample and method; dashed lines indicate multiples of a 10× coverage threshold & numbers represent the rounded mean CpG coverage. (B): Mean methylation levels per sample and method, shown both unfiltered and with a 10× coverage cutoff, revealing reduced variance across platforms at higher coverage. In the GIAB cohort, the deviation observed for one PacBio sample is likely attributable to its markedly lower overall sequencing coverage, reflecting technology-specific sensitivity of PacBio methylation calling to reduced molecule sampling rather than insufficient CpG-level filtering. (C): Log-scale line plot of the number of overlapping CpG sites retained at increasing coverage thresholds, indicating a rapid decline in shared CpGs with stricter filters. (D): Dot plot comparing the number of unique reads obtained per sample-method combination, with long-read methods showing fewer but larger alignments.

Journal: bioRxiv

Article Title: MethylBench: A comprehensive benchmark of DNA methylation profiling methods across diverse sequencing platforms

doi: 10.64898/2026.04.28.721268

Figure Lengend Snippet: This figure summarizes key quality control and performance metrics across five DNA methylation profiling techniques (ONT, PacBio, RRBS, TWIST, WGEC) applied to blood, fibroblast and GIAB samples. (A): Barplots showing the mean CpG coverage per sample and method; dashed lines indicate multiples of a 10× coverage threshold & numbers represent the rounded mean CpG coverage. (B): Mean methylation levels per sample and method, shown both unfiltered and with a 10× coverage cutoff, revealing reduced variance across platforms at higher coverage. In the GIAB cohort, the deviation observed for one PacBio sample is likely attributable to its markedly lower overall sequencing coverage, reflecting technology-specific sensitivity of PacBio methylation calling to reduced molecule sampling rather than insufficient CpG-level filtering. (C): Log-scale line plot of the number of overlapping CpG sites retained at increasing coverage thresholds, indicating a rapid decline in shared CpGs with stricter filters. (D): Dot plot comparing the number of unique reads obtained per sample-method combination, with long-read methods showing fewer but larger alignments.

Article Snippet: Matched blood and fibroblast samples from five human individuals were analyzed using six DNA methylation profiling technologies: whole-genome enzymatic conversion (WGEC) using the NEBNext Enzymatic Methyl-seq Kit (New England Biolabs, Ipswich, USA), Twist Targeted Methylation Sequencing Workflow (Twist Bioscience, South San Francisco, USA), reduced representation bisulfite sequencing (RRBS), Illumina EPIC array and Oxford Nanopore Technologies (ONT).

Techniques: Control, DNA Methylation Assay, Methylation, Sequencing, Sampling

Methylation density distributions across samples and methods for the samples Blood3, Fibro4 and GIAB2, with EPIC included. The coverage filter was set to 10x for all methods and then overlapped with the EPIC data. The pronounced intermediate methylation peak observed exclusively for ONT in blood likely reflects its single-molecule measurement principle combined with the high cellular heterogeneity of blood, resulting in genuine intermediate methylation states that are attenuated or discretized by aggregation-based array and bisulfite sequencing approaches.

Journal: bioRxiv

Article Title: MethylBench: A comprehensive benchmark of DNA methylation profiling methods across diverse sequencing platforms

doi: 10.64898/2026.04.28.721268

Figure Lengend Snippet: Methylation density distributions across samples and methods for the samples Blood3, Fibro4 and GIAB2, with EPIC included. The coverage filter was set to 10x for all methods and then overlapped with the EPIC data. The pronounced intermediate methylation peak observed exclusively for ONT in blood likely reflects its single-molecule measurement principle combined with the high cellular heterogeneity of blood, resulting in genuine intermediate methylation states that are attenuated or discretized by aggregation-based array and bisulfite sequencing approaches.

Article Snippet: Matched blood and fibroblast samples from five human individuals were analyzed using six DNA methylation profiling technologies: whole-genome enzymatic conversion (WGEC) using the NEBNext Enzymatic Methyl-seq Kit (New England Biolabs, Ipswich, USA), Twist Targeted Methylation Sequencing Workflow (Twist Bioscience, South San Francisco, USA), reduced representation bisulfite sequencing (RRBS), Illumina EPIC array and Oxford Nanopore Technologies (ONT).

Techniques: Methylation, Methylation Sequencing

(A): UpSet plot showing the overlap of significantly DMCs between blood and fibroblast samples, as identified using a wilcoxon test. Only EPIC and TWIST identify significant DMCs, demonstrating the reduced statistical power of ONT, RRBS and WGEC under non-parametric testing. (B): Cross-platform scatter plot comparing Δ β values between EPIC and TWIST. CpGs are colored by concordance: green indicates CpGs significant and directionally consistent in both platforms, red and blue mark EPIC- or TWIST-specific DMCs, respectively. The strong correlation (r = 0.96) indicates high cross-platform reproducibility under a variance-robust test. (C): Boxplots showing the mean coverage of CpGs included in each platform’s DMC set. Sequencing-based assays display broader coverage variability compared to EPIC, reflecting differences in sequencing depth and genomic sampling. (D): Variance of CpG methylation in blood and fibroblast samples across platforms. EPIC exhibits the lowest within-group variance due to array normalization, whereas sequencing-based platforms show higher dispersion linked to read depth and CpG representation.

Journal: bioRxiv

Article Title: MethylBench: A comprehensive benchmark of DNA methylation profiling methods across diverse sequencing platforms

doi: 10.64898/2026.04.28.721268

Figure Lengend Snippet: (A): UpSet plot showing the overlap of significantly DMCs between blood and fibroblast samples, as identified using a wilcoxon test. Only EPIC and TWIST identify significant DMCs, demonstrating the reduced statistical power of ONT, RRBS and WGEC under non-parametric testing. (B): Cross-platform scatter plot comparing Δ β values between EPIC and TWIST. CpGs are colored by concordance: green indicates CpGs significant and directionally consistent in both platforms, red and blue mark EPIC- or TWIST-specific DMCs, respectively. The strong correlation (r = 0.96) indicates high cross-platform reproducibility under a variance-robust test. (C): Boxplots showing the mean coverage of CpGs included in each platform’s DMC set. Sequencing-based assays display broader coverage variability compared to EPIC, reflecting differences in sequencing depth and genomic sampling. (D): Variance of CpG methylation in blood and fibroblast samples across platforms. EPIC exhibits the lowest within-group variance due to array normalization, whereas sequencing-based platforms show higher dispersion linked to read depth and CpG representation.

Article Snippet: Matched blood and fibroblast samples from five human individuals were analyzed using six DNA methylation profiling technologies: whole-genome enzymatic conversion (WGEC) using the NEBNext Enzymatic Methyl-seq Kit (New England Biolabs, Ipswich, USA), Twist Targeted Methylation Sequencing Workflow (Twist Bioscience, South San Francisco, USA), reduced representation bisulfite sequencing (RRBS), Illumina EPIC array and Oxford Nanopore Technologies (ONT).

Techniques: Sequencing, Sampling, CpG Methylation Assay, Dispersion