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Synthego Inc sanger sequencing data
Sanger Sequencing Data, supplied by Synthego Inc, 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/sanger+sequence+data/sanger+sequencing/pmc12727531-338-2-8
Average 86 stars, based on 1 article reviews
sanger sequencing data - by Bioz Stars, 2026-11
86/100 stars

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Related Articles

Isolation:

Article Title: Minute amounts of helicase-deficient truncated RECQL4 are sufficient for DNA replication.
Article Snippet: .. Recql4Δ/Δ sgKlhdc3 K1B12 and Recql4Δ/Δ sgKlhdc3 K1E1 are independently targeted and isolated clones. (D) The knockout efficiency of Mcm10 was measured through Sanger Sequencing and analysed by Synthego at each time point in each genotype as indicated. ..

Knock-Out:

Article Title: Minute amounts of helicase-deficient truncated RECQL4 are sufficient for DNA replication.
Article Snippet: .. Recql4Δ/Δ sgKlhdc3 K1B12 and Recql4Δ/Δ sgKlhdc3 K1E1 are independently targeted and isolated clones. (D) The knockout efficiency of Mcm10 was measured through Sanger Sequencing and analysed by Synthego at each time point in each genotype as indicated. ..

Article Title: Polyadenylation of insulin mRNA by Tent5a regulates pancreatic beta cells.
Article Snippet: A Lonza 4D Amaxa nucleofector was used with SF solution and program CM-156. .. Clones were seeded at an approximate density of 1 cell per 100 μL per well in a 96-well plate and screened first by gel electrophoresis of PCR-amplified genomic region bound by primers rT5A-CrisGeno-F and rT5A-CrisGeno-R. Knockout and wildtype clones were then assessed via Sanger Sequencing and ICE analysis (Synthego) before validation by next-generation sequencing and analysis with CRISPResso 74. .. RNAi-based screen for functional RBPs in beta cells siRNAs against 1103 rat RBPs were synthesized as a set of four duplexes for each gene target (Horizon Discovery).

Sequencing:

Article Title: Minute amounts of helicase-deficient truncated RECQL4 are sufficient for DNA replication.
Article Snippet: .. Recql4Δ/Δ sgKlhdc3 K1B12 and Recql4Δ/Δ sgKlhdc3 K1E1 are independently targeted and isolated clones. (D) The knockout efficiency of Mcm10 was measured through Sanger Sequencing and analysed by Synthego at each time point in each genotype as indicated. ..

Article Title: Polyadenylation of insulin mRNA by Tent5a regulates pancreatic beta cells.
Article Snippet: A Lonza 4D Amaxa nucleofector was used with SF solution and program CM-156. .. Clones were seeded at an approximate density of 1 cell per 100 μL per well in a 96-well plate and screened first by gel electrophoresis of PCR-amplified genomic region bound by primers rT5A-CrisGeno-F and rT5A-CrisGeno-R. Knockout and wildtype clones were then assessed via Sanger Sequencing and ICE analysis (Synthego) before validation by next-generation sequencing and analysis with CRISPResso 74. .. RNAi-based screen for functional RBPs in beta cells siRNAs against 1103 rat RBPs were synthesized as a set of four duplexes for each gene target (Horizon Discovery).

Article Title: DRP1 depletion protects NK cells from hypoxia-induced dysfunction.
Article Snippet: .. Scale bar = 5 μm; D. Schematic of the DRP1 gene with target sites for the three guide RNAs used for CRISPR editing; E. Representative Sanger sequencing chromatograms (left) for each guide RNA and corresponding KO efficiency scores (right) at day 3 and week 3 post-editing, analyzed with Synthego’s ICE tool; F. Flow cytometric quantification of DRP1 protein expression in DRP1KO vs DRP1WT NK cells (n = 3); G. Growth curves of DRP1WT vs DRP1KO NK cells (n = 3). ..

Article Title: Autoinhibitory control of MLKL governs pseudokinase domain phosphorylation and oligomerization during necroptosis.
Article Snippet: HEK293T cells (derived from a female human fetus) were purchased from ATCC and cultured in DMEM, supplemented with 10% Cosmic Calf Serum and 1% Anti-Anti. .. Knockouts were validated by Western blot and Sanger sequencing (deconvoluted using Synthego ICE analysis). .. Cell line authentication was not performed for this study due to directly purchasing from ATCC.

Article Title: Novel mouse reporter models for the detection of genome editing events in vivo
Article Snippet: .. Quantification of editing activity was performed by analyzing the Sanger sequence traces with the Synthego ICE evaluation tool. ..

Article Title: MYOM1 deficiency leads to dilated cardiomyopathy by disrupting the homeostasis of sarcoplasmic reticulum
Article Snippet: .. The results of Sanger sequencing gRNA sequences were also submitted to Synthego ( https://www.synthego.com/ ) to evaluate the efficiency of genomic DNA mutations. .. The results of Sanger sequencing gRNA sequences were also submitted to Synthego ( https://www.synthego.com/ ) to evaluate the efficiency of genomic DNA mutations.

Article Title: MYOM1 deficiency leads to dilated cardiomyopathy by disrupting the homeostasis of sarcoplasmic reticulum.
Article Snippet: .. The results of Sanger sequencing gRNA sequences were also submitted to Synthego (https://www.synthego. com/) to evaluate the efficiency of genomic DNA mutations. ..

Clone Assay:

Article Title: Polyadenylation of insulin mRNA by Tent5a regulates pancreatic beta cells.
Article Snippet: A Lonza 4D Amaxa nucleofector was used with SF solution and program CM-156. .. Clones were seeded at an approximate density of 1 cell per 100 μL per well in a 96-well plate and screened first by gel electrophoresis of PCR-amplified genomic region bound by primers rT5A-CrisGeno-F and rT5A-CrisGeno-R. Knockout and wildtype clones were then assessed via Sanger Sequencing and ICE analysis (Synthego) before validation by next-generation sequencing and analysis with CRISPResso 74. .. RNAi-based screen for functional RBPs in beta cells siRNAs against 1103 rat RBPs were synthesized as a set of four duplexes for each gene target (Horizon Discovery).

Nucleic Acid Electrophoresis:

Article Title: Polyadenylation of insulin mRNA by Tent5a regulates pancreatic beta cells.
Article Snippet: A Lonza 4D Amaxa nucleofector was used with SF solution and program CM-156. .. Clones were seeded at an approximate density of 1 cell per 100 μL per well in a 96-well plate and screened first by gel electrophoresis of PCR-amplified genomic region bound by primers rT5A-CrisGeno-F and rT5A-CrisGeno-R. Knockout and wildtype clones were then assessed via Sanger Sequencing and ICE analysis (Synthego) before validation by next-generation sequencing and analysis with CRISPResso 74. .. RNAi-based screen for functional RBPs in beta cells siRNAs against 1103 rat RBPs were synthesized as a set of four duplexes for each gene target (Horizon Discovery).

Polymerase Chain Reaction:

Article Title: Polyadenylation of insulin mRNA by Tent5a regulates pancreatic beta cells.
Article Snippet: A Lonza 4D Amaxa nucleofector was used with SF solution and program CM-156. .. Clones were seeded at an approximate density of 1 cell per 100 μL per well in a 96-well plate and screened first by gel electrophoresis of PCR-amplified genomic region bound by primers rT5A-CrisGeno-F and rT5A-CrisGeno-R. Knockout and wildtype clones were then assessed via Sanger Sequencing and ICE analysis (Synthego) before validation by next-generation sequencing and analysis with CRISPResso 74. .. RNAi-based screen for functional RBPs in beta cells siRNAs against 1103 rat RBPs were synthesized as a set of four duplexes for each gene target (Horizon Discovery).

Biomarker Discovery:

Article Title: Polyadenylation of insulin mRNA by Tent5a regulates pancreatic beta cells.
Article Snippet: A Lonza 4D Amaxa nucleofector was used with SF solution and program CM-156. .. Clones were seeded at an approximate density of 1 cell per 100 μL per well in a 96-well plate and screened first by gel electrophoresis of PCR-amplified genomic region bound by primers rT5A-CrisGeno-F and rT5A-CrisGeno-R. Knockout and wildtype clones were then assessed via Sanger Sequencing and ICE analysis (Synthego) before validation by next-generation sequencing and analysis with CRISPResso 74. .. RNAi-based screen for functional RBPs in beta cells siRNAs against 1103 rat RBPs were synthesized as a set of four duplexes for each gene target (Horizon Discovery).

Next-Generation Sequencing:

Article Title: Polyadenylation of insulin mRNA by Tent5a regulates pancreatic beta cells.
Article Snippet: A Lonza 4D Amaxa nucleofector was used with SF solution and program CM-156. .. Clones were seeded at an approximate density of 1 cell per 100 μL per well in a 96-well plate and screened first by gel electrophoresis of PCR-amplified genomic region bound by primers rT5A-CrisGeno-F and rT5A-CrisGeno-R. Knockout and wildtype clones were then assessed via Sanger Sequencing and ICE analysis (Synthego) before validation by next-generation sequencing and analysis with CRISPResso 74. .. RNAi-based screen for functional RBPs in beta cells siRNAs against 1103 rat RBPs were synthesized as a set of four duplexes for each gene target (Horizon Discovery).

CRISPR:

Article Title: DRP1 depletion protects NK cells from hypoxia-induced dysfunction.
Article Snippet: .. Scale bar = 5 μm; D. Schematic of the DRP1 gene with target sites for the three guide RNAs used for CRISPR editing; E. Representative Sanger sequencing chromatograms (left) for each guide RNA and corresponding KO efficiency scores (right) at day 3 and week 3 post-editing, analyzed with Synthego’s ICE tool; F. Flow cytometric quantification of DRP1 protein expression in DRP1KO vs DRP1WT NK cells (n = 3); G. Growth curves of DRP1WT vs DRP1KO NK cells (n = 3). ..

Expressing:

Article Title: DRP1 depletion protects NK cells from hypoxia-induced dysfunction.
Article Snippet: .. Scale bar = 5 μm; D. Schematic of the DRP1 gene with target sites for the three guide RNAs used for CRISPR editing; E. Representative Sanger sequencing chromatograms (left) for each guide RNA and corresponding KO efficiency scores (right) at day 3 and week 3 post-editing, analyzed with Synthego’s ICE tool; F. Flow cytometric quantification of DRP1 protein expression in DRP1KO vs DRP1WT NK cells (n = 3); G. Growth curves of DRP1WT vs DRP1KO NK cells (n = 3). ..

Western Blot:

Article Title: Autoinhibitory control of MLKL governs pseudokinase domain phosphorylation and oligomerization during necroptosis.
Article Snippet: HEK293T cells (derived from a female human fetus) were purchased from ATCC and cultured in DMEM, supplemented with 10% Cosmic Calf Serum and 1% Anti-Anti. .. Knockouts were validated by Western blot and Sanger sequencing (deconvoluted using Synthego ICE analysis). .. Cell line authentication was not performed for this study due to directly purchasing from ATCC.

Activity Assay:

Article Title: Novel mouse reporter models for the detection of genome editing events in vivo
Article Snippet: .. Quantification of editing activity was performed by analyzing the Sanger sequence traces with the Synthego ICE evaluation tool. ..

other:

Article Title: Pharmacology of nivegacetor (RG6289), a potent and selective gamma secretase modulator in clinical development for the treatment of Alzheimer’s disease
Article Snippet: The disruption of both PSEN1 and PSEN2 genes was confirmed by DNA sequencing (carried out at Synthego), which was corroborated by confirming the lack of Aβ sequestration into the cell culture medium ( ).



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Image Search Results


Characteristics of specimens and success of whole genome sequencing. (A–D) Filled bars indicate whole genome sequences achieved, while open or diagonal bars indicate whole genome sequencing failure. Purple color: respiratory specimens; green color: urine. (C) The asterisks indicate a significant difference between mean crossing point (CP) values ( t -test) with a p value <0.0001. (E) Median coverage depth aggregated across 59 measles genomes (WGS-t) generated solely by Illumina sequencing. Depth coverage at each position was obtained through Galaxy using the tool SamTools depth for 59 genomes (samples with termini filled in and sanger patches were excluded from this). Sample termini were trimmed and proportions at each position were determined. Median (solid line) and 25th to 75th percentile (shaded area) values at each nucleotide position were plotted using ggPlot2 in R.

Journal: Frontiers in Microbiology

Article Title: Genomic tools for post-elimination measles molecular epidemiology using Canadian surveillance data from 2018–2020

doi: 10.3389/fmicb.2024.1475144

Figure Lengend Snippet: Characteristics of specimens and success of whole genome sequencing. (A–D) Filled bars indicate whole genome sequences achieved, while open or diagonal bars indicate whole genome sequencing failure. Purple color: respiratory specimens; green color: urine. (C) The asterisks indicate a significant difference between mean crossing point (CP) values ( t -test) with a p value <0.0001. (E) Median coverage depth aggregated across 59 measles genomes (WGS-t) generated solely by Illumina sequencing. Depth coverage at each position was obtained through Galaxy using the tool SamTools depth for 59 genomes (samples with termini filled in and sanger patches were excluded from this). Sample termini were trimmed and proportions at each position were determined. Median (solid line) and 25th to 75th percentile (shaded area) values at each nucleotide position were plotted using ggPlot2 in R.

Article Snippet: Consensus sequences of Sanger sequencing data were generated with SeqManPro version 11 software (DNASTAR Lasergene, WI).

Techniques: Sequencing, Generated, Illumina Sequencing

Epidemiological curve of confirmed measles cases, 2018–2020, by genotype and sequencing coverage. Top panel: all confirmed cases ( n = 143). Middle panel: cases occurring in 2018 ( n = 29). Bottom panel: cases occurring in 2019 ( n = 113). All panels: blue-fill: genotype D8; yellow-fill: genotype B3; no fill: case without sequences. Bottom two panels: solid-fill: N-450, MF-NCR and WGS-t sequences obtained; diagonal pattern: N-450 and MF-NCR sequences obtained; horizontal pattern: N-450 sequence only. Letter indicates outbreak identifier; lack of a letter indicates isolated case. Check mark (√): case was imported. Asterisk (*): case with unknown source.

Journal: Frontiers in Microbiology

Article Title: Genomic tools for post-elimination measles molecular epidemiology using Canadian surveillance data from 2018–2020

doi: 10.3389/fmicb.2024.1475144

Figure Lengend Snippet: Epidemiological curve of confirmed measles cases, 2018–2020, by genotype and sequencing coverage. Top panel: all confirmed cases ( n = 143). Middle panel: cases occurring in 2018 ( n = 29). Bottom panel: cases occurring in 2019 ( n = 113). All panels: blue-fill: genotype D8; yellow-fill: genotype B3; no fill: case without sequences. Bottom two panels: solid-fill: N-450, MF-NCR and WGS-t sequences obtained; diagonal pattern: N-450 and MF-NCR sequences obtained; horizontal pattern: N-450 sequence only. Letter indicates outbreak identifier; lack of a letter indicates isolated case. Check mark (√): case was imported. Asterisk (*): case with unknown source.

Article Snippet: Consensus sequences of Sanger sequencing data were generated with SeqManPro version 11 software (DNASTAR Lasergene, WI).

Techniques: Sequencing, Isolation

Phylogenetic analysis of measles genotype B3 strains detected in Canada, 2018–2020. (A,B) Maximum likelihood phylogenetic trees of the N450, 450 nucleotides, [(A) 27 sequences] and MF-NCR, 1018 nucleotides, [(B) 21 sequences] loci with 1,000 bootstrap replicates. Bold face indicates the genotype B3 reference sequence [N450 only (A)]. Italics are international sequences obtained from GenBank and for the N450 tree (A) represent WHO-named strains. Thick branch edges correspond to bootstrap values ≥0.7. (D) Maximum clade credibility phylogenetic tree of WGS-t sequences ( n = 21) inferred with BEAST2. The time scale, in years, is at the top. Thick branch edges correspond to posterior values ≥0.7. Brackets with letters correspond to outbreaks and/or phylogenetic clusters analyzed in depth. Meta-data is provided in four columns to the right of the trees. A star symbol in the first column indicates a sequence from a case without a source identified. A check mark in the second column indicates that the case was considered imported. The two color strips indicate association with an outbreak and the MeaNS distinct sequence ID (DSId) assigned to the N450 sequence (including named strain, where applicable) with the legend provided in panel (C). The bracket present in all trees indicates the clade including the MVi/Marikina City.PHL/10.18 N450 named strain. (D) Shades of grey are added to the outbreak strip to denote the identification of related cases as a result of the sequence analysis. High resolution, interactive versions are available at: https://itol.embl.de/shared/GzTsavRiNVS9 .

Journal: Frontiers in Microbiology

Article Title: Genomic tools for post-elimination measles molecular epidemiology using Canadian surveillance data from 2018–2020

doi: 10.3389/fmicb.2024.1475144

Figure Lengend Snippet: Phylogenetic analysis of measles genotype B3 strains detected in Canada, 2018–2020. (A,B) Maximum likelihood phylogenetic trees of the N450, 450 nucleotides, [(A) 27 sequences] and MF-NCR, 1018 nucleotides, [(B) 21 sequences] loci with 1,000 bootstrap replicates. Bold face indicates the genotype B3 reference sequence [N450 only (A)]. Italics are international sequences obtained from GenBank and for the N450 tree (A) represent WHO-named strains. Thick branch edges correspond to bootstrap values ≥0.7. (D) Maximum clade credibility phylogenetic tree of WGS-t sequences ( n = 21) inferred with BEAST2. The time scale, in years, is at the top. Thick branch edges correspond to posterior values ≥0.7. Brackets with letters correspond to outbreaks and/or phylogenetic clusters analyzed in depth. Meta-data is provided in four columns to the right of the trees. A star symbol in the first column indicates a sequence from a case without a source identified. A check mark in the second column indicates that the case was considered imported. The two color strips indicate association with an outbreak and the MeaNS distinct sequence ID (DSId) assigned to the N450 sequence (including named strain, where applicable) with the legend provided in panel (C). The bracket present in all trees indicates the clade including the MVi/Marikina City.PHL/10.18 N450 named strain. (D) Shades of grey are added to the outbreak strip to denote the identification of related cases as a result of the sequence analysis. High resolution, interactive versions are available at: https://itol.embl.de/shared/GzTsavRiNVS9 .

Article Snippet: Consensus sequences of Sanger sequencing data were generated with SeqManPro version 11 software (DNASTAR Lasergene, WI).

Techniques: Sequencing, Stripping Membranes