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pcr tubes  (Vazyme Biotech Co)
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SpliCOOL‐seq overview and performance. (A) Schematic of SpliCOOL‐seq. Single nuclei were treated with M.CviPI in situ, followed by fixation and disruption of the nucleosomes. Then, nuclei were barcoded through split‐pool combinatorial indexing after <t>universal</t> <t>Tn5</t> tagmentation. The nuclei were subsequently lysed, followed by bisulfite conversion, random priming and extension. The final library was obtained through <t>PCR</t> amplification. (B) Scatter plot illustrating the number of reads mapped to the human and mouse genomes in each cell from the species‐mixing experiment. (C) WCG and GCH methylation levels of GM12878 cells within ± 2 kb of the transcription start site (TSS) as determined by SpliCOOL‐seq, with shaded regions indicating the 25th and 75th percentiles of methylation levels across cells. Cell number n = 84. (D) Comparison of mapping efficiencies across individual cells by each method. The mapping rate was calculated by comparing the number of aligned reads to that of adaptor‐trimmed reads in each sample. (E) Scatter plot depicting the number of CG dinucleotides covered by the total aligned reads per cell by each method.
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pcr tubes adaptors  (Thermo Fisher)
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SpliCOOL‐seq overview and performance. (A) Schematic of SpliCOOL‐seq. Single nuclei were treated with M.CviPI in situ, followed by fixation and disruption of the nucleosomes. Then, nuclei were barcoded through split‐pool combinatorial indexing after <t>universal</t> <t>Tn5</t> tagmentation. The nuclei were subsequently lysed, followed by bisulfite conversion, random priming and extension. The final library was obtained through <t>PCR</t> amplification. (B) Scatter plot illustrating the number of reads mapped to the human and mouse genomes in each cell from the species‐mixing experiment. (C) WCG and GCH methylation levels of GM12878 cells within ± 2 kb of the transcription start site (TSS) as determined by SpliCOOL‐seq, with shaded regions indicating the 25th and 75th percentiles of methylation levels across cells. Cell number n = 84. (D) Comparison of mapping efficiencies across individual cells by each method. The mapping rate was calculated by comparing the number of aligned reads to that of adaptor‐trimmed reads in each sample. (E) Scatter plot depicting the number of CG dinucleotides covered by the total aligned reads per cell by each method.
Pcr Tubes Adaptors, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 98/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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pcr 8 strip tubes  (Bio-Rad)
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SpliCOOL‐seq overview and performance. (A) Schematic of SpliCOOL‐seq. Single nuclei were treated with M.CviPI in situ, followed by fixation and disruption of the nucleosomes. Then, nuclei were barcoded through split‐pool combinatorial indexing after <t>universal</t> <t>Tn5</t> tagmentation. The nuclei were subsequently lysed, followed by bisulfite conversion, random priming and extension. The final library was obtained through <t>PCR</t> amplification. (B) Scatter plot illustrating the number of reads mapped to the human and mouse genomes in each cell from the species‐mixing experiment. (C) WCG and GCH methylation levels of GM12878 cells within ± 2 kb of the transcription start site (TSS) as determined by SpliCOOL‐seq, with shaded regions indicating the 25th and 75th percentiles of methylation levels across cells. Cell number n = 84. (D) Comparison of mapping efficiencies across individual cells by each method. The mapping rate was calculated by comparing the number of aligned reads to that of adaptor‐trimmed reads in each sample. (E) Scatter plot depicting the number of CG dinucleotides covered by the total aligned reads per cell by each method.
Pcr 8 Strip Tubes, supplied by Bio-Rad, used in various techniques. Bioz Stars score: 93/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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sealing film  (Bio-Rad)
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SpliCOOL‐seq overview and performance. (A) Schematic of SpliCOOL‐seq. Single nuclei were treated with M.CviPI in situ, followed by fixation and disruption of the nucleosomes. Then, nuclei were barcoded through split‐pool combinatorial indexing after <t>universal</t> <t>Tn5</t> tagmentation. The nuclei were subsequently lysed, followed by bisulfite conversion, random priming and extension. The final library was obtained through <t>PCR</t> amplification. (B) Scatter plot illustrating the number of reads mapped to the human and mouse genomes in each cell from the species‐mixing experiment. (C) WCG and GCH methylation levels of GM12878 cells within ± 2 kb of the transcription start site (TSS) as determined by SpliCOOL‐seq, with shaded regions indicating the 25th and 75th percentiles of methylation levels across cells. Cell number n = 84. (D) Comparison of mapping efficiencies across individual cells by each method. The mapping rate was calculated by comparing the number of aligned reads to that of adaptor‐trimmed reads in each sample. (E) Scatter plot depicting the number of CG dinucleotides covered by the total aligned reads per cell by each method.
Sealing Film, supplied by Bio-Rad, used in various techniques. Bioz Stars score: 93/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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tbi0502  (Bio-Rad)
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SpliCOOL‐seq overview and performance. (A) Schematic of SpliCOOL‐seq. Single nuclei were treated with M.CviPI in situ, followed by fixation and disruption of the nucleosomes. Then, nuclei were barcoded through split‐pool combinatorial indexing after <t>universal</t> <t>Tn5</t> tagmentation. The nuclei were subsequently lysed, followed by bisulfite conversion, random priming and extension. The final library was obtained through <t>PCR</t> amplification. (B) Scatter plot illustrating the number of reads mapped to the human and mouse genomes in each cell from the species‐mixing experiment. (C) WCG and GCH methylation levels of GM12878 cells within ± 2 kb of the transcription start site (TSS) as determined by SpliCOOL‐seq, with shaded regions indicating the 25th and 75th percentiles of methylation levels across cells. Cell number n = 84. (D) Comparison of mapping efficiencies across individual cells by each method. The mapping rate was calculated by comparing the number of aligned reads to that of adaptor‐trimmed reads in each sample. (E) Scatter plot depicting the number of CG dinucleotides covered by the total aligned reads per cell by each method.
Tbi0502, supplied by Bio-Rad, used in various techniques. Bioz Stars score: 93/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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pcr tubes with flat caps  (Bio-Rad)
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SpliCOOL‐seq overview and performance. (A) Schematic of SpliCOOL‐seq. Single nuclei were treated with M.CviPI in situ, followed by fixation and disruption of the nucleosomes. Then, nuclei were barcoded through split‐pool combinatorial indexing after <t>universal</t> <t>Tn5</t> tagmentation. The nuclei were subsequently lysed, followed by bisulfite conversion, random priming and extension. The final library was obtained through <t>PCR</t> amplification. (B) Scatter plot illustrating the number of reads mapped to the human and mouse genomes in each cell from the species‐mixing experiment. (C) WCG and GCH methylation levels of GM12878 cells within ± 2 kb of the transcription start site (TSS) as determined by SpliCOOL‐seq, with shaded regions indicating the 25th and 75th percentiles of methylation levels across cells. Cell number n = 84. (D) Comparison of mapping efficiencies across individual cells by each method. The mapping rate was calculated by comparing the number of aligned reads to that of adaptor‐trimmed reads in each sample. (E) Scatter plot depicting the number of CG dinucleotides covered by the total aligned reads per cell by each method.
Pcr Tubes With Flat Caps, supplied by Bio-Rad, used in various techniques. Bioz Stars score: 93/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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pcr tubes  (Guangzhou JET Bio-Filtration)
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SpliCOOL‐seq overview and performance. (A) Schematic of SpliCOOL‐seq. Single nuclei were treated with M.CviPI in situ, followed by fixation and disruption of the nucleosomes. Then, nuclei were barcoded through split‐pool combinatorial indexing after <t>universal</t> <t>Tn5</t> tagmentation. The nuclei were subsequently lysed, followed by bisulfite conversion, random priming and extension. The final library was obtained through <t>PCR</t> amplification. (B) Scatter plot illustrating the number of reads mapped to the human and mouse genomes in each cell from the species‐mixing experiment. (C) WCG and GCH methylation levels of GM12878 cells within ± 2 kb of the transcription start site (TSS) as determined by SpliCOOL‐seq, with shaded regions indicating the 25th and 75th percentiles of methylation levels across cells. Cell number n = 84. (D) Comparison of mapping efficiencies across individual cells by each method. The mapping rate was calculated by comparing the number of aligned reads to that of adaptor‐trimmed reads in each sample. (E) Scatter plot depicting the number of CG dinucleotides covered by the total aligned reads per cell by each method.
Pcr Tubes, supplied by Guangzhou JET Bio-Filtration, used in various techniques. Bioz Stars score: 99/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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tube pcr strips  (Bio-Rad)
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SpliCOOL‐seq overview and performance. (A) Schematic of SpliCOOL‐seq. Single nuclei were treated with M.CviPI in situ, followed by fixation and disruption of the nucleosomes. Then, nuclei were barcoded through split‐pool combinatorial indexing after <t>universal</t> <t>Tn5</t> tagmentation. The nuclei were subsequently lysed, followed by bisulfite conversion, random priming and extension. The final library was obtained through <t>PCR</t> amplification. (B) Scatter plot illustrating the number of reads mapped to the human and mouse genomes in each cell from the species‐mixing experiment. (C) WCG and GCH methylation levels of GM12878 cells within ± 2 kb of the transcription start site (TSS) as determined by SpliCOOL‐seq, with shaded regions indicating the 25th and 75th percentiles of methylation levels across cells. Cell number n = 84. (D) Comparison of mapping efficiencies across individual cells by each method. The mapping rate was calculated by comparing the number of aligned reads to that of adaptor‐trimmed reads in each sample. (E) Scatter plot depicting the number of CG dinucleotides covered by the total aligned reads per cell by each method.
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SpliCOOL‐seq overview and performance. (A) Schematic of SpliCOOL‐seq. Single nuclei were treated with M.CviPI in situ, followed by fixation and disruption of the nucleosomes. Then, nuclei were barcoded through split‐pool combinatorial indexing after universal Tn5 tagmentation. The nuclei were subsequently lysed, followed by bisulfite conversion, random priming and extension. The final library was obtained through PCR amplification. (B) Scatter plot illustrating the number of reads mapped to the human and mouse genomes in each cell from the species‐mixing experiment. (C) WCG and GCH methylation levels of GM12878 cells within ± 2 kb of the transcription start site (TSS) as determined by SpliCOOL‐seq, with shaded regions indicating the 25th and 75th percentiles of methylation levels across cells. Cell number n = 84. (D) Comparison of mapping efficiencies across individual cells by each method. The mapping rate was calculated by comparing the number of aligned reads to that of adaptor‐trimmed reads in each sample. (E) Scatter plot depicting the number of CG dinucleotides covered by the total aligned reads per cell by each method.

Journal: Clinical and Translational Medicine

Article Title: High‐throughput single‐cell DNA methylation and chromatin accessibility co‐profiling with SpliCOOL‐seq

doi: 10.1002/ctm2.70584

Figure Lengend Snippet: SpliCOOL‐seq overview and performance. (A) Schematic of SpliCOOL‐seq. Single nuclei were treated with M.CviPI in situ, followed by fixation and disruption of the nucleosomes. Then, nuclei were barcoded through split‐pool combinatorial indexing after universal Tn5 tagmentation. The nuclei were subsequently lysed, followed by bisulfite conversion, random priming and extension. The final library was obtained through PCR amplification. (B) Scatter plot illustrating the number of reads mapped to the human and mouse genomes in each cell from the species‐mixing experiment. (C) WCG and GCH methylation levels of GM12878 cells within ± 2 kb of the transcription start site (TSS) as determined by SpliCOOL‐seq, with shaded regions indicating the 25th and 75th percentiles of methylation levels across cells. Cell number n = 84. (D) Comparison of mapping efficiencies across individual cells by each method. The mapping rate was calculated by comparing the number of aligned reads to that of adaptor‐trimmed reads in each sample. (E) Scatter plot depicting the number of CG dinucleotides covered by the total aligned reads per cell by each method.

Article Snippet: The nuclei were distributed into PCR tubes (20 000 nuclei per tube) that contained 2 μL Tn5 transposase complex, 4 μL 5×TTBL tagmentation buffer (Vazyme, S601‐01) and NF‐water up to a total of 20 μL.

Techniques: In Situ, Disruption, Amplification, Methylation, Comparison