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Illumina Inc long range pcr
Laboratory procedure used to obtain MHC II <t>DRB</t> short and long amplicons, and assembly pipelines. The short amplicon was sequenced by standard Sanger sequencing (step 1), while the long amplicon was sequenced with Illumina MiSeq and nanopore MinION after gel extraction (step 2). The gene structure is based on Bos taurus (Ensembl: ENSBTAG00000013919) and Ovis aries (GenBank AM884914) structures. Boxes: coding regions, lines: introns, horizontal arrows: <t>PCR</t> primers
Long Range Pcr, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 92/100, based on 46 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/result/long range pcr/product/Illumina Inc
Average 92 stars, based on 46 article reviews
Price from $9.99 to $1999.99
long range pcr - by Bioz Stars, 2020-09
92/100 stars

Images

1) Product Images from "A new hybrid approach for MHC genotyping: high-throughput NGS and long read MinION nanopore sequencing, with application to the non-model vertebrate Alpine chamois (Rupicapra rupicapra)"

Article Title: A new hybrid approach for MHC genotyping: high-throughput NGS and long read MinION nanopore sequencing, with application to the non-model vertebrate Alpine chamois (Rupicapra rupicapra)

Journal: Heredity

doi: 10.1038/s41437-018-0070-5

Laboratory procedure used to obtain MHC II DRB short and long amplicons, and assembly pipelines. The short amplicon was sequenced by standard Sanger sequencing (step 1), while the long amplicon was sequenced with Illumina MiSeq and nanopore MinION after gel extraction (step 2). The gene structure is based on Bos taurus (Ensembl: ENSBTAG00000013919) and Ovis aries (GenBank AM884914) structures. Boxes: coding regions, lines: introns, horizontal arrows: PCR primers
Figure Legend Snippet: Laboratory procedure used to obtain MHC II DRB short and long amplicons, and assembly pipelines. The short amplicon was sequenced by standard Sanger sequencing (step 1), while the long amplicon was sequenced with Illumina MiSeq and nanopore MinION after gel extraction (step 2). The gene structure is based on Bos taurus (Ensembl: ENSBTAG00000013919) and Ovis aries (GenBank AM884914) structures. Boxes: coding regions, lines: introns, horizontal arrows: PCR primers

Techniques Used: Amplification, Sequencing, Gel Extraction, Polymerase Chain Reaction

2) Product Images from "Exome sequencing identifies frequent mutation of MLL2 in non–small cell lung carcinoma from Chinese patients"

Article Title: Exome sequencing identifies frequent mutation of MLL2 in non–small cell lung carcinoma from Chinese patients

Journal: Scientific Reports

doi: 10.1038/srep06036

Somatic Mutations and gene expression of MLL2 in NSCLC. (A) Schematic representation of somatic mutations identified in MLL2 shown in the context of the known domain structures. Numbers refer to amino acid residues. Frame-shift and nonsense mutations are shown in red; other missense mutations are shown in black. (B) Pair-wise comparisons of MLL2 expression in NSCLC tumors and adjacent normal tissues. Relative abundance of MLL2 was measured based on the ratio between fluorescence emission intensity values between MLL2 and GAPDH in the same sample obtained by quantitative real-time PCR. Patients with loss-of-function mutations in MLL2 are in red while others are in grey. (C) The distribution of MLL2 expression levels between tumor and normal tissues.
Figure Legend Snippet: Somatic Mutations and gene expression of MLL2 in NSCLC. (A) Schematic representation of somatic mutations identified in MLL2 shown in the context of the known domain structures. Numbers refer to amino acid residues. Frame-shift and nonsense mutations are shown in red; other missense mutations are shown in black. (B) Pair-wise comparisons of MLL2 expression in NSCLC tumors and adjacent normal tissues. Relative abundance of MLL2 was measured based on the ratio between fluorescence emission intensity values between MLL2 and GAPDH in the same sample obtained by quantitative real-time PCR. Patients with loss-of-function mutations in MLL2 are in red while others are in grey. (C) The distribution of MLL2 expression levels between tumor and normal tissues.

Techniques Used: Expressing, Fluorescence, Real-time Polymerase Chain Reaction

3) Product Images from "A new hybrid approach for MHC genotyping: high-throughput NGS and long read MinION nanopore sequencing, with application to the non-model vertebrate Alpine chamois (Rupicapra rupicapra)"

Article Title: A new hybrid approach for MHC genotyping: high-throughput NGS and long read MinION nanopore sequencing, with application to the non-model vertebrate Alpine chamois (Rupicapra rupicapra)

Journal: Heredity

doi: 10.1038/s41437-018-0070-5

Laboratory procedure used to obtain MHC II DRB short and long amplicons, and assembly pipelines. The short amplicon was sequenced by standard Sanger sequencing (step 1), while the long amplicon was sequenced with Illumina MiSeq and nanopore MinION after gel extraction (step 2). The gene structure is based on Bos taurus (Ensembl: ENSBTAG00000013919) and Ovis aries (GenBank AM884914) structures. Boxes: coding regions, lines: introns, horizontal arrows: PCR primers
Figure Legend Snippet: Laboratory procedure used to obtain MHC II DRB short and long amplicons, and assembly pipelines. The short amplicon was sequenced by standard Sanger sequencing (step 1), while the long amplicon was sequenced with Illumina MiSeq and nanopore MinION after gel extraction (step 2). The gene structure is based on Bos taurus (Ensembl: ENSBTAG00000013919) and Ovis aries (GenBank AM884914) structures. Boxes: coding regions, lines: introns, horizontal arrows: PCR primers

Techniques Used: Amplification, Sequencing, Gel Extraction, Polymerase Chain Reaction

Related Articles

Polymerase Chain Reaction:

Article Title: The Complete Chloroplast Genome of 17 Individuals of Pest Species Jacobaea vulgaris: SNPs, Microsatellites and Barcoding Markers for Population and Phylogenetic Studies
Article Snippet: .. During the long-range PCR and PCR steps in the sample preparation steps for the Illumina platform, indels can occur in microsatellite loci, leading to less or more repeats. .. Consequently, the Illumina reads for microsatellite loci differed, making it hard to deduce the repeat length.

Article Title: Exome sequencing identifies frequent mutation of MLL2 in non–small cell lung carcinoma from Chinese patients
Article Snippet: .. Specifically, all exons of MLL2 in each tumor tissue were amplified using long-range PCR, followed by barcoded sequencing on the Illumina Genome Analyzer with an average coverage of ~1000× per sample. .. After removing known mutations in dbSNP and 1000 Genomes, we resequenced all nonsynonmous mutations in tumor/normal pairs to screen for novel somatic mutations using Sequenom followed by Sanger sequencing.

Article Title: A new hybrid approach for MHC genotyping: high-throughput NGS and long read MinION nanopore sequencing, with application to the non-model vertebrate Alpine chamois (Rupicapra rupicapra)
Article Snippet: .. We designed a combination of long-range PCR, Illumina short-reads, and Oxford Nanopore MinION long-reads approaches to capture the genetic variation of the MHC II DRB locus in an Italian population of the Alpine chamois (Rupicapra rupicapra ). .. We utilized long-range PCR to generate a 9 Kb fragment of the DRB locus.

Article Title: Genome characterization and population genetic structure of the zoonotic pathogen, Streptococcus canis
Article Snippet: .. Seven larger gaps were closed using long range PCR and Illumina sequencing. .. Illumina reads were assembled using Velvet [ ], and the optimum assembly was determined using the N50 statistic.

Article Title: A new hybrid approach for MHC genotyping: high-throughput NGS and long read MinION nanopore sequencing, with application to the non-model vertebrate Alpine chamois (Rupicapra rupicapra)
Article Snippet: .. We utilized long-range PCR to generate a 9 Kb fragment of the DRB locus. .. Amplicons from six different individuals were fragmented, tagged, and simultaneously sequenced with Illumina MiSeq.

Article Title: A new hybrid approach for MHC genotyping: high-throughput NGS and long read MinION nanopore sequencing, with application to the non-model vertebrate Alpine chamois (Rupicapra rupicapra)
Article Snippet: .. More in detail, we designed primers on DRB exons 1 and 3 and set-up a long-range PCR coupled with Illumina NGS sequencing to a very high coverage. .. Long-range PCR is an efficient, robust, and cost-effective approach for sequencing candidate genomic regions with NGS platforms (Jia et al. ; Deiner et al. ).

Article Title: A new hybrid approach for MHC genotyping: high-throughput NGS and long read MinION nanopore sequencing, with application to the non-model vertebrate Alpine chamois (Rupicapra rupicapra)
Article Snippet: .. Long-range PCR is an efficient, robust, and cost-effective approach for sequencing candidate genomic regions with NGS platforms (Jia et al. ; Deiner et al. ). .. The resulting amplicon (defined as a set of sequences derived from the same PCR that can include allelic copies from the same or multiple loci) captures the most variable region of the DRB locus, i.e., intron 1- exon 2- intron 2, spanning about 16 Kb in B. taurus (Ensembl: ENSBTAG00000013919) and 9 Kb in Ovis aries (GenBank AM884914).

Article Title: Persistent Hyperinsulinism in Kabuki Syndrome 2: Case Report and Literature Review
Article Snippet: .. Using extracted lymphocyte DNA, whole coding sequences of the KMT2D and KDM6A genes, including the splice donor and acceptor sites, were amplified using long range polymerase chain reaction followed by screening using Next Generation sequencing with Illumina MISeq sequencing by synthesis technology. .. The whole coding region end flanked by sequences to +/- 15 bp were submitted to a minimum of 100x coverage with mutation and variant calling by a customized bioinformatic pipeline.

Sequencing:

Article Title: Exome sequencing identifies frequent mutation of MLL2 in non–small cell lung carcinoma from Chinese patients
Article Snippet: .. Specifically, all exons of MLL2 in each tumor tissue were amplified using long-range PCR, followed by barcoded sequencing on the Illumina Genome Analyzer with an average coverage of ~1000× per sample. .. After removing known mutations in dbSNP and 1000 Genomes, we resequenced all nonsynonmous mutations in tumor/normal pairs to screen for novel somatic mutations using Sequenom followed by Sanger sequencing.

Article Title: Genome characterization and population genetic structure of the zoonotic pathogen, Streptococcus canis
Article Snippet: .. Seven larger gaps were closed using long range PCR and Illumina sequencing. .. Illumina reads were assembled using Velvet [ ], and the optimum assembly was determined using the N50 statistic.

Article Title: A new hybrid approach for MHC genotyping: high-throughput NGS and long read MinION nanopore sequencing, with application to the non-model vertebrate Alpine chamois (Rupicapra rupicapra)
Article Snippet: .. More in detail, we designed primers on DRB exons 1 and 3 and set-up a long-range PCR coupled with Illumina NGS sequencing to a very high coverage. .. Long-range PCR is an efficient, robust, and cost-effective approach for sequencing candidate genomic regions with NGS platforms (Jia et al. ; Deiner et al. ).

Article Title: A new hybrid approach for MHC genotyping: high-throughput NGS and long read MinION nanopore sequencing, with application to the non-model vertebrate Alpine chamois (Rupicapra rupicapra)
Article Snippet: .. Long-range PCR is an efficient, robust, and cost-effective approach for sequencing candidate genomic regions with NGS platforms (Jia et al. ; Deiner et al. ). .. The resulting amplicon (defined as a set of sequences derived from the same PCR that can include allelic copies from the same or multiple loci) captures the most variable region of the DRB locus, i.e., intron 1- exon 2- intron 2, spanning about 16 Kb in B. taurus (Ensembl: ENSBTAG00000013919) and 9 Kb in Ovis aries (GenBank AM884914).

Article Title: Persistent Hyperinsulinism in Kabuki Syndrome 2: Case Report and Literature Review
Article Snippet: .. Using extracted lymphocyte DNA, whole coding sequences of the KMT2D and KDM6A genes, including the splice donor and acceptor sites, were amplified using long range polymerase chain reaction followed by screening using Next Generation sequencing with Illumina MISeq sequencing by synthesis technology. .. The whole coding region end flanked by sequences to +/- 15 bp were submitted to a minimum of 100x coverage with mutation and variant calling by a customized bioinformatic pipeline.

Next-Generation Sequencing:

Article Title: A new hybrid approach for MHC genotyping: high-throughput NGS and long read MinION nanopore sequencing, with application to the non-model vertebrate Alpine chamois (Rupicapra rupicapra)
Article Snippet: .. More in detail, we designed primers on DRB exons 1 and 3 and set-up a long-range PCR coupled with Illumina NGS sequencing to a very high coverage. .. Long-range PCR is an efficient, robust, and cost-effective approach for sequencing candidate genomic regions with NGS platforms (Jia et al. ; Deiner et al. ).

Article Title: A new hybrid approach for MHC genotyping: high-throughput NGS and long read MinION nanopore sequencing, with application to the non-model vertebrate Alpine chamois (Rupicapra rupicapra)
Article Snippet: .. Long-range PCR is an efficient, robust, and cost-effective approach for sequencing candidate genomic regions with NGS platforms (Jia et al. ; Deiner et al. ). .. The resulting amplicon (defined as a set of sequences derived from the same PCR that can include allelic copies from the same or multiple loci) captures the most variable region of the DRB locus, i.e., intron 1- exon 2- intron 2, spanning about 16 Kb in B. taurus (Ensembl: ENSBTAG00000013919) and 9 Kb in Ovis aries (GenBank AM884914).

Article Title: Persistent Hyperinsulinism in Kabuki Syndrome 2: Case Report and Literature Review
Article Snippet: .. Using extracted lymphocyte DNA, whole coding sequences of the KMT2D and KDM6A genes, including the splice donor and acceptor sites, were amplified using long range polymerase chain reaction followed by screening using Next Generation sequencing with Illumina MISeq sequencing by synthesis technology. .. The whole coding region end flanked by sequences to +/- 15 bp were submitted to a minimum of 100x coverage with mutation and variant calling by a customized bioinformatic pipeline.

Amplification:

Article Title: Exome sequencing identifies frequent mutation of MLL2 in non–small cell lung carcinoma from Chinese patients
Article Snippet: .. Specifically, all exons of MLL2 in each tumor tissue were amplified using long-range PCR, followed by barcoded sequencing on the Illumina Genome Analyzer with an average coverage of ~1000× per sample. .. After removing known mutations in dbSNP and 1000 Genomes, we resequenced all nonsynonmous mutations in tumor/normal pairs to screen for novel somatic mutations using Sequenom followed by Sanger sequencing.

Article Title: Persistent Hyperinsulinism in Kabuki Syndrome 2: Case Report and Literature Review
Article Snippet: .. Using extracted lymphocyte DNA, whole coding sequences of the KMT2D and KDM6A genes, including the splice donor and acceptor sites, were amplified using long range polymerase chain reaction followed by screening using Next Generation sequencing with Illumina MISeq sequencing by synthesis technology. .. The whole coding region end flanked by sequences to +/- 15 bp were submitted to a minimum of 100x coverage with mutation and variant calling by a customized bioinformatic pipeline.

Sample Prep:

Article Title: The Complete Chloroplast Genome of 17 Individuals of Pest Species Jacobaea vulgaris: SNPs, Microsatellites and Barcoding Markers for Population and Phylogenetic Studies
Article Snippet: .. During the long-range PCR and PCR steps in the sample preparation steps for the Illumina platform, indels can occur in microsatellite loci, leading to less or more repeats. .. Consequently, the Illumina reads for microsatellite loci differed, making it hard to deduce the repeat length.

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  • 92
    Illumina Inc long range pcr
    Laboratory procedure used to obtain MHC II <t>DRB</t> short and long amplicons, and assembly pipelines. The short amplicon was sequenced by standard Sanger sequencing (step 1), while the long amplicon was sequenced with Illumina MiSeq and nanopore MinION after gel extraction (step 2). The gene structure is based on Bos taurus (Ensembl: ENSBTAG00000013919) and Ovis aries (GenBank AM884914) structures. Boxes: coding regions, lines: introns, horizontal arrows: <t>PCR</t> primers
    Long Range Pcr, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 92/100, based on 46 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/long range pcr/product/Illumina Inc
    Average 92 stars, based on 46 article reviews
    Price from $9.99 to $1999.99
    long range pcr - by Bioz Stars, 2020-09
    92/100 stars
      Buy from Supplier

    90
    Illumina Inc coupling long range pcr
    Coverage plots. ( A ) Coverage of mitogenomes from 16 species of Schizophora generated by long-range <t>PCR</t> and shotgun sequencing. Highlighted regions indicate an overlap (green) and the 16S gap (orange) region between the two amplicons. Gaps in 16S sequence were further closed through standard PCR and Sanger sequencing. ( B ) 16 mitogenomes assembled from short reads generated by whole genome sequencing. Both strategies used short reads from MiSeq or HiSeq Illumina platforms to generate high-quality assemblies. ( C ) Coverage plot of the complete <t>mtDNA</t> assembled with long reads generated with SMRT sequencing technology. The scheme shows the complete mtDNA of C. megacephala (sample F03) assembled with 15,835 bp. First track shows the low GC content (23.5%). Orange bars on the second track refer to the coverage. The innermost track shows gene order in each mtDNA strand. Yellow arrows denote PCGs, green arrows show rRNA subunits and orange arrows refer to tRNAs.
    Coupling Long Range Pcr, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/coupling long range pcr/product/Illumina Inc
    Average 90 stars, based on 1 article reviews
    Price from $9.99 to $1999.99
    coupling long range pcr - by Bioz Stars, 2020-09
    90/100 stars
      Buy from Supplier

    Image Search Results


    Laboratory procedure used to obtain MHC II DRB short and long amplicons, and assembly pipelines. The short amplicon was sequenced by standard Sanger sequencing (step 1), while the long amplicon was sequenced with Illumina MiSeq and nanopore MinION after gel extraction (step 2). The gene structure is based on Bos taurus (Ensembl: ENSBTAG00000013919) and Ovis aries (GenBank AM884914) structures. Boxes: coding regions, lines: introns, horizontal arrows: PCR primers

    Journal: Heredity

    Article Title: A new hybrid approach for MHC genotyping: high-throughput NGS and long read MinION nanopore sequencing, with application to the non-model vertebrate Alpine chamois (Rupicapra rupicapra)

    doi: 10.1038/s41437-018-0070-5

    Figure Lengend Snippet: Laboratory procedure used to obtain MHC II DRB short and long amplicons, and assembly pipelines. The short amplicon was sequenced by standard Sanger sequencing (step 1), while the long amplicon was sequenced with Illumina MiSeq and nanopore MinION after gel extraction (step 2). The gene structure is based on Bos taurus (Ensembl: ENSBTAG00000013919) and Ovis aries (GenBank AM884914) structures. Boxes: coding regions, lines: introns, horizontal arrows: PCR primers

    Article Snippet: More in detail, we designed primers on DRB exons 1 and 3 and set-up a long-range PCR coupled with Illumina NGS sequencing to a very high coverage.

    Techniques: Amplification, Sequencing, Gel Extraction, Polymerase Chain Reaction

    Somatic Mutations and gene expression of MLL2 in NSCLC. (A) Schematic representation of somatic mutations identified in MLL2 shown in the context of the known domain structures. Numbers refer to amino acid residues. Frame-shift and nonsense mutations are shown in red; other missense mutations are shown in black. (B) Pair-wise comparisons of MLL2 expression in NSCLC tumors and adjacent normal tissues. Relative abundance of MLL2 was measured based on the ratio between fluorescence emission intensity values between MLL2 and GAPDH in the same sample obtained by quantitative real-time PCR. Patients with loss-of-function mutations in MLL2 are in red while others are in grey. (C) The distribution of MLL2 expression levels between tumor and normal tissues.

    Journal: Scientific Reports

    Article Title: Exome sequencing identifies frequent mutation of MLL2 in non–small cell lung carcinoma from Chinese patients

    doi: 10.1038/srep06036

    Figure Lengend Snippet: Somatic Mutations and gene expression of MLL2 in NSCLC. (A) Schematic representation of somatic mutations identified in MLL2 shown in the context of the known domain structures. Numbers refer to amino acid residues. Frame-shift and nonsense mutations are shown in red; other missense mutations are shown in black. (B) Pair-wise comparisons of MLL2 expression in NSCLC tumors and adjacent normal tissues. Relative abundance of MLL2 was measured based on the ratio between fluorescence emission intensity values between MLL2 and GAPDH in the same sample obtained by quantitative real-time PCR. Patients with loss-of-function mutations in MLL2 are in red while others are in grey. (C) The distribution of MLL2 expression levels between tumor and normal tissues.

    Article Snippet: Specifically, all exons of MLL2 in each tumor tissue were amplified using long-range PCR, followed by barcoded sequencing on the Illumina Genome Analyzer with an average coverage of ~1000× per sample.

    Techniques: Expressing, Fluorescence, Real-time Polymerase Chain Reaction

    Coverage plots. ( A ) Coverage of mitogenomes from 16 species of Schizophora generated by long-range PCR and shotgun sequencing. Highlighted regions indicate an overlap (green) and the 16S gap (orange) region between the two amplicons. Gaps in 16S sequence were further closed through standard PCR and Sanger sequencing. ( B ) 16 mitogenomes assembled from short reads generated by whole genome sequencing. Both strategies used short reads from MiSeq or HiSeq Illumina platforms to generate high-quality assemblies. ( C ) Coverage plot of the complete mtDNA assembled with long reads generated with SMRT sequencing technology. The scheme shows the complete mtDNA of C. megacephala (sample F03) assembled with 15,835 bp. First track shows the low GC content (23.5%). Orange bars on the second track refer to the coverage. The innermost track shows gene order in each mtDNA strand. Yellow arrows denote PCGs, green arrows show rRNA subunits and orange arrows refer to tRNAs.

    Journal: Scientific Reports

    Article Title: Large-scale mitogenomics enables insights into Schizophora (Diptera) radiation and population diversity

    doi: 10.1038/srep21762

    Figure Lengend Snippet: Coverage plots. ( A ) Coverage of mitogenomes from 16 species of Schizophora generated by long-range PCR and shotgun sequencing. Highlighted regions indicate an overlap (green) and the 16S gap (orange) region between the two amplicons. Gaps in 16S sequence were further closed through standard PCR and Sanger sequencing. ( B ) 16 mitogenomes assembled from short reads generated by whole genome sequencing. Both strategies used short reads from MiSeq or HiSeq Illumina platforms to generate high-quality assemblies. ( C ) Coverage plot of the complete mtDNA assembled with long reads generated with SMRT sequencing technology. The scheme shows the complete mtDNA of C. megacephala (sample F03) assembled with 15,835 bp. First track shows the low GC content (23.5%). Orange bars on the second track refer to the coverage. The innermost track shows gene order in each mtDNA strand. Yellow arrows denote PCGs, green arrows show rRNA subunits and orange arrows refer to tRNAs.

    Article Snippet: For most of the samples, two main strategies were adopted to generate mtDNA sequences from short reads: (i) coupling long-range PCR with sequencing on a MiSeq (Illumina Inc.) platform, and (ii) WGS sequencing on a MiSeq or HiSeq2000 (Illumina Inc.).

    Techniques: Generated, Polymerase Chain Reaction, Shotgun Sequencing, Sequencing