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Illumina Inc paired end adapter oligos
Paired End Adapter Oligos, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 83/100, based on 3 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/result/paired end adapter oligos/product/Illumina Inc
Average 83 stars, based on 3 article reviews
Price from $9.99 to $1999.99
paired end adapter oligos - by Bioz Stars, 2020-03
83/100 stars

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Amplification:

Article Title: Genome-Wide Identification of Bcl11b Gene Targets Reveals Role in Brain-Derived Neurotrophic Factor Signaling
Article Snippet: Illumina Paired End-adapter oligonucleotides (0.33 µM) were then ligated to the A-tailed cDNA ends and purified as before. .. The DNA material was PCR amplified and purified on 2% NuSieve GTG® agarose gel, excised, and isolated again using Zymoclean™Gel DNA recovery kit.

Article Title: The long-range interaction landscape of gene promoters
Article Snippet: At least four separate amplification reactions were carried out for each 10-15 annealing reactions described above and all the PCR products were pooled together. .. To facilitate Illumina paired end DNA sequence analysis of 5C libraries, Illumina paired end adapter oligos (Illumina, San Diego, CA) were ligated to the 5C library using the Illumina PE protocol.

Article Title: Genome-wide in Silico Identification of New Conserved and Functional Retinoic Acid Receptor Response Elements (Direct Repeats Separated by 5 bp) *
Article Snippet: After second-strand synthesis, the cDNAs went through end-repair and ligation reactions using paired-end adapter oligos from Illumina and were electrophoresed on an agarose gel. .. A slice containing fragments in the 300-bp range was excised, and after elution and purification, the library was amplified with 15 cycles of PCR with Illumina sequencing primers and purified using Agencourt AMPure XP beads from Beckman.

Article Title: Forkhead box protein p1 is a transcriptional repressor of immune signaling in the CNS: implications for transcriptional dysregulation in Huntington disease
Article Snippet: Illumina Paired End-adapter oligonucleotides (0.33μ m ) were then ligated to the A-tailed cDNA ends with 3000 units T4 DNA ligase at 20°C for 15min in 66 m m Tris–HCl (pH 7.6), 10 m m MgCl2 , 1 m m dithiothreitol, 1 m m ATP and 1 m m PEG in a 30 μl reaction volume. .. The DNA material was PCR amplified with 1 unit of Phusion™ Polymerase in standard 1X Phusion™ HF buffer with 0.2 m m dNTPs and 0.6μ m PCR primers PE 1.0 and PE 2.0 for 15 cycles.

Article Title: Long noncoding RNA programs active chromatin domain to coordinate homeotic gene activation
Article Snippet: .. To facilitate paired end DNA sequence analysis on the Illumina GA2 platform, paired end adapter oligos were ligated to the 5C library using the Illumina PE protocol and PCR amplification of the library was carried out for 18 cycles with Illumina PCR primer PE 1.0 and 2.0. .. The 5C library was then sequenced on the Illumina GA2 platform generating 36 base paired end reads.

Synthesized:

Article Title: Transcriptome Analysis of Differentially Expressed Genes Involved in Proanthocyanidin Accumulation in the Rhizomes of Fagopyrum dibotrys and an Irradiation-Induced Mutant
Article Snippet: First-strand cDNA was synthesized using random oligonucleotides and SuperScript II (Invitrogen, Carlsbad, CA, USA). cDNA synthesis was subsequently performed using DNA Polymerase I and RNase H. The remaining overhangs were converted into blunt ends via exonuclease/polymerase activities, and the enzymes were removed. .. After adenylation of the 3′ ends of the DNA fragments, Illumina paired-end adapter oligonucleotides were ligated to prepare for hybridization.

Real-time Polymerase Chain Reaction:

Article Title: Analysis of the chromosome X exome in patients with autism spectrum disorders identified novel candidate genes, including TMLHE
Article Snippet: Paired-end adapter oligonucleotides from Illumina were ligated on repaired A-tailed fragments, then purified and enriched by six PCR cycles. .. Then 500 ng of these purified libraries were hybridized to the SureSelect oligo probe capture library for 24 h. After hybridization, washing and elution, the eluted fraction was PCR-amplified for 10–12 cycles, purified and quantified by quantitative PCR to obtain sufficient DNA template for downstream applications.

Article Title: Patterns of genomic variation in the poplar rust fungus Melampsora larici-populina identify pathogenesis-related factors
Article Snippet: Paired-end adapter oligonucleotides from Illumina were ligated on repaired A-tailed DNA fragments, then purified and enriched by PCR cycles. .. Each library was quantified by qPCR and sequenced on Illumina HiSeq2000 platform as paired-end 100 nt reads.

Incubation:

Article Title: Analyzing and minimizing PCR amplification bias in Illumina sequencing libraries
Article Snippet: End-repair reactions (56 μl) contained 1× T4 DNA ligase buffer (NEB, Ipswich, MA, USA), 1.4 mM ATP, 0.4 mM dNTPs, 0.1 mg/ml bovine serum albumin, 15 units T4 DNA polymerase (NEB), 50 units T4 polynucleotide kinase (NEB) and were incubated stepwise for 15 minutes at 12°C and 15 minutes at 25°C. .. Adapter ligations (50 μl) contained 1× Quickligation buffer (NEB), 3 μl annealed paired-end adapter oligonucleotides (Illumina, San Diego, CA, USA), 5 units T4 DNA ligase (NEB) and were carried out for 15 minutes at 25°C.

Hybridization:

Article Title: Analysis of the chromosome X exome in patients with autism spectrum disorders identified novel candidate genes, including TMLHE
Article Snippet: Paired-end adapter oligonucleotides from Illumina were ligated on repaired A-tailed fragments, then purified and enriched by six PCR cycles. .. Then 500 ng of these purified libraries were hybridized to the SureSelect oligo probe capture library for 24 h. After hybridization, washing and elution, the eluted fraction was PCR-amplified for 10–12 cycles, purified and quantified by quantitative PCR to obtain sufficient DNA template for downstream applications.

Article Title: Transcriptome Analysis of Differentially Expressed Genes Involved in Proanthocyanidin Accumulation in the Rhizomes of Fagopyrum dibotrys and an Irradiation-Induced Mutant
Article Snippet: .. After adenylation of the 3′ ends of the DNA fragments, Illumina paired-end adapter oligonucleotides were ligated to prepare for hybridization. .. The library fragments were purified with in an AMPure XP system (Beckman Coulter, Beverly, MA, USA).

Ligation:

Article Title: The long-range interaction landscape of gene promoters
Article Snippet: Ligated 5C primer pairs, which represent a specific ligation junction in the 3C library and thus a long-range interaction between the two corresponding loci, were then amplified using 28 cycles of PCR with universal tail primers that recognize the common tails of the 5C forward and reverse primers. .. To facilitate Illumina paired end DNA sequence analysis of 5C libraries, Illumina paired end adapter oligos (Illumina, San Diego, CA) were ligated to the 5C library using the Illumina PE protocol.

Article Title: Genome-wide in Silico Identification of New Conserved and Functional Retinoic Acid Receptor Response Elements (Direct Repeats Separated by 5 bp) *
Article Snippet: .. After second-strand synthesis, the cDNAs went through end-repair and ligation reactions using paired-end adapter oligos from Illumina and were electrophoresed on an agarose gel. .. A slice containing fragments in the 300-bp range was excised, and after elution and purification, the library was amplified with 15 cycles of PCR with Illumina sequencing primers and purified using Agencourt AMPure XP beads from Beckman.

Article Title: Long noncoding RNA programs active chromatin domain to coordinate homeotic gene activation
Article Snippet: 5C ligation products were amplified using a pair of universal primers that recognize the common tails of the 5C forward and reverse primers described above and pooled together. .. To facilitate paired end DNA sequence analysis on the Illumina GA2 platform, paired end adapter oligos were ligated to the 5C library using the Illumina PE protocol and PCR amplification of the library was carried out for 18 cycles with Illumina PCR primer PE 1.0 and 2.0.

Generated:

Article Title: Transcriptome Analysis of Differentially Expressed Genes Involved in Proanthocyanidin Accumulation in the Rhizomes of Fagopyrum dibotrys and an Irradiation-Induced Mutant
Article Snippet: The sequencing libraries were generated using IlluminaTruSeq™ RNA Sample Preparation Kit (Illumina, San Diego, CA, USA) by following manufacturer's recommendations, and index codes were added to attribute the sequences to each sample. .. After adenylation of the 3′ ends of the DNA fragments, Illumina paired-end adapter oligonucleotides were ligated to prepare for hybridization.

DNA Sequencing:

Article Title: Genome-wide in Silico Identification of New Conserved and Functional Retinoic Acid Receptor Response Elements (Direct Repeats Separated by 5 bp) *
Article Snippet: After isolation of total RNA, a library of template molecules suitable for high throughput DNA sequencing was created according to the instructions of Illumina. .. After second-strand synthesis, the cDNAs went through end-repair and ligation reactions using paired-end adapter oligos from Illumina and were electrophoresed on an agarose gel.

Sequencing:

Article Title: Genome-Wide Identification of Bcl11b Gene Targets Reveals Role in Brain-Derived Neurotrophic Factor Signaling
Article Snippet: Chromatin-immunoprecipitation-sequencing (ChIP-seq) ChIP-seq sequencing libraries were prepared using 10 ng of DNA prepared by ChIP above (pull-down and input). .. Illumina Paired End-adapter oligonucleotides (0.33 µM) were then ligated to the A-tailed cDNA ends and purified as before.

Article Title: The long-range interaction landscape of gene promoters
Article Snippet: .. To facilitate Illumina paired end DNA sequence analysis of 5C libraries, Illumina paired end adapter oligos (Illumina, San Diego, CA) were ligated to the 5C library using the Illumina PE protocol. .. The linkered 5C library was then amplified by PCR (17 or 18 cycles, with Phusion High Fidelity DNA polymerase) using Illumina PCR primer PE 1.0 and 2.0.

Article Title: Analysis of the chromosome X exome in patients with autism spectrum disorders identified novel candidate genes, including TMLHE
Article Snippet: For detailed explanations of the process, see Gnirke et al. Sequence capture, enrichment and elution were performed precisely according to the manufacturer's instructions and protocols. .. Paired-end adapter oligonucleotides from Illumina were ligated on repaired A-tailed fragments, then purified and enriched by six PCR cycles.

Article Title: Patterns of genomic variation in the poplar rust fungus Melampsora larici-populina identify pathogenesis-related factors
Article Snippet: Genome re-sequencing For all isolates, except 98AR1, genomic DNA libraries were prepared using TruSeq DNA sample preparation kit (v3) followed by paired-end 100 nt massively parallel sequencing on Illumina HiSEQ2000 by Integragen (Evry, France). .. Paired-end adapter oligonucleotides from Illumina were ligated on repaired A-tailed DNA fragments, then purified and enriched by PCR cycles.

Article Title: Genome-wide in Silico Identification of New Conserved and Functional Retinoic Acid Receptor Response Elements (Direct Repeats Separated by 5 bp) *
Article Snippet: After second-strand synthesis, the cDNAs went through end-repair and ligation reactions using paired-end adapter oligos from Illumina and were electrophoresed on an agarose gel. .. A slice containing fragments in the 300-bp range was excised, and after elution and purification, the library was amplified with 15 cycles of PCR with Illumina sequencing primers and purified using Agencourt AMPure XP beads from Beckman.

Article Title: Forkhead box protein p1 is a transcriptional repressor of immune signaling in the CNS: implications for transcriptional dysregulation in Huntington disease
Article Snippet: Paragraph title: Chromatin-immunoprecipitation sequencing (ChIP-seq) ... Illumina Paired End-adapter oligonucleotides (0.33μ m ) were then ligated to the A-tailed cDNA ends with 3000 units T4 DNA ligase at 20°C for 15min in 66 m m Tris–HCl (pH 7.6), 10 m m MgCl2 , 1 m m dithiothreitol, 1 m m ATP and 1 m m PEG in a 30 μl reaction volume.

Article Title: Long noncoding RNA programs active chromatin domain to coordinate homeotic gene activation
Article Snippet: .. To facilitate paired end DNA sequence analysis on the Illumina GA2 platform, paired end adapter oligos were ligated to the 5C library using the Illumina PE protocol and PCR amplification of the library was carried out for 18 cycles with Illumina PCR primer PE 1.0 and 2.0. .. The 5C library was then sequenced on the Illumina GA2 platform generating 36 base paired end reads.

Article Title: Transcriptome Analysis of Differentially Expressed Genes Involved in Proanthocyanidin Accumulation in the Rhizomes of Fagopyrum dibotrys and an Irradiation-Induced Mutant
Article Snippet: The sequencing libraries were generated using IlluminaTruSeq™ RNA Sample Preparation Kit (Illumina, San Diego, CA, USA) by following manufacturer's recommendations, and index codes were added to attribute the sequences to each sample. .. After adenylation of the 3′ ends of the DNA fragments, Illumina paired-end adapter oligonucleotides were ligated to prepare for hybridization.

ChIP-sequencing:

Article Title: Genome-Wide Identification of Bcl11b Gene Targets Reveals Role in Brain-Derived Neurotrophic Factor Signaling
Article Snippet: Paragraph title: Chromatin-immunoprecipitation-sequencing (ChIP-seq) ... Illumina Paired End-adapter oligonucleotides (0.33 µM) were then ligated to the A-tailed cDNA ends and purified as before.

Article Title: Forkhead box protein p1 is a transcriptional repressor of immune signaling in the CNS: implications for transcriptional dysregulation in Huntington disease
Article Snippet: Paragraph title: Chromatin-immunoprecipitation sequencing (ChIP-seq) ... Illumina Paired End-adapter oligonucleotides (0.33μ m ) were then ligated to the A-tailed cDNA ends with 3000 units T4 DNA ligase at 20°C for 15min in 66 m m Tris–HCl (pH 7.6), 10 m m MgCl2 , 1 m m dithiothreitol, 1 m m ATP and 1 m m PEG in a 30 μl reaction volume.

RNA Sequencing Assay:

Article Title: Genome-wide in Silico Identification of New Conserved and Functional Retinoic Acid Receptor Response Elements (Direct Repeats Separated by 5 bp) *
Article Snippet: Paragraph title: RNA Sequencing ... After second-strand synthesis, the cDNAs went through end-repair and ligation reactions using paired-end adapter oligos from Illumina and were electrophoresed on an agarose gel.

Magnetic Beads:

Article Title: Transcriptome Analysis of Differentially Expressed Genes Involved in Proanthocyanidin Accumulation in the Rhizomes of Fagopyrum dibotrys and an Irradiation-Induced Mutant
Article Snippet: Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads. .. After adenylation of the 3′ ends of the DNA fragments, Illumina paired-end adapter oligonucleotides were ligated to prepare for hybridization.

Isolation:

Article Title: Genome-Wide Identification of Bcl11b Gene Targets Reveals Role in Brain-Derived Neurotrophic Factor Signaling
Article Snippet: Illumina Paired End-adapter oligonucleotides (0.33 µM) were then ligated to the A-tailed cDNA ends and purified as before. .. The DNA material was PCR amplified and purified on 2% NuSieve GTG® agarose gel, excised, and isolated again using Zymoclean™Gel DNA recovery kit.

Article Title: Genome-wide in Silico Identification of New Conserved and Functional Retinoic Acid Receptor Response Elements (Direct Repeats Separated by 5 bp) *
Article Snippet: Briefly, the poly(A)-containing mRNAs were isolated from total RNA (4 mg) by two runs of purification on Sera-Mag Oligo-dT Beads (Thermoscientific) and fragmented using divalent cations and heat-catalyzed hydrolysis. .. After second-strand synthesis, the cDNAs went through end-repair and ligation reactions using paired-end adapter oligos from Illumina and were electrophoresed on an agarose gel.

Article Title: Transcriptome Analysis of Differentially Expressed Genes Involved in Proanthocyanidin Accumulation in the Rhizomes of Fagopyrum dibotrys and an Irradiation-Induced Mutant
Article Snippet: Paragraph title: RNA isolation and library preparation ... After adenylation of the 3′ ends of the DNA fragments, Illumina paired-end adapter oligonucleotides were ligated to prepare for hybridization.

Purification:

Article Title: Genome-Wide Identification of Bcl11b Gene Targets Reveals Role in Brain-Derived Neurotrophic Factor Signaling
Article Snippet: .. Illumina Paired End-adapter oligonucleotides (0.33 µM) were then ligated to the A-tailed cDNA ends and purified as before. .. The DNA library products were separated on an Invitrogen 2% Size-Select agarose gels and products corresponding to a size of approximately 200–250 bases were removed from the gel and cleaned using the Agencourt SPRI system.

Article Title: The long-range interaction landscape of gene promoters
Article Snippet: The libraries were concentrated using Qiaquick PCR purification kit and 3′-A tailing reaction was done using dATP and Taq DNA polymerase in presence of 1X standard Taq buffer (NEB) at 72°C for 30 minutes. .. To facilitate Illumina paired end DNA sequence analysis of 5C libraries, Illumina paired end adapter oligos (Illumina, San Diego, CA) were ligated to the 5C library using the Illumina PE protocol.

Article Title: Analysis of the chromosome X exome in patients with autism spectrum disorders identified novel candidate genes, including TMLHE
Article Snippet: .. Paired-end adapter oligonucleotides from Illumina were ligated on repaired A-tailed fragments, then purified and enriched by six PCR cycles. .. Then 500 ng of these purified libraries were hybridized to the SureSelect oligo probe capture library for 24 h. After hybridization, washing and elution, the eluted fraction was PCR-amplified for 10–12 cycles, purified and quantified by quantitative PCR to obtain sufficient DNA template for downstream applications.

Article Title: Analyzing and minimizing PCR amplification bias in Illumina sequencing libraries
Article Snippet: Adapter ligations (50 μl) contained 1× Quickligation buffer (NEB), 3 μl annealed paired-end adapter oligonucleotides (Illumina, San Diego, CA, USA), 5 units T4 DNA ligase (NEB) and were carried out for 15 minutes at 25°C. .. All reaction clean-ups were performed using a MinElute PCR purification kit (Qiagen, Hilden, Germany).

Article Title: Patterns of genomic variation in the poplar rust fungus Melampsora larici-populina identify pathogenesis-related factors
Article Snippet: .. Paired-end adapter oligonucleotides from Illumina were ligated on repaired A-tailed DNA fragments, then purified and enriched by PCR cycles. .. Each library was quantified by qPCR and sequenced on Illumina HiSeq2000 platform as paired-end 100 nt reads.

Article Title: Genome-wide in Silico Identification of New Conserved and Functional Retinoic Acid Receptor Response Elements (Direct Repeats Separated by 5 bp) *
Article Snippet: Briefly, the poly(A)-containing mRNAs were isolated from total RNA (4 mg) by two runs of purification on Sera-Mag Oligo-dT Beads (Thermoscientific) and fragmented using divalent cations and heat-catalyzed hydrolysis. .. After second-strand synthesis, the cDNAs went through end-repair and ligation reactions using paired-end adapter oligos from Illumina and were electrophoresed on an agarose gel.

Article Title: Forkhead box protein p1 is a transcriptional repressor of immune signaling in the CNS: implications for transcriptional dysregulation in Huntington disease
Article Snippet: DNA products were again purified using the DNA Clean & Concentrator™-5 Kit. .. Illumina Paired End-adapter oligonucleotides (0.33μ m ) were then ligated to the A-tailed cDNA ends with 3000 units T4 DNA ligase at 20°C for 15min in 66 m m Tris–HCl (pH 7.6), 10 m m MgCl2 , 1 m m dithiothreitol, 1 m m ATP and 1 m m PEG in a 30 μl reaction volume.

Article Title: Transcriptome Analysis of Differentially Expressed Genes Involved in Proanthocyanidin Accumulation in the Rhizomes of Fagopyrum dibotrys and an Irradiation-Induced Mutant
Article Snippet: Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads. .. After adenylation of the 3′ ends of the DNA fragments, Illumina paired-end adapter oligonucleotides were ligated to prepare for hybridization.

Polymerase Chain Reaction:

Article Title: Genome-Wide Identification of Bcl11b Gene Targets Reveals Role in Brain-Derived Neurotrophic Factor Signaling
Article Snippet: Illumina Paired End-adapter oligonucleotides (0.33 µM) were then ligated to the A-tailed cDNA ends and purified as before. .. The DNA material was PCR amplified and purified on 2% NuSieve GTG® agarose gel, excised, and isolated again using Zymoclean™Gel DNA recovery kit.

Article Title: The long-range interaction landscape of gene promoters
Article Snippet: The libraries were concentrated using Qiaquick PCR purification kit and 3′-A tailing reaction was done using dATP and Taq DNA polymerase in presence of 1X standard Taq buffer (NEB) at 72°C for 30 minutes. .. To facilitate Illumina paired end DNA sequence analysis of 5C libraries, Illumina paired end adapter oligos (Illumina, San Diego, CA) were ligated to the 5C library using the Illumina PE protocol.

Article Title: Analysis of the chromosome X exome in patients with autism spectrum disorders identified novel candidate genes, including TMLHE
Article Snippet: .. Paired-end adapter oligonucleotides from Illumina were ligated on repaired A-tailed fragments, then purified and enriched by six PCR cycles. .. Then 500 ng of these purified libraries were hybridized to the SureSelect oligo probe capture library for 24 h. After hybridization, washing and elution, the eluted fraction was PCR-amplified for 10–12 cycles, purified and quantified by quantitative PCR to obtain sufficient DNA template for downstream applications.

Article Title: Analyzing and minimizing PCR amplification bias in Illumina sequencing libraries
Article Snippet: Adapter ligations (50 μl) contained 1× Quickligation buffer (NEB), 3 μl annealed paired-end adapter oligonucleotides (Illumina, San Diego, CA, USA), 5 units T4 DNA ligase (NEB) and were carried out for 15 minutes at 25°C. .. All reaction clean-ups were performed using a MinElute PCR purification kit (Qiagen, Hilden, Germany).

Article Title: Patterns of genomic variation in the poplar rust fungus Melampsora larici-populina identify pathogenesis-related factors
Article Snippet: .. Paired-end adapter oligonucleotides from Illumina were ligated on repaired A-tailed DNA fragments, then purified and enriched by PCR cycles. .. Each library was quantified by qPCR and sequenced on Illumina HiSeq2000 platform as paired-end 100 nt reads.

Article Title: Genome-wide in Silico Identification of New Conserved and Functional Retinoic Acid Receptor Response Elements (Direct Repeats Separated by 5 bp) *
Article Snippet: After second-strand synthesis, the cDNAs went through end-repair and ligation reactions using paired-end adapter oligos from Illumina and were electrophoresed on an agarose gel. .. A slice containing fragments in the 300-bp range was excised, and after elution and purification, the library was amplified with 15 cycles of PCR with Illumina sequencing primers and purified using Agencourt AMPure XP beads from Beckman.

Article Title: Forkhead box protein p1 is a transcriptional repressor of immune signaling in the CNS: implications for transcriptional dysregulation in Huntington disease
Article Snippet: Illumina Paired End-adapter oligonucleotides (0.33μ m ) were then ligated to the A-tailed cDNA ends with 3000 units T4 DNA ligase at 20°C for 15min in 66 m m Tris–HCl (pH 7.6), 10 m m MgCl2 , 1 m m dithiothreitol, 1 m m ATP and 1 m m PEG in a 30 μl reaction volume. .. The DNA material was PCR amplified with 1 unit of Phusion™ Polymerase in standard 1X Phusion™ HF buffer with 0.2 m m dNTPs and 0.6μ m PCR primers PE 1.0 and PE 2.0 for 15 cycles.

Article Title: Long noncoding RNA programs active chromatin domain to coordinate homeotic gene activation
Article Snippet: .. To facilitate paired end DNA sequence analysis on the Illumina GA2 platform, paired end adapter oligos were ligated to the 5C library using the Illumina PE protocol and PCR amplification of the library was carried out for 18 cycles with Illumina PCR primer PE 1.0 and 2.0. .. The 5C library was then sequenced on the Illumina GA2 platform generating 36 base paired end reads.

Article Title: Transcriptome Analysis of Differentially Expressed Genes Involved in Proanthocyanidin Accumulation in the Rhizomes of Fagopyrum dibotrys and an Irradiation-Induced Mutant
Article Snippet: After adenylation of the 3′ ends of the DNA fragments, Illumina paired-end adapter oligonucleotides were ligated to prepare for hybridization. .. The DNA fragments with the ligated adaptor molecules on both ends were selectively enriched using an Illumina PCR Primer Cocktail in a 10-cycle PCR reaction.

Sample Prep:

Article Title: Patterns of genomic variation in the poplar rust fungus Melampsora larici-populina identify pathogenesis-related factors
Article Snippet: Genome re-sequencing For all isolates, except 98AR1, genomic DNA libraries were prepared using TruSeq DNA sample preparation kit (v3) followed by paired-end 100 nt massively parallel sequencing on Illumina HiSEQ2000 by Integragen (Evry, France). .. Paired-end adapter oligonucleotides from Illumina were ligated on repaired A-tailed DNA fragments, then purified and enriched by PCR cycles.

Article Title: Transcriptome Analysis of Differentially Expressed Genes Involved in Proanthocyanidin Accumulation in the Rhizomes of Fagopyrum dibotrys and an Irradiation-Induced Mutant
Article Snippet: The sequencing libraries were generated using IlluminaTruSeq™ RNA Sample Preparation Kit (Illumina, San Diego, CA, USA) by following manufacturer's recommendations, and index codes were added to attribute the sequences to each sample. .. After adenylation of the 3′ ends of the DNA fragments, Illumina paired-end adapter oligonucleotides were ligated to prepare for hybridization.

Chromatin Immunoprecipitation:

Article Title: Genome-Wide Identification of Bcl11b Gene Targets Reveals Role in Brain-Derived Neurotrophic Factor Signaling
Article Snippet: ChIP DNA samples ends were repaired and DNA products were purified using DNA Clean & Concentrator™-5 Kit (Zymo Research, Irvine, CA). .. Illumina Paired End-adapter oligonucleotides (0.33 µM) were then ligated to the A-tailed cDNA ends and purified as before.

Article Title: Forkhead box protein p1 is a transcriptional repressor of immune signaling in the CNS: implications for transcriptional dysregulation in Huntington disease
Article Snippet: Paragraph title: Chromatin-immunoprecipitation sequencing (ChIP-seq) ... Illumina Paired End-adapter oligonucleotides (0.33μ m ) were then ligated to the A-tailed cDNA ends with 3000 units T4 DNA ligase at 20°C for 15min in 66 m m Tris–HCl (pH 7.6), 10 m m MgCl2 , 1 m m dithiothreitol, 1 m m ATP and 1 m m PEG in a 30 μl reaction volume.

SYBR Green Assay:

Article Title: Analyzing and minimizing PCR amplification bias in Illumina sequencing libraries
Article Snippet: Adapter ligations (50 μl) contained 1× Quickligation buffer (NEB), 3 μl annealed paired-end adapter oligonucleotides (Illumina, San Diego, CA, USA), 5 units T4 DNA ligase (NEB) and were carried out for 15 minutes at 25°C. .. SYBR Green (Invitrogen, Carlsbad, CA, USA) stained DNA was visualized on a DarkReader (Clare Chemicals, Dolores, CO, USA).

Agarose Gel Electrophoresis:

Article Title: Genome-Wide Identification of Bcl11b Gene Targets Reveals Role in Brain-Derived Neurotrophic Factor Signaling
Article Snippet: Illumina Paired End-adapter oligonucleotides (0.33 µM) were then ligated to the A-tailed cDNA ends and purified as before. .. The DNA material was PCR amplified and purified on 2% NuSieve GTG® agarose gel, excised, and isolated again using Zymoclean™Gel DNA recovery kit.

Article Title: Genome-wide in Silico Identification of New Conserved and Functional Retinoic Acid Receptor Response Elements (Direct Repeats Separated by 5 bp) *
Article Snippet: .. After second-strand synthesis, the cDNAs went through end-repair and ligation reactions using paired-end adapter oligos from Illumina and were electrophoresed on an agarose gel. .. A slice containing fragments in the 300-bp range was excised, and after elution and purification, the library was amplified with 15 cycles of PCR with Illumina sequencing primers and purified using Agencourt AMPure XP beads from Beckman.

Article Title: Forkhead box protein p1 is a transcriptional repressor of immune signaling in the CNS: implications for transcriptional dysregulation in Huntington disease
Article Snippet: Illumina Paired End-adapter oligonucleotides (0.33μ m ) were then ligated to the A-tailed cDNA ends with 3000 units T4 DNA ligase at 20°C for 15min in 66 m m Tris–HCl (pH 7.6), 10 m m MgCl2 , 1 m m dithiothreitol, 1 m m ATP and 1 m m PEG in a 30 μl reaction volume. .. The DNA library products were separated on an Invitrogen 2% Size-Select agarose gel and products corresponding to a size of ∼200–250 bases were removed from the gel and cleaned using the Agencourt SPRI system.

Next-Generation Sequencing:

Article Title: Analysis of the chromosome X exome in patients with autism spectrum disorders identified novel candidate genes, including TMLHE
Article Snippet: Paragraph title: Next-generation sequencing ... Paired-end adapter oligonucleotides from Illumina were ligated on repaired A-tailed fragments, then purified and enriched by six PCR cycles.

High Throughput Screening Assay:

Article Title: Genome-wide in Silico Identification of New Conserved and Functional Retinoic Acid Receptor Response Elements (Direct Repeats Separated by 5 bp) *
Article Snippet: After isolation of total RNA, a library of template molecules suitable for high throughput DNA sequencing was created according to the instructions of Illumina. .. After second-strand synthesis, the cDNAs went through end-repair and ligation reactions using paired-end adapter oligos from Illumina and were electrophoresed on an agarose gel.

Staining:

Article Title: Analyzing and minimizing PCR amplification bias in Illumina sequencing libraries
Article Snippet: Adapter ligations (50 μl) contained 1× Quickligation buffer (NEB), 3 μl annealed paired-end adapter oligonucleotides (Illumina, San Diego, CA, USA), 5 units T4 DNA ligase (NEB) and were carried out for 15 minutes at 25°C. .. SYBR Green (Invitrogen, Carlsbad, CA, USA) stained DNA was visualized on a DarkReader (Clare Chemicals, Dolores, CO, USA).

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    Illumina Inc paired end oligo adapters
    Paired End Oligo Adapters, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 98/100, based on 5 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/paired end oligo adapters/product/Illumina Inc
    Average 98 stars, based on 5 article reviews
    Price from $9.99 to $1999.99
    paired end oligo adapters - by Bioz Stars, 2020-03
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