Structured Review

Illumina Inc hiseq 2000 lane
Sampling and major sources of variation . Strains CT43 and ATCC10792 grown in two medium lots #1091744 and 7220443 in water taken from building 1520 and 1610. Bacteria were cultured on four different dates and four biological replicates were grown to mid-log phase for each date, harvested and then RNA-seq data were generated using an Illumina <t>Hiseq</t> 2000 instrument.
Hiseq 2000 Lane, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 99/100, based on 58 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/result/hiseq 2000 lane/product/Illumina Inc
Average 99 stars, based on 58 article reviews
Price from $9.99 to $1999.99
hiseq 2000 lane - by Bioz Stars, 2020-07
99/100 stars

Images

1) Product Images from "Replicates, Read Numbers, and Other Important Experimental Design Considerations for Microbial RNA-seq Identified Using Bacillus thuringiensis Datasets"

Article Title: Replicates, Read Numbers, and Other Important Experimental Design Considerations for Microbial RNA-seq Identified Using Bacillus thuringiensis Datasets

Journal: Frontiers in Microbiology

doi: 10.3389/fmicb.2016.00794

Sampling and major sources of variation . Strains CT43 and ATCC10792 grown in two medium lots #1091744 and 7220443 in water taken from building 1520 and 1610. Bacteria were cultured on four different dates and four biological replicates were grown to mid-log phase for each date, harvested and then RNA-seq data were generated using an Illumina Hiseq 2000 instrument.
Figure Legend Snippet: Sampling and major sources of variation . Strains CT43 and ATCC10792 grown in two medium lots #1091744 and 7220443 in water taken from building 1520 and 1610. Bacteria were cultured on four different dates and four biological replicates were grown to mid-log phase for each date, harvested and then RNA-seq data were generated using an Illumina Hiseq 2000 instrument.

Techniques Used: Sampling, Cell Culture, RNA Sequencing Assay, Generated

2) Product Images from "Successful Recovery of Nuclear Protein-Coding Genes from Small Insects in Museums Using Illumina Sequencing"

Article Title: Successful Recovery of Nuclear Protein-Coding Genes from Small Insects in Museums Using Illumina Sequencing

Journal: PLoS ONE

doi: 10.1371/journal.pone.0143929

Electropherograms of DNA extracted from older museum specimens that were subsequently used in library preparation. Pale spikes at 35 and 10380 bases represent standards included in each analysis. Dark shaded regions, when present, correspond to range of fragments that were selected and sequenced on the HiSeq 2000.
Figure Legend Snippet: Electropherograms of DNA extracted from older museum specimens that were subsequently used in library preparation. Pale spikes at 35 and 10380 bases represent standards included in each analysis. Dark shaded regions, when present, correspond to range of fragments that were selected and sequenced on the HiSeq 2000.

Techniques Used:

Electropherograms of DNA extracted from younger museum specimens that were subsequently used in library preparation. Pale spikes at 35 and 10380 bases represent standards included in each analysis. Dark shaded regions, when present, correspond to range of fragments that were selected and sequenced on the Illumina HiSeq 2000. Regions are not shown for  Bembidion musae  or  Bembidion  “Inuvik” 3984 as the DNA in those samples was sonicated prior to library preparation. For each specimen, age and total DNA in the extraction is also shown.
Figure Legend Snippet: Electropherograms of DNA extracted from younger museum specimens that were subsequently used in library preparation. Pale spikes at 35 and 10380 bases represent standards included in each analysis. Dark shaded regions, when present, correspond to range of fragments that were selected and sequenced on the Illumina HiSeq 2000. Regions are not shown for Bembidion musae or Bembidion “Inuvik” 3984 as the DNA in those samples was sonicated prior to library preparation. For each specimen, age and total DNA in the extraction is also shown.

Techniques Used: Sonication

Related Articles

Polymerase Chain Reaction:

Article Title: C-KIT Expression Distinguishes Fetal from Postnatal Skeletal Progenitors
Article Snippet: .. PCR products were purified with AMPure XP beads (Agencourt) and quantified with a Qubit dsDNA HS Assay Kit (Thermo Fisher). cDNA libraries were constructed with a Nextera XT DNA Library Preparation Kit (Illumina) and were sequenced on an Illumina HiSeq X Ten instrument in 150-bp paired-end-read mode by Berry Genomics. .. The amplification, cDNA purification, and library construction were performed on the Agilent Bravo automatic liquid-handling platform in the core facility for molecular biology at SIBCB.

Construct:

Article Title: C-KIT Expression Distinguishes Fetal from Postnatal Skeletal Progenitors
Article Snippet: .. PCR products were purified with AMPure XP beads (Agencourt) and quantified with a Qubit dsDNA HS Assay Kit (Thermo Fisher). cDNA libraries were constructed with a Nextera XT DNA Library Preparation Kit (Illumina) and were sequenced on an Illumina HiSeq X Ten instrument in 150-bp paired-end-read mode by Berry Genomics. .. The amplification, cDNA purification, and library construction were performed on the Agilent Bravo automatic liquid-handling platform in the core facility for molecular biology at SIBCB.

Purification:

Article Title: C-KIT Expression Distinguishes Fetal from Postnatal Skeletal Progenitors
Article Snippet: .. PCR products were purified with AMPure XP beads (Agencourt) and quantified with a Qubit dsDNA HS Assay Kit (Thermo Fisher). cDNA libraries were constructed with a Nextera XT DNA Library Preparation Kit (Illumina) and were sequenced on an Illumina HiSeq X Ten instrument in 150-bp paired-end-read mode by Berry Genomics. .. The amplification, cDNA purification, and library construction were performed on the Agilent Bravo automatic liquid-handling platform in the core facility for molecular biology at SIBCB.

cDNA Library Assay:

Article Title: Coordinated mechanisms of leaves and roots in response to drought stress underlying full-length transcriptome profiling in Vicia sativa L
Article Snippet: .. The cDNA library was sequenced with a 100-bp paired-end format using the Illumina HiSeq X Ten, and each sample yielded more than 6 Gb of clean data. ..

Generated:

Article Title: Whole genome resequencing reveals an association of ABCC4 variants with preaxial polydactyly in pigs
Article Snippet: .. Pair-end (PE) reads length of 150 bp were generated from the resequencing libraries on the Illumina Hiseq X Ten platform (Illumina Inc., San Diego, CA, USA), and all individuals were re-sequenced above 30× depth of coverage. ..

Article Title: Characterization of a major quantitative trait locus on the short arm of chromosome 4B for spike number per unit area in common wheat (Triticum aestivum L.).
Article Snippet: .. An InDel marker closely linked with a major and stable quantitative trait locus (QTL) on chromosome 4BS, QSnpa.cau-4B, controlling spike number per unit area will benefit wheat yield improvement. ..

Sequencing:

Article Title: Bulked Segregant Analysis Coupled with Whole-Genome Sequencing (BSA-Seq) Mapping Identifies a Novel pi21 Haplotype Conferring Basal Resistance to Rice Blast Disease
Article Snippet: .. DNA samples of the two parents, 02428 and LXG, and the four pools were subjected to whole-genome resequencing using the Illumina HiSeq X Ten platform, followed by standard paired-end 150 bp sequencing library construction protocols. ..

Article Title: Characterization of a major quantitative trait locus on the short arm of chromosome 4B for spike number per unit area in common wheat (Triticum aestivum L.).
Article Snippet: .. An InDel marker closely linked with a major and stable quantitative trait locus (QTL) on chromosome 4BS, QSnpa.cau-4B, controlling spike number per unit area will benefit wheat yield improvement. ..

Article Title: Comprehensive transcriptional changes in the liver of Kanglang white minnow ( Anabarilius g rahami) in response to the infection of parasite Ichthyophthirius m ultifiliis.
Article Snippet: .. Nine sequencing libraries from the liver samples were sequenced on an Illumina HiSeq X Ten platform with 2 × 150 bp paired-end (PE) reads by BGI (BGI-Shenzhen, Shenzhen, China). .. Read Alignment and Gene Expression Analysis Raw data were filtered with removal of adaptor sequences, contaminations and low-quality reads (quality score ≤ 20) using SOAPnuke (v1.5.6, filter—nRate 0.05—lowQual 20) [30].

Article Title: First de novo whole genome sequencing and assembly of the bar-headed goose
Article Snippet: .. De novo sequencing was conducted with an Illumina HiSeq X Ten platform. ..

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  • 86
    Illumina Inc paired end illumina hiseq 2000 lanes
    Length distribution of interrupted palindromes at 5′ and 3′-ends in <t>Illumina</t> <t>HiSeq</t> 2000 reads of Atlantic cod ( Gadus morhua ). Reads were generated from 11 historic samples using TruSeq library creation protocols (red lines), four historic samples using Microplex protocols (black lines) and one modern sample using TruSeq protocols (grey line). Terminal palindromic sequences longer than three basepair are rare in the Microplex and modern samples.
    Paired End Illumina Hiseq 2000 Lanes, supplied by Illumina 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/result/paired end illumina hiseq 2000 lanes/product/Illumina Inc
    Average 86 stars, based on 1 article reviews
    Price from $9.99 to $1999.99
    paired end illumina hiseq 2000 lanes - by Bioz Stars, 2020-07
    86/100 stars
      Buy from Supplier

    89
    Illumina Inc hiseq 2000 lane
    Sampling and major sources of variation . Strains CT43 and ATCC10792 grown in two medium lots #1091744 and 7220443 in water taken from building 1520 and 1610. Bacteria were cultured on four different dates and four biological replicates were grown to mid-log phase for each date, harvested and then RNA-seq data were generated using an Illumina <t>Hiseq</t> 2000 instrument.
    Hiseq 2000 Lane, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 89/100, based on 7629 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/hiseq 2000 lane/product/Illumina Inc
    Average 89 stars, based on 7629 article reviews
    Price from $9.99 to $1999.99
    hiseq 2000 lane - by Bioz Stars, 2020-07
    89/100 stars
      Buy from Supplier

    94
    Illumina Inc hiseq 2000 platform
    Experimental design and workflow for data analysis. The biological replicates, corresponding libraries, and sequence file labels are distinguished by colours and font type. Italics = samples run on Illumina GAII. Non-italics = samples run on Illumina HiSeq 2000; non-underlined samples were pooled into one sequencing lane (4), whereas underlined samples were pooled into another lane (5). Library labelled “Sample_12_TruSeq_12” is the result of combining total RNA from Hyd1 biological replicates 2 and 3, and thus considered a technical, rather than biological, replicate. This library was excluded from the differential expression analyses.
    Hiseq 2000 Platform, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 94/100, based on 355 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/hiseq 2000 platform/product/Illumina Inc
    Average 94 stars, based on 355 article reviews
    Price from $9.99 to $1999.99
    hiseq 2000 platform - by Bioz Stars, 2020-07
    94/100 stars
      Buy from Supplier

    Image Search Results


    Length distribution of interrupted palindromes at 5′ and 3′-ends in Illumina HiSeq 2000 reads of Atlantic cod ( Gadus morhua ). Reads were generated from 11 historic samples using TruSeq library creation protocols (red lines), four historic samples using Microplex protocols (black lines) and one modern sample using TruSeq protocols (grey line). Terminal palindromic sequences longer than three basepair are rare in the Microplex and modern samples.

    Journal: PLoS ONE

    Article Title: Palindromic Sequence Artifacts Generated during Next Generation Sequencing Library Preparation from Historic and Ancient DNA

    doi: 10.1371/journal.pone.0089676

    Figure Lengend Snippet: Length distribution of interrupted palindromes at 5′ and 3′-ends in Illumina HiSeq 2000 reads of Atlantic cod ( Gadus morhua ). Reads were generated from 11 historic samples using TruSeq library creation protocols (red lines), four historic samples using Microplex protocols (black lines) and one modern sample using TruSeq protocols (grey line). Terminal palindromic sequences longer than three basepair are rare in the Microplex and modern samples.

    Article Snippet: The pooled TruSeq libraries were sequenced on two paired-end Illumina Hiseq 2000 lanes (100 bp) and the pooled Microplex libraries were sequenced on one paired-end lane according to manufacturer's instructions at the Norwegian Sequencing Centre (NSC: www.sequencing.no ).

    Techniques: Generated

    Sampling and major sources of variation . Strains CT43 and ATCC10792 grown in two medium lots #1091744 and 7220443 in water taken from building 1520 and 1610. Bacteria were cultured on four different dates and four biological replicates were grown to mid-log phase for each date, harvested and then RNA-seq data were generated using an Illumina Hiseq 2000 instrument.

    Journal: Frontiers in Microbiology

    Article Title: Replicates, Read Numbers, and Other Important Experimental Design Considerations for Microbial RNA-seq Identified Using Bacillus thuringiensis Datasets

    doi: 10.3389/fmicb.2016.00794

    Figure Lengend Snippet: Sampling and major sources of variation . Strains CT43 and ATCC10792 grown in two medium lots #1091744 and 7220443 in water taken from building 1520 and 1610. Bacteria were cultured on four different dates and four biological replicates were grown to mid-log phase for each date, harvested and then RNA-seq data were generated using an Illumina Hiseq 2000 instrument.

    Article Snippet: The data from this well-replicated study with 32 samples, each from one Illumina HiSeq 2000 lane, generated a large number of reads per sample, and significantly differentially expressed genes were detected using DESeq2 (Love et al., ).

    Techniques: Sampling, Cell Culture, RNA Sequencing Assay, Generated

    Sequencing strategy. Libraries of three different sizes were prepared from each member of the quartet from family FNY01 and sequenced on an Illumina HiSeq 2000. Reads were then aligned using BWA and Novoalign and variants were called and filtrated. Then, MIEs were detected. After that, variants were phased by transmission and errors were called. Phasing was then refined by physical and population-based approaches. Finally, phasing from all approaches was merged and recombination blocks and error analysis were refined. Positions called as MIE, SCE and uncalled or partially called positions were imputed by Beagle.

    Journal: PLoS ONE

    Article Title: Complete Genome Phasing of Family Quartet by Combination of Genetic, Physical and Population-Based Phasing Analysis

    doi: 10.1371/journal.pone.0064571

    Figure Lengend Snippet: Sequencing strategy. Libraries of three different sizes were prepared from each member of the quartet from family FNY01 and sequenced on an Illumina HiSeq 2000. Reads were then aligned using BWA and Novoalign and variants were called and filtrated. Then, MIEs were detected. After that, variants were phased by transmission and errors were called. Phasing was then refined by physical and population-based approaches. Finally, phasing from all approaches was merged and recombination blocks and error analysis were refined. Positions called as MIE, SCE and uncalled or partially called positions were imputed by Beagle.

    Article Snippet: The pair-end libraries were sequenced on two to three lanes of an Illumina HiSeq 2000 while each mate-pair library was sequenced on only one lane.

    Techniques: Sequencing, Transmission Assay

    Experimental design and workflow for data analysis. The biological replicates, corresponding libraries, and sequence file labels are distinguished by colours and font type. Italics = samples run on Illumina GAII. Non-italics = samples run on Illumina HiSeq 2000; non-underlined samples were pooled into one sequencing lane (4), whereas underlined samples were pooled into another lane (5). Library labelled “Sample_12_TruSeq_12” is the result of combining total RNA from Hyd1 biological replicates 2 and 3, and thus considered a technical, rather than biological, replicate. This library was excluded from the differential expression analyses.

    Journal: bioRxiv

    Article Title: Effect of heritable symbionts on maternally-derived embryo transcripts

    doi: 10.1101/607317

    Figure Lengend Snippet: Experimental design and workflow for data analysis. The biological replicates, corresponding libraries, and sequence file labels are distinguished by colours and font type. Italics = samples run on Illumina GAII. Non-italics = samples run on Illumina HiSeq 2000; non-underlined samples were pooled into one sequencing lane (4), whereas underlined samples were pooled into another lane (5). Library labelled “Sample_12_TruSeq_12” is the result of combining total RNA from Hyd1 biological replicates 2 and 3, and thus considered a technical, rather than biological, replicate. This library was excluded from the differential expression analyses.

    Article Snippet: Half of the libraries were pooled into one lane of the Illumina HiSeq 2000 platform and the other half were pooled into another lane (single-end; 100 bp read length; see ).

    Techniques: Sequencing, Expressing