contig assembler Search Results


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  • 92
    Gene Codes Inc contig assembly
    PhyML phylogram of 167 partial COI (left) and PhyML or Neighbor-joining distance phylograms of full and partial ITS (right) sequences from ∼100 species of mushrooms. Thickened lines represent branches that received ≥0.95 aLRT. Stars indicate COI sequences with an intron in the barcode region. Superscript numbers next to stars correspond to the position of the intron ( Fig. 1 ). Branching for ITS sequences reflect ML- or NJ-based analysis of contigs formed using <t>Sequencher;</t> branching is absent where inter-specific distances are greater than the 20% cutoff value used in the Sequencher <t>contig</t> assembly. Letters at nodes in the genus Pluteus represent the phylogenetic species (reciprocally monophyletic with posterior probability of ≥0.95) of the Pluteus cervinus complex.
    Contig Assembly, supplied by Gene Codes Inc, used in various techniques. Bioz Stars score: 92/100, based on 182 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/contig assembly/product/Gene Codes Inc
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    92
    Illumina Inc contig assembly
    k -mer spectra plots from the k -mer Analysis Toolkit comparing three S. verrucosum <t>contig</t> assemblies. The heights of the bars indicate how many k -mers of each multiplicity appear in the raw Discovar reads. The colors indicate how many times those k -mers appear in the respective assemblies with black being zero times and red being one time. A colored bar at zero multiplicity indicates k -mers appearing in the assembly that do not appear in the reads. The Falcon assembly has been polished with the <t>Illumina</t> reads using Pilon to reduce the effect of using a different sequencing platform.
    Contig Assembly, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 92/100, based on 88 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/contig assembly/product/Illumina Inc
    Average 92 stars, based on 88 article reviews
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    92
    CodonCode contig assembly
    Bayesian phylogenetic inference of CTV genomes and genome fragments. Unrooted, consensus phylogenetic trees were obtained from 2,000,000 generations of the Markov chain Monte Carlo simulation in Bayesian analysis using a general time-reversal model of nucleotide substitution [33] . The number above each branch indicates the Bayesian posterior probability. The scale bars represent 0.1 expected substitutions per site. Branch lengths are proportional to evolutionary distance. Sequences were aligned using ClustalX [47] and subsequently manually aligned prior to the Bayesian phylogenetic analysis. A, Known CTV genomes and CTV genomes assembled from resequencing analysis of FS2-2 (highlighted orange). The suffix at the end of fs2_2 distinguishes multiple genotypes in the isolate and also indicates the anchor sequence from which the consensus <t>contig</t> was generated by the <t>Phrap</t> program. B, the 5′ proximal 1 kb, and C, p33-coding region of CTV genomes obtained by direct sequencing of RT-PCR clones. In both B and C, Bayesian posterior probability and clones with identical sequences were omitted for clarity. Recombinant sequences are highlighted in green.
    Contig Assembly, supplied by CodonCode, used in various techniques. Bioz Stars score: 92/100, based on 211 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    88
    Illumina Inc illumina assembled contigs
    Overview of sequence reads and assembly of the three B. edulis transcriptomes. The length distribution of the <t>contigs</t> obtained from de novo assembly of high-quality, clean reads from NGS data across three datasets, namely sequence data from Roche 454, Illumina, and Hybrid transcriptome. Panel A shows the lengths of all contigs from each dataset. Panel B : shows the contig lengths for only those contigs that had BLASTX hits in the NCBI protein database.
    Illumina Assembled Contigs, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 88/100, based on 33 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    88
    Bioedit Company cap contig assembly program
    Overview of sequence reads and assembly of the three B. edulis transcriptomes. The length distribution of the <t>contigs</t> obtained from de novo assembly of high-quality, clean reads from NGS data across three datasets, namely sequence data from Roche 454, Illumina, and Hybrid transcriptome. Panel A shows the lengths of all contigs from each dataset. Panel B : shows the contig lengths for only those contigs that had BLASTX hits in the NCBI protein database.
    Cap Contig Assembly Program, supplied by Bioedit Company, used in various techniques. Bioz Stars score: 88/100, based on 62 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/cap contig assembly program/product/Bioedit Company
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    cap contig assembly program - by Bioz Stars, 2020-09
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    92
    Pacific Biosciences contig assembly
    Alignment of X pericentromeric <t>contigs</t> to PEST, highlighting likely order and orientation issues in the PEST assembly that are resolved by a single PacBio contig (22F).
    Contig Assembly, supplied by Pacific Biosciences, used in various techniques. Bioz Stars score: 92/100, based on 49 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/contig assembly/product/Pacific Biosciences
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    89
    Berkshire Corporation berkshire assembled contigs
    Alignment of X pericentromeric <t>contigs</t> to PEST, highlighting likely order and orientation issues in the PEST assembly that are resolved by a single PacBio contig (22F).
    Berkshire Assembled Contigs, supplied by Berkshire Corporation, used in various techniques. Bioz Stars score: 89/100, based on 7 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/berkshire assembled contigs/product/Berkshire Corporation
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    88
    Unigene assembly contigs
    Comparison of de novo assembly for different k-mers. The bars indicate the number of <t>contigs</t> generated, and the hashed portions represent the percent of contigs that have homology in the databank of non-redundant proteins using BlastX. The lines indicate the N50 length (triangle) and the average length (lozenge) in bp. X-axis: k-mer number; Y-axis: read count.
    Assembly Contigs, supplied by Unigene, used in various techniques. Bioz Stars score: 88/100, based on 7 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    90
    Pacific Biosciences assembly contiguity
    Comparison of de novo assembly for different k-mers. The bars indicate the number of <t>contigs</t> generated, and the hashed portions represent the percent of contigs that have homology in the databank of non-redundant proteins using BlastX. The lines indicate the N50 length (triangle) and the average length (lozenge) in bp. X-axis: k-mer number; Y-axis: read count.
    Assembly Contiguity, supplied by Pacific Biosciences, used in various techniques. Bioz Stars score: 90/100, based on 5 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    89
    Illumina Inc de novo contig assembly
    Microsynteny between <t>PST-130</t> and PGTG contigs. Microsynteny between PGTG [AAWC01001263 (A), AAWC01003253 (B), AAWC01000559 (C) [5] ] and PST-130 (PST130_8308, PST130_8617, PST130_7101) contigs. <t>Contig</t> alignment and similarity visualization was done using ACT-Artemis Comparison Tool ( http://www.sanger.ac.uk/resources/software/act/ ). Red and blue lines indicate similar regions between PST-130 and PGTG contigs (% identity ≥60). Blue lines indicate inversions. Arrows correspond to putative genes predicted by geneid in PST-130 contigs and annotated genes in PGTG contigs [5] .
    De Novo Contig Assembly, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 89/100, based on 26 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/de novo contig assembly/product/Illumina Inc
    Average 89 stars, based on 26 article reviews
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    90
    Illumina Inc contig assemblies
    Microsynteny between <t>PST-130</t> and PGTG contigs. Microsynteny between PGTG [AAWC01001263 (A), AAWC01003253 (B), AAWC01000559 (C) [5] ] and PST-130 (PST130_8308, PST130_8617, PST130_7101) contigs. <t>Contig</t> alignment and similarity visualization was done using ACT-Artemis Comparison Tool ( http://www.sanger.ac.uk/resources/software/act/ ). Red and blue lines indicate similar regions between PST-130 and PGTG contigs (% identity ≥60). Blue lines indicate inversions. Arrows correspond to putative genes predicted by geneid in PST-130 contigs and annotated genes in PGTG contigs [5] .
    Contig Assemblies, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 90/100, based on 15 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/contig assemblies/product/Illumina Inc
    Average 90 stars, based on 15 article reviews
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    contig assemblies - by Bioz Stars, 2020-09
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    89
    Illumina Inc contiguous assembly
    Microsynteny between <t>PST-130</t> and PGTG contigs. Microsynteny between PGTG [AAWC01001263 (A), AAWC01003253 (B), AAWC01000559 (C) [5] ] and PST-130 (PST130_8308, PST130_8617, PST130_7101) contigs. <t>Contig</t> alignment and similarity visualization was done using ACT-Artemis Comparison Tool ( http://www.sanger.ac.uk/resources/software/act/ ). Red and blue lines indicate similar regions between PST-130 and PGTG contigs (% identity ≥60). Blue lines indicate inversions. Arrows correspond to putative genes predicted by geneid in PST-130 contigs and annotated genes in PGTG contigs [5] .
    Contiguous Assembly, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 89/100, based on 26 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/contiguous assembly/product/Illumina Inc
    Average 89 stars, based on 26 article reviews
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    88
    Illumina Inc assembly contiguity
    Microsynteny between <t>PST-130</t> and PGTG contigs. Microsynteny between PGTG [AAWC01001263 (A), AAWC01003253 (B), AAWC01000559 (C) [5] ] and PST-130 (PST130_8308, PST130_8617, PST130_7101) contigs. <t>Contig</t> alignment and similarity visualization was done using ACT-Artemis Comparison Tool ( http://www.sanger.ac.uk/resources/software/act/ ). Red and blue lines indicate similar regions between PST-130 and PGTG contigs (% identity ≥60). Blue lines indicate inversions. Arrows correspond to putative genes predicted by geneid in PST-130 contigs and annotated genes in PGTG contigs [5] .
    Assembly Contiguity, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 88/100, based on 9 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/assembly contiguity/product/Illumina Inc
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    92
    Oxford Nanopore assembly contiguity
    Microsynteny between <t>PST-130</t> and PGTG contigs. Microsynteny between PGTG [AAWC01001263 (A), AAWC01003253 (B), AAWC01000559 (C) [5] ] and PST-130 (PST130_8308, PST130_8617, PST130_7101) contigs. <t>Contig</t> alignment and similarity visualization was done using ACT-Artemis Comparison Tool ( http://www.sanger.ac.uk/resources/software/act/ ). Red and blue lines indicate similar regions between PST-130 and PGTG contigs (% identity ≥60). Blue lines indicate inversions. Arrows correspond to putative genes predicted by geneid in PST-130 contigs and annotated genes in PGTG contigs [5] .
    Assembly Contiguity, supplied by Oxford Nanopore, used in various techniques. Bioz Stars score: 92/100, based on 4 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/assembly contiguity/product/Oxford Nanopore
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    85
    Gene Codes Inc contig assembly program sequencher
    Microsynteny between <t>PST-130</t> and PGTG contigs. Microsynteny between PGTG [AAWC01001263 (A), AAWC01003253 (B), AAWC01000559 (C) [5] ] and PST-130 (PST130_8308, PST130_8617, PST130_7101) contigs. <t>Contig</t> alignment and similarity visualization was done using ACT-Artemis Comparison Tool ( http://www.sanger.ac.uk/resources/software/act/ ). Red and blue lines indicate similar regions between PST-130 and PGTG contigs (% identity ≥60). Blue lines indicate inversions. Arrows correspond to putative genes predicted by geneid in PST-130 contigs and annotated genes in PGTG contigs [5] .
    Contig Assembly Program Sequencher, supplied by Gene Codes Inc, used in various techniques. Bioz Stars score: 85/100, based on 25 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/contig assembly program sequencher/product/Gene Codes Inc
    Average 85 stars, based on 25 article reviews
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    contig assembly program sequencher - by Bioz Stars, 2020-09
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    94
    Pacific Biosciences long assembled contigs
    Microsynteny between <t>PST-130</t> and PGTG contigs. Microsynteny between PGTG [AAWC01001263 (A), AAWC01003253 (B), AAWC01000559 (C) [5] ] and PST-130 (PST130_8308, PST130_8617, PST130_7101) contigs. <t>Contig</t> alignment and similarity visualization was done using ACT-Artemis Comparison Tool ( http://www.sanger.ac.uk/resources/software/act/ ). Red and blue lines indicate similar regions between PST-130 and PGTG contigs (% identity ≥60). Blue lines indicate inversions. Arrows correspond to putative genes predicted by geneid in PST-130 contigs and annotated genes in PGTG contigs [5] .
    Long Assembled Contigs, supplied by Pacific Biosciences, used in various techniques. Bioz Stars score: 94/100, based on 20 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/long assembled contigs/product/Pacific Biosciences
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    long assembled contigs - by Bioz Stars, 2020-09
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    91
    Celera assembler s degenerate contig file
    Microsynteny between <t>PST-130</t> and PGTG contigs. Microsynteny between PGTG [AAWC01001263 (A), AAWC01003253 (B), AAWC01000559 (C) [5] ] and PST-130 (PST130_8308, PST130_8617, PST130_7101) contigs. <t>Contig</t> alignment and similarity visualization was done using ACT-Artemis Comparison Tool ( http://www.sanger.ac.uk/resources/software/act/ ). Red and blue lines indicate similar regions between PST-130 and PGTG contigs (% identity ≥60). Blue lines indicate inversions. Arrows correspond to putative genes predicted by geneid in PST-130 contigs and annotated genes in PGTG contigs [5] .
    Assembler S Degenerate Contig File, supplied by Celera, used in various techniques. Bioz Stars score: 91/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/assembler s degenerate contig file/product/Celera
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    92
    Macrogen assembly contigs
    Microsynteny between <t>PST-130</t> and PGTG contigs. Microsynteny between PGTG [AAWC01001263 (A), AAWC01003253 (B), AAWC01000559 (C) [5] ] and PST-130 (PST130_8308, PST130_8617, PST130_7101) contigs. <t>Contig</t> alignment and similarity visualization was done using ACT-Artemis Comparison Tool ( http://www.sanger.ac.uk/resources/software/act/ ). Red and blue lines indicate similar regions between PST-130 and PGTG contigs (% identity ≥60). Blue lines indicate inversions. Arrows correspond to putative genes predicted by geneid in PST-130 contigs and annotated genes in PGTG contigs [5] .
    Assembly Contigs, supplied by Macrogen, used in various techniques. Bioz Stars score: 92/100, based on 4 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/assembly contigs/product/Macrogen
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    Image Search Results


    PhyML phylogram of 167 partial COI (left) and PhyML or Neighbor-joining distance phylograms of full and partial ITS (right) sequences from ∼100 species of mushrooms. Thickened lines represent branches that received ≥0.95 aLRT. Stars indicate COI sequences with an intron in the barcode region. Superscript numbers next to stars correspond to the position of the intron ( Fig. 1 ). Branching for ITS sequences reflect ML- or NJ-based analysis of contigs formed using Sequencher; branching is absent where inter-specific distances are greater than the 20% cutoff value used in the Sequencher contig assembly. Letters at nodes in the genus Pluteus represent the phylogenetic species (reciprocally monophyletic with posterior probability of ≥0.95) of the Pluteus cervinus complex.

    Journal: PLoS ONE

    Article Title: Comparing COI and ITS as DNA Barcode Markers for Mushrooms and Allies (Agaricomycotina)

    doi: 10.1371/journal.pone.0025081

    Figure Lengend Snippet: PhyML phylogram of 167 partial COI (left) and PhyML or Neighbor-joining distance phylograms of full and partial ITS (right) sequences from ∼100 species of mushrooms. Thickened lines represent branches that received ≥0.95 aLRT. Stars indicate COI sequences with an intron in the barcode region. Superscript numbers next to stars correspond to the position of the intron ( Fig. 1 ). Branching for ITS sequences reflect ML- or NJ-based analysis of contigs formed using Sequencher; branching is absent where inter-specific distances are greater than the 20% cutoff value used in the Sequencher contig assembly. Letters at nodes in the genus Pluteus represent the phylogenetic species (reciprocally monophyletic with posterior probability of ≥0.95) of the Pluteus cervinus complex.

    Article Snippet: To quickly identify these alignment groups, we utilized the “contig assembly” algorithm in Sequencher 4.10.1 (GeneCodes, Ann Arbor, MI).

    Techniques:

    k -mer spectra plots from the k -mer Analysis Toolkit comparing three S. verrucosum contig assemblies. The heights of the bars indicate how many k -mers of each multiplicity appear in the raw Discovar reads. The colors indicate how many times those k -mers appear in the respective assemblies with black being zero times and red being one time. A colored bar at zero multiplicity indicates k -mers appearing in the assembly that do not appear in the reads. The Falcon assembly has been polished with the Illumina reads using Pilon to reduce the effect of using a different sequencing platform.

    Journal: GigaScience

    Article Title: A critical comparison of technologies for a plant genome sequencing project

    doi: 10.1093/gigascience/giy163

    Figure Lengend Snippet: k -mer spectra plots from the k -mer Analysis Toolkit comparing three S. verrucosum contig assemblies. The heights of the bars indicate how many k -mers of each multiplicity appear in the raw Discovar reads. The colors indicate how many times those k -mers appear in the respective assemblies with black being zero times and red being one time. A colored bar at zero multiplicity indicates k -mers appearing in the assembly that do not appear in the reads. The Falcon assembly has been polished with the Illumina reads using Pilon to reduce the effect of using a different sequencing platform.

    Article Snippet: Illumina contig assembly Two libraries were constructed for Illumina assembly.

    Techniques: Sequencing

    Bayesian phylogenetic inference of CTV genomes and genome fragments. Unrooted, consensus phylogenetic trees were obtained from 2,000,000 generations of the Markov chain Monte Carlo simulation in Bayesian analysis using a general time-reversal model of nucleotide substitution [33] . The number above each branch indicates the Bayesian posterior probability. The scale bars represent 0.1 expected substitutions per site. Branch lengths are proportional to evolutionary distance. Sequences were aligned using ClustalX [47] and subsequently manually aligned prior to the Bayesian phylogenetic analysis. A, Known CTV genomes and CTV genomes assembled from resequencing analysis of FS2-2 (highlighted orange). The suffix at the end of fs2_2 distinguishes multiple genotypes in the isolate and also indicates the anchor sequence from which the consensus contig was generated by the Phrap program. B, the 5′ proximal 1 kb, and C, p33-coding region of CTV genomes obtained by direct sequencing of RT-PCR clones. In both B and C, Bayesian posterior probability and clones with identical sequences were omitted for clarity. Recombinant sequences are highlighted in green.

    Journal: PLoS ONE

    Article Title: Persistent Infection and Promiscuous Recombination of Multiple Genotypes of an RNA Virus within a Single Host Generate Extensive Diversity

    doi: 10.1371/journal.pone.0000917

    Figure Lengend Snippet: Bayesian phylogenetic inference of CTV genomes and genome fragments. Unrooted, consensus phylogenetic trees were obtained from 2,000,000 generations of the Markov chain Monte Carlo simulation in Bayesian analysis using a general time-reversal model of nucleotide substitution [33] . The number above each branch indicates the Bayesian posterior probability. The scale bars represent 0.1 expected substitutions per site. Branch lengths are proportional to evolutionary distance. Sequences were aligned using ClustalX [47] and subsequently manually aligned prior to the Bayesian phylogenetic analysis. A, Known CTV genomes and CTV genomes assembled from resequencing analysis of FS2-2 (highlighted orange). The suffix at the end of fs2_2 distinguishes multiple genotypes in the isolate and also indicates the anchor sequence from which the consensus contig was generated by the Phrap program. B, the 5′ proximal 1 kb, and C, p33-coding region of CTV genomes obtained by direct sequencing of RT-PCR clones. In both B and C, Bayesian posterior probability and clones with identical sequences were omitted for clarity. Recombinant sequences are highlighted in green.

    Article Snippet: These fragments and the quality scores associated with each base call were used in contig assembly by the Phrap program as implemented in the CodonCode Aligner program.

    Techniques: Sequencing, Generated, Reverse Transcription Polymerase Chain Reaction, Clone Assay, Recombinant

    Overview of sequence reads and assembly of the three B. edulis transcriptomes. The length distribution of the contigs obtained from de novo assembly of high-quality, clean reads from NGS data across three datasets, namely sequence data from Roche 454, Illumina, and Hybrid transcriptome. Panel A shows the lengths of all contigs from each dataset. Panel B : shows the contig lengths for only those contigs that had BLASTX hits in the NCBI protein database.

    Journal: BMC Plant Biology

    Article Title: BeMADS1 is a key to delivery MADSs into nucleus in reproductive tissues-De novo characterization of Bambusa edulis transcriptome and study of MADS genes in bamboo floral development

    doi: 10.1186/1471-2229-14-179

    Figure Lengend Snippet: Overview of sequence reads and assembly of the three B. edulis transcriptomes. The length distribution of the contigs obtained from de novo assembly of high-quality, clean reads from NGS data across three datasets, namely sequence data from Roche 454, Illumina, and Hybrid transcriptome. Panel A shows the lengths of all contigs from each dataset. Panel B : shows the contig lengths for only those contigs that had BLASTX hits in the NCBI protein database.

    Article Snippet: The third transcriptome was generated from the pre-assembled contigs from the Illumina and 454 data through merger by MIRA with parameters tuned for assembly of Sanger sequencing reads.

    Techniques: Sequencing, Next-Generation Sequencing

    Alignment of X pericentromeric contigs to PEST, highlighting likely order and orientation issues in the PEST assembly that are resolved by a single PacBio contig (22F).

    Journal: Genes

    Article Title: A High-Quality De novo Genome Assembly from a Single Mosquito Using PacBio Sequencing

    doi: 10.3390/genes10010062

    Figure Lengend Snippet: Alignment of X pericentromeric contigs to PEST, highlighting likely order and orientation issues in the PEST assembly that are resolved by a single PacBio contig (22F).

    Article Snippet: Alignment and coverage plot of the PacBio assembly contigs relative to PEST, and magnification of one area of excess coverage; Table S1.

    Techniques:

    Comparison of de novo assembly for different k-mers. The bars indicate the number of contigs generated, and the hashed portions represent the percent of contigs that have homology in the databank of non-redundant proteins using BlastX. The lines indicate the N50 length (triangle) and the average length (lozenge) in bp. X-axis: k-mer number; Y-axis: read count.

    Journal: BMC Plant Biology

    Article Title: High-throughput sequencing of black pepper root transcriptome

    doi: 10.1186/1471-2229-12-168

    Figure Lengend Snippet: Comparison of de novo assembly for different k-mers. The bars indicate the number of contigs generated, and the hashed portions represent the percent of contigs that have homology in the databank of non-redundant proteins using BlastX. The lines indicate the N50 length (triangle) and the average length (lozenge) in bp. X-axis: k-mer number; Y-axis: read count.

    Article Snippet: Following the cleanup step, iAssembler tool was used to cluster and assembly contigs to obtain unigene sequences [ ].

    Techniques: Generated

    Microsynteny between PST-130 and PGTG contigs. Microsynteny between PGTG [AAWC01001263 (A), AAWC01003253 (B), AAWC01000559 (C) [5] ] and PST-130 (PST130_8308, PST130_8617, PST130_7101) contigs. Contig alignment and similarity visualization was done using ACT-Artemis Comparison Tool ( http://www.sanger.ac.uk/resources/software/act/ ). Red and blue lines indicate similar regions between PST-130 and PGTG contigs (% identity ≥60). Blue lines indicate inversions. Arrows correspond to putative genes predicted by geneid in PST-130 contigs and annotated genes in PGTG contigs [5] .

    Journal: PLoS ONE

    Article Title: Next Generation Sequencing Provides Rapid Access to the Genome of Puccinia striiformis f. sp. tritici, the Causal Agent of Wheat Stripe Rust

    doi: 10.1371/journal.pone.0024230

    Figure Lengend Snippet: Microsynteny between PST-130 and PGTG contigs. Microsynteny between PGTG [AAWC01001263 (A), AAWC01003253 (B), AAWC01000559 (C) [5] ] and PST-130 (PST130_8308, PST130_8617, PST130_7101) contigs. Contig alignment and similarity visualization was done using ACT-Artemis Comparison Tool ( http://www.sanger.ac.uk/resources/software/act/ ). Red and blue lines indicate similar regions between PST-130 and PGTG contigs (% identity ≥60). Blue lines indicate inversions. Arrows correspond to putative genes predicted by geneid in PST-130 contigs and annotated genes in PGTG contigs [5] .

    Article Snippet: Illumina sequencing and de novo contig assembly The sequence reads from race PST-130 together with the resulting assemblies are available from NCBI (Whole Genome Shotgun project: AEEW00000000; Sequence Read Archive: SRP002642).

    Techniques: Activated Clotting Time Assay, Software