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contigs scaffolded using bionano solve v3.7  (BioNano Genomics)

 
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    BioNano Genomics contigs scaffolded using bionano solve v3.7
    Contigs Scaffolded Using Bionano Solve V3.7, supplied by BioNano Genomics, 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/product/bionano+contigs/contigs+scaffolded+using+bionano+solve+v3+7/pmc12177079-168-1-5
    Average 90 stars, based on 1 article reviews
    contigs scaffolded using bionano solve v3.7 - by Bioz Stars, 2026-11
    90/100 stars

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    Related Articles

    Hi-C:

    Article Title: Chromosome-level genome assembly of the crofton weed ( Ageratina adenophora )
    Article Snippet: The lower two heatmaps for A2_14 show a chromatin interaction heatmap with a similar mapping strategy as the upper track. ( ) Consistent alignment of the BioNano contigs with the PacBio assembly demonstrates the inversion accuracy in the PacBio assembly.

    Article Title: Enhancer Coamplification and Hijacking Promote Oncogene Expression in Liposarcoma
    Article Snippet: This event was further supported by WGS, Bionano, and Nanopore (Supplementary Figs. S10B–S10D).

    Article Title: Using de novo assembly to identify structural variation of eight complex immune system gene regions
    Article Snippet: TRB 18 Bionano contigs and HV31 assembly Misalignment due to assembly gap (see number 17).

    Article Title: Using de novo assembly to identify structural variation of eight complex immune system gene regions
    Article Snippet: HLA 13 CCS reads Heterozygous deletion; see S4 Fig. HLA 14 CCS reads Assembly error (collapsed duplications); see S4 Fig. TRB 15 Bionano contigs and CCS reads Heterozygous duplication TRB 16 CLR reads Misalignment.

    Generated:

    Article Title: Chromosome-level genome assembly of the crofton weed ( Ageratina adenophora )
    Article Snippet: The lower two heatmaps for A2_14 show a chromatin interaction heatmap with a similar mapping strategy as the upper track. ( ) Consistent alignment of the BioNano contigs with the PacBio assembly demonstrates the inversion accuracy in the PacBio assembly.

    Article Title: Enhancer Coamplification and Hijacking Promote Oncogene Expression in Liposarcoma
    Article Snippet: This event was further supported by WGS, Bionano, and Nanopore (Supplementary Figs. S10B–S10D).

    Article Title: Using de novo assembly to identify structural variation of eight complex immune system gene regions
    Article Snippet: TRB 18 Bionano contigs and HV31 assembly Misalignment due to assembly gap (see number 17).

    Article Title: Using de novo assembly to identify structural variation of eight complex immune system gene regions
    Article Snippet: HLA 13 CCS reads Heterozygous deletion; see S4 Fig. HLA 14 CCS reads Assembly error (collapsed duplications); see S4 Fig. TRB 15 Bionano contigs and CCS reads Heterozygous duplication TRB 16 CLR reads Misalignment.

    Produced:

    Article Title: Chromosome-level genome assembly of the crofton weed ( Ageratina adenophora )
    Article Snippet: The lower two heatmaps for A2_14 show a chromatin interaction heatmap with a similar mapping strategy as the upper track. ( ) Consistent alignment of the BioNano contigs with the PacBio assembly demonstrates the inversion accuracy in the PacBio assembly.

    Article Title: Enhancer Coamplification and Hijacking Promote Oncogene Expression in Liposarcoma
    Article Snippet: This event was further supported by WGS, Bionano, and Nanopore (Supplementary Figs. S10B–S10D).

    Article Title: Using de novo assembly to identify structural variation of eight complex immune system gene regions
    Article Snippet: TRB 18 Bionano contigs and HV31 assembly Misalignment due to assembly gap (see number 17).

    Article Title: Using de novo assembly to identify structural variation of eight complex immune system gene regions
    Article Snippet: HLA 13 CCS reads Heterozygous deletion; see S4 Fig. HLA 14 CCS reads Assembly error (collapsed duplications); see S4 Fig. TRB 15 Bionano contigs and CCS reads Heterozygous duplication TRB 16 CLR reads Misalignment.



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    Image Search Results


    Representative alignments of inversions or double inversions identified from blood samples obtained from 30 individuals from eleven species. For each inversion, the top shows predicted motifs from an in-situ digest of the reference genome, the bottom shows motifs identified using Bionano molecules obtained from an individual of the species indicated on the left, and the grey lines indicate matching motifs based upon predicted and observed distances. Single inversions were identified on chromosomes 2, 9, 10, 13, and 20. Tandem double inversions were identified on chromosomes 11 and 20. The estimated length and percentage of the chromosome spanned by the inversion is shown on the right. The single inversion on 20 identified in Rhamphochromis longiceps has the same position as the first inversion of the double inversion on 20 identified from Mchenga conophoros . A list of all samples and their inversion genotype is in . Note that an error in the reference genome in chromosome 2 is indicated in the first panel.

    Journal: bioRxiv

    Article Title: Large inversions in Lake Malawi cichlids are associated with habitat preference, lineage, and sex determination

    doi: 10.1101/2024.10.28.620687

    Figure Lengend Snippet: Representative alignments of inversions or double inversions identified from blood samples obtained from 30 individuals from eleven species. For each inversion, the top shows predicted motifs from an in-situ digest of the reference genome, the bottom shows motifs identified using Bionano molecules obtained from an individual of the species indicated on the left, and the grey lines indicate matching motifs based upon predicted and observed distances. Single inversions were identified on chromosomes 2, 9, 10, 13, and 20. Tandem double inversions were identified on chromosomes 11 and 20. The estimated length and percentage of the chromosome spanned by the inversion is shown on the right. The single inversion on 20 identified in Rhamphochromis longiceps has the same position as the first inversion of the double inversion on 20 identified from Mchenga conophoros . A list of all samples and their inversion genotype is in . Note that an error in the reference genome in chromosome 2 is indicated in the first panel.

    Article Snippet: These differences fall into two primary categories: 1) contigs that were incorrectly ordered or oriented and 2) unplaced contigs that Bionano anchored to specific chromosomes.

    Techniques: In Situ

    ( A ) Schematic of the two inversion states (normal and inverted) and their assignment as X or Y chromosomes. ( B ) 24 o‘spring (12 male and 12 female) from two separate male/female pairs were genotyped for the inversion. For 47 of 48 individuals, the XY animals were male and the XX animals were female. One male was XX. ( C ) F ST analysis comparing 24 males and 24 females identified chromosome 10 as the primary genetic region that segregated with sex. ( D ) Comparison of heterozygosity leve2ls9o3f 24 male and 24 female animals also identified chromosome 10 as an outlier.

    Journal: bioRxiv

    Article Title: Large inversions in Lake Malawi cichlids are associated with habitat preference, lineage, and sex determination

    doi: 10.1101/2024.10.28.620687

    Figure Lengend Snippet: ( A ) Schematic of the two inversion states (normal and inverted) and their assignment as X or Y chromosomes. ( B ) 24 o‘spring (12 male and 12 female) from two separate male/female pairs were genotyped for the inversion. For 47 of 48 individuals, the XY animals were male and the XX animals were female. One male was XX. ( C ) F ST analysis comparing 24 males and 24 females identified chromosome 10 as the primary genetic region that segregated with sex. ( D ) Comparison of heterozygosity leve2ls9o3f 24 male and 24 female animals also identified chromosome 10 as an outlier.

    Article Snippet: These differences fall into two primary categories: 1) contigs that were incorrectly ordered or oriented and 2) unplaced contigs that Bionano anchored to specific chromosomes.

    Techniques: Comparison