nolc1  (Fortis Life Sciences)

 
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    Fortis Life Sciences nolc1
    (A) Immunoprecipitation (IP)-western blot performed during chimeric eCLIP for indicated proteins. INP, input. (B) Points indicate snoRNA fold-enrichment in (left) standard eCLIP and (right) non-chimeric reads from chimeric eCLIP recovered from FBL and LARP7 experiments in HepG2. Colors indicate snoRNAs classified as (green) LARP7-driven U6 targeting, (light green) LAPR7-independent U6 targeting, and (grey) all other snoRNAs. P-values shown are from unpaired two sample t-test. (C) Points indicate fold-enrichment for (x-axis) all C/D box snoRNAs versus (y-axis) SCARNAs for ENCODE eCLIP and snoRNP protein eCLIP datasets generated in this work. Labeled RBPs are as in . (D) Points indicate fold-enrichment for (x-axis) all snoRNAs versus (y-axis) U2 snRNA for ENCODE eCLIP and snoRNP protein eCLIP datasets generated in this work. Labeled RBPs are as in . (E) Points indicate fold-enrichment for (x-axis) all snoRNAs versus (y-axis) U6 snRNA for ENCODE eCLIP and snoRNP protein eCLIP datasets generated in this work. Labeled RBPs are as in . (F) Immunoprecipitation (IP)-western blot performed during eCLIP for <t>NOLC1.</t> INP, input. (G) Bar indicates the fraction of chimeric reads captured by chimeric eCLIP of the indicated bait proteins that map to different target RNA classes. (H) Bars indicate fold-enrichment of U2 or U6 snRNA in (grey) standard eCLIP and (black) non-chimeric reads from chimeric eCLIP profiling of indicated RBPs. (I) Heatmap color scale indicates the read density per million sequenced reads (RPM) for (left) snoRNA:U2 chimeric reads and (right) snoRNA:U6 chimeric reads recovered by chimeric eCLIP for indicated RBPs. Cutoff for unannotated interactions shown in heatmap is 10 reads for U2 interactions and 5 reads for U6 interactions in at least one sample. (J) Browser tracks show read density (per million chimeric reads) for snoRNA:U6 chimeras along the U6 snRNA for known and novel candidate U6-interacting snoRNAs.
    Nolc1, supplied by Fortis Life Sciences, used in various techniques. Bioz Stars score: 86/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Images

    1) Product Images from "Mapping snoRNA-target RNA interactions in an RNA binding protein-dependent manner with chimeric eCLIP"

    Article Title: Mapping snoRNA-target RNA interactions in an RNA binding protein-dependent manner with chimeric eCLIP

    Journal: bioRxiv

    doi: 10.1101/2024.09.19.613955

    (A) Immunoprecipitation (IP)-western blot performed during chimeric eCLIP for indicated proteins. INP, input. (B) Points indicate snoRNA fold-enrichment in (left) standard eCLIP and (right) non-chimeric reads from chimeric eCLIP recovered from FBL and LARP7 experiments in HepG2. Colors indicate snoRNAs classified as (green) LARP7-driven U6 targeting, (light green) LAPR7-independent U6 targeting, and (grey) all other snoRNAs. P-values shown are from unpaired two sample t-test. (C) Points indicate fold-enrichment for (x-axis) all C/D box snoRNAs versus (y-axis) SCARNAs for ENCODE eCLIP and snoRNP protein eCLIP datasets generated in this work. Labeled RBPs are as in . (D) Points indicate fold-enrichment for (x-axis) all snoRNAs versus (y-axis) U2 snRNA for ENCODE eCLIP and snoRNP protein eCLIP datasets generated in this work. Labeled RBPs are as in . (E) Points indicate fold-enrichment for (x-axis) all snoRNAs versus (y-axis) U6 snRNA for ENCODE eCLIP and snoRNP protein eCLIP datasets generated in this work. Labeled RBPs are as in . (F) Immunoprecipitation (IP)-western blot performed during eCLIP for NOLC1. INP, input. (G) Bar indicates the fraction of chimeric reads captured by chimeric eCLIP of the indicated bait proteins that map to different target RNA classes. (H) Bars indicate fold-enrichment of U2 or U6 snRNA in (grey) standard eCLIP and (black) non-chimeric reads from chimeric eCLIP profiling of indicated RBPs. (I) Heatmap color scale indicates the read density per million sequenced reads (RPM) for (left) snoRNA:U2 chimeric reads and (right) snoRNA:U6 chimeric reads recovered by chimeric eCLIP for indicated RBPs. Cutoff for unannotated interactions shown in heatmap is 10 reads for U2 interactions and 5 reads for U6 interactions in at least one sample. (J) Browser tracks show read density (per million chimeric reads) for snoRNA:U6 chimeras along the U6 snRNA for known and novel candidate U6-interacting snoRNAs.
    Figure Legend Snippet: (A) Immunoprecipitation (IP)-western blot performed during chimeric eCLIP for indicated proteins. INP, input. (B) Points indicate snoRNA fold-enrichment in (left) standard eCLIP and (right) non-chimeric reads from chimeric eCLIP recovered from FBL and LARP7 experiments in HepG2. Colors indicate snoRNAs classified as (green) LARP7-driven U6 targeting, (light green) LAPR7-independent U6 targeting, and (grey) all other snoRNAs. P-values shown are from unpaired two sample t-test. (C) Points indicate fold-enrichment for (x-axis) all C/D box snoRNAs versus (y-axis) SCARNAs for ENCODE eCLIP and snoRNP protein eCLIP datasets generated in this work. Labeled RBPs are as in . (D) Points indicate fold-enrichment for (x-axis) all snoRNAs versus (y-axis) U2 snRNA for ENCODE eCLIP and snoRNP protein eCLIP datasets generated in this work. Labeled RBPs are as in . (E) Points indicate fold-enrichment for (x-axis) all snoRNAs versus (y-axis) U6 snRNA for ENCODE eCLIP and snoRNP protein eCLIP datasets generated in this work. Labeled RBPs are as in . (F) Immunoprecipitation (IP)-western blot performed during eCLIP for NOLC1. INP, input. (G) Bar indicates the fraction of chimeric reads captured by chimeric eCLIP of the indicated bait proteins that map to different target RNA classes. (H) Bars indicate fold-enrichment of U2 or U6 snRNA in (grey) standard eCLIP and (black) non-chimeric reads from chimeric eCLIP profiling of indicated RBPs. (I) Heatmap color scale indicates the read density per million sequenced reads (RPM) for (left) snoRNA:U2 chimeric reads and (right) snoRNA:U6 chimeric reads recovered by chimeric eCLIP for indicated RBPs. Cutoff for unannotated interactions shown in heatmap is 10 reads for U2 interactions and 5 reads for U6 interactions in at least one sample. (J) Browser tracks show read density (per million chimeric reads) for snoRNA:U6 chimeras along the U6 snRNA for known and novel candidate U6-interacting snoRNAs.

    Techniques Used: Immunoprecipitation, Western Blot, Generated, Labeling

    (A) Points indicate C/D box snoRNA fold-enrichment of non-chimeric reads from chimeric eCLIP of FBL versus LARP7 in HepG2 cells. Datapoints for C/D snoRNAs with U6 interactions annotated in snoDB are colored. Datapoints with less than 5 reads in IP were discarded. (B) Points indicate C/D box snoRNA chimeric read abundance (RPM) from chimeric eCLIP of FBL versus LARP7. Datapoints for C/D snoRNAs with U6 interactions annotated in snoDB are colored. (C) Heatmap of snoRNA chimeric read abundance (RPM) from FBL, LARP7, and NOLC1 chimeric eCLIP for all snoRNAs with U6 interactions annotated in snoDB. (D) Browser tracks show read density (per million chimeric reads) for snoRNA chimeras along the U6 snRNA for U6-interacting snoRNAs. (E) Points indicate snoRNA:U6 chimeric read abundance (RPM) from FBL or LARP7 chimeric eCLIP. Colors indicate snoRNAs classified as (green) LARP7-associated U6 snoRNAs, (light green) Non-LARP7-associated U6 snoRNAs, and (grey) all other snoRNAs. * indicates P < 0.05, unpaired two sample t-test. (F) Points indicate snoRNA:rRNA chimeric read abundance (RPM) for snoRNAs with known rRNA target sites from FBL or LAPR7 chimeric eCLIP. * indicates P < 0.05, unpaired two-sample t-test. (G) Stacked bar plot indicates the target frequency of snoRNA:snRNA chimeric reads (RPM) recovered in chimeric eCLIP for the indicated RBPs. (H) Points indicate non-chimeric snoRNA fold-enrichment in FBL versus NOLC1 chimeric eCLIP in HepG2 cells. Datapoints with less than 5 reads in IP were discarded. Circle outline color represents the type of SCARNA with (blue) C/D box motif, including C/D SCARNAs and Tandem-CD SCARNAs), (pink) H/ACA box motif, including H/ACA SCARNAs and Tandem-H/ACA SCARNAs, and (orange) hybrid SCARNAs that possess both C/D and H/ACA box motifs. (I) Points indicate snoRNA chimeric read abundance (RPM) in FBL versus NOLC1 chimeric eCLIP. (J) Browser tracks show read density (per million chimeric reads) for snoRNA:U2 chimeric reads along the U2 snRNA for known and candidate U2-interacting snoRNAs. RPM: reads per million sequenced reads.
    Figure Legend Snippet: (A) Points indicate C/D box snoRNA fold-enrichment of non-chimeric reads from chimeric eCLIP of FBL versus LARP7 in HepG2 cells. Datapoints for C/D snoRNAs with U6 interactions annotated in snoDB are colored. Datapoints with less than 5 reads in IP were discarded. (B) Points indicate C/D box snoRNA chimeric read abundance (RPM) from chimeric eCLIP of FBL versus LARP7. Datapoints for C/D snoRNAs with U6 interactions annotated in snoDB are colored. (C) Heatmap of snoRNA chimeric read abundance (RPM) from FBL, LARP7, and NOLC1 chimeric eCLIP for all snoRNAs with U6 interactions annotated in snoDB. (D) Browser tracks show read density (per million chimeric reads) for snoRNA chimeras along the U6 snRNA for U6-interacting snoRNAs. (E) Points indicate snoRNA:U6 chimeric read abundance (RPM) from FBL or LARP7 chimeric eCLIP. Colors indicate snoRNAs classified as (green) LARP7-associated U6 snoRNAs, (light green) Non-LARP7-associated U6 snoRNAs, and (grey) all other snoRNAs. * indicates P < 0.05, unpaired two sample t-test. (F) Points indicate snoRNA:rRNA chimeric read abundance (RPM) for snoRNAs with known rRNA target sites from FBL or LAPR7 chimeric eCLIP. * indicates P < 0.05, unpaired two-sample t-test. (G) Stacked bar plot indicates the target frequency of snoRNA:snRNA chimeric reads (RPM) recovered in chimeric eCLIP for the indicated RBPs. (H) Points indicate non-chimeric snoRNA fold-enrichment in FBL versus NOLC1 chimeric eCLIP in HepG2 cells. Datapoints with less than 5 reads in IP were discarded. Circle outline color represents the type of SCARNA with (blue) C/D box motif, including C/D SCARNAs and Tandem-CD SCARNAs), (pink) H/ACA box motif, including H/ACA SCARNAs and Tandem-H/ACA SCARNAs, and (orange) hybrid SCARNAs that possess both C/D and H/ACA box motifs. (I) Points indicate snoRNA chimeric read abundance (RPM) in FBL versus NOLC1 chimeric eCLIP. (J) Browser tracks show read density (per million chimeric reads) for snoRNA:U2 chimeric reads along the U2 snRNA for known and candidate U2-interacting snoRNAs. RPM: reads per million sequenced reads.

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