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Partek sperm mnase tiling array data
Aberrant chromatin composition in mouse models of altered PAR metabolism. Chromomycin A3 (CMA3) intercalation into the DNA indicates incomplete chromatin condensation in s perm from <t>Parg</t> (110) −/− (A) and PJ34-treated (C) males with histone retention. (B, D) Histogram of sperm CMA3-staining intensities reflects that severity of CM3A staining varied at the level of individual sperm and individual fathers (n > 200 nuclei/sample, 3 males/group). (E) Immunoblot analyses of sperm protein lysates showing increase in histone retention in PJ34 treated males. TUBA1A: alpha tubulin loading control. (F) Overlaps of genes identified as differentially histone associated in sperm from 3 individual Parg (110) −/− males (“PargA”, “PargB”, “PargC”, the fathers of the embryos analyzed below) by micrococcal nuclease digests (MND) compared to the wild-type controls. The “PargAll” data set contains all genes commonly identified as differentially <t>MNase-sensitive</t> across 10 Parg (110) −/− males compared with 9 wild-type control animals. The red circle indicates common genes that were differentially histone associated in all groups (1604+216 = 1820, red circle) compared with wild-type. (G) PJ34: differentially MNase-sensitive genes in three different males (like in E) and overlap with a surrogate dataset (“PJ34All”) consisting of data from all 4 PJ34-treated males compared with 9 wild-type control males. The overlap of 2,489 genes that were commonly differentially histone associated in sperm samples is indicated (blue circle). (H) Overlap of genes commonly affected by differential histone association between the Parg (110) −/− and the PJ34 models compared to wild-type controls (red and blue circles in F and G). A Pearson correlation examining significance of this overlap using a genetic background of 19,472 genes was calculated with a resulting P
Sperm Mnase Tiling Array Data, supplied by Partek, used in various techniques. Bioz Stars score: 78/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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sperm mnase tiling array data - by Bioz Stars, 2020-02
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1) Product Images from "Paternal Poly (ADP-ribose) Metabolism Modulates Retention of Inheritable Sperm Histones and Early Embryonic Gene Expression"

Article Title: Paternal Poly (ADP-ribose) Metabolism Modulates Retention of Inheritable Sperm Histones and Early Embryonic Gene Expression

Journal: PLoS Genetics

doi: 10.1371/journal.pgen.1004317

Aberrant chromatin composition in mouse models of altered PAR metabolism. Chromomycin A3 (CMA3) intercalation into the DNA indicates incomplete chromatin condensation in s perm from Parg (110) −/− (A) and PJ34-treated (C) males with histone retention. (B, D) Histogram of sperm CMA3-staining intensities reflects that severity of CM3A staining varied at the level of individual sperm and individual fathers (n > 200 nuclei/sample, 3 males/group). (E) Immunoblot analyses of sperm protein lysates showing increase in histone retention in PJ34 treated males. TUBA1A: alpha tubulin loading control. (F) Overlaps of genes identified as differentially histone associated in sperm from 3 individual Parg (110) −/− males (“PargA”, “PargB”, “PargC”, the fathers of the embryos analyzed below) by micrococcal nuclease digests (MND) compared to the wild-type controls. The “PargAll” data set contains all genes commonly identified as differentially MNase-sensitive across 10 Parg (110) −/− males compared with 9 wild-type control animals. The red circle indicates common genes that were differentially histone associated in all groups (1604+216 = 1820, red circle) compared with wild-type. (G) PJ34: differentially MNase-sensitive genes in three different males (like in E) and overlap with a surrogate dataset (“PJ34All”) consisting of data from all 4 PJ34-treated males compared with 9 wild-type control males. The overlap of 2,489 genes that were commonly differentially histone associated in sperm samples is indicated (blue circle). (H) Overlap of genes commonly affected by differential histone association between the Parg (110) −/− and the PJ34 models compared to wild-type controls (red and blue circles in F and G). A Pearson correlation examining significance of this overlap using a genetic background of 19,472 genes was calculated with a resulting P
Figure Legend Snippet: Aberrant chromatin composition in mouse models of altered PAR metabolism. Chromomycin A3 (CMA3) intercalation into the DNA indicates incomplete chromatin condensation in s perm from Parg (110) −/− (A) and PJ34-treated (C) males with histone retention. (B, D) Histogram of sperm CMA3-staining intensities reflects that severity of CM3A staining varied at the level of individual sperm and individual fathers (n > 200 nuclei/sample, 3 males/group). (E) Immunoblot analyses of sperm protein lysates showing increase in histone retention in PJ34 treated males. TUBA1A: alpha tubulin loading control. (F) Overlaps of genes identified as differentially histone associated in sperm from 3 individual Parg (110) −/− males (“PargA”, “PargB”, “PargC”, the fathers of the embryos analyzed below) by micrococcal nuclease digests (MND) compared to the wild-type controls. The “PargAll” data set contains all genes commonly identified as differentially MNase-sensitive across 10 Parg (110) −/− males compared with 9 wild-type control animals. The red circle indicates common genes that were differentially histone associated in all groups (1604+216 = 1820, red circle) compared with wild-type. (G) PJ34: differentially MNase-sensitive genes in three different males (like in E) and overlap with a surrogate dataset (“PJ34All”) consisting of data from all 4 PJ34-treated males compared with 9 wild-type control males. The overlap of 2,489 genes that were commonly differentially histone associated in sperm samples is indicated (blue circle). (H) Overlap of genes commonly affected by differential histone association between the Parg (110) −/− and the PJ34 models compared to wild-type controls (red and blue circles in F and G). A Pearson correlation examining significance of this overlap using a genetic background of 19,472 genes was calculated with a resulting P

Techniques Used: Staining

Related Articles

Isolation:

Article Title: Paternal Poly (ADP-ribose) Metabolism Modulates Retention of Inheritable Sperm Histones and Early Embryonic Gene Expression
Article Snippet: To visualize differences between wild-type, Parg (110)−/− and PJ34-treated males regarding their sperm MNase tiling array data sets, principal component analysis (PCA, PARTEK software package) was used as a simple eigenvector-based multivariate analyses routinely used to reveal the internal structure of the data that best explains the observed variance. .. PCA of the promoter tiling arrays hybridized with the MND fractions enriched in nucleosomal sperm DNA reveals segregation of fathers according to genotype. (A) PCA of MND fractions isolated from Parg (110)−/− (n = 10) and wild-type control males (n = 9) indicates segregation between data sets. (B) Similar analysis of MND fractions isolated from PJ34 injected (n = 4, 10 mg/kg daily, over 10 weeks) and control males (n = 9), showing segregation between sperm tiling array data according to treatment group. (PDF) Click here for additional data file.

Next-Generation Sequencing:

Article Title: Paternal Poly (ADP-ribose) Metabolism Modulates Retention of Inheritable Sperm Histones and Early Embryonic Gene Expression
Article Snippet: Similar to Dataset S1, differentially nucleosome associated sperm genes in Parg (110)−/− sire sperm samples are compared with differentially expressed genes in 2-cell embryos, as determined by high throughput sequencing of single 2-cell embryo complete cDNA profiles obtained from these sires and overlaps are shown. .. To visualize differences between wild-type, Parg (110)−/− and PJ34-treated males regarding their sperm MNase tiling array data sets, principal component analysis (PCA, PARTEK software package) was used as a simple eigenvector-based multivariate analyses routinely used to reveal the internal structure of the data that best explains the observed variance.

DNA Methylation Assay:

Article Title: Paternal Poly (ADP-ribose) Metabolism Modulates Retention of Inheritable Sperm Histones and Early Embryonic Gene Expression
Article Snippet: To visualize differences between wild-type, Parg (110)−/− and PJ34-treated males regarding their sperm MNase tiling array data sets, principal component analysis (PCA, PARTEK software package) was used as a simple eigenvector-based multivariate analyses routinely used to reveal the internal structure of the data that best explains the observed variance. .. The wild-type was comprised of 9 individual sperm samples (Wildtype), the individual males used for father-offspring analyses are all shown (PargA, PargB, PargC, as well as PJ34A, PJ34B and PJ34C). (B) Positive association of nucleosome enrichment with high, intermediate and low density CpG content of the DNA was detected in all data sets (P≪0.0001, see above). (C) DNA methylation was inversely correlated with nucleosome association in all sperm samples (P≪0.0001). (PDF) Click here for additional data file.

Mass Spectrometry:

Article Title: Paternal Poly (ADP-ribose) Metabolism Modulates Retention of Inheritable Sperm Histones and Early Embryonic Gene Expression
Article Snippet: This MS Excel file contains also the complete genome-wide sequencing data. (XLSX) Click here for additional data file. .. To visualize differences between wild-type, Parg (110)−/− and PJ34-treated males regarding their sperm MNase tiling array data sets, principal component analysis (PCA, PARTEK software package) was used as a simple eigenvector-based multivariate analyses routinely used to reveal the internal structure of the data that best explains the observed variance.

Genome Wide:

Article Title: Paternal Poly (ADP-ribose) Metabolism Modulates Retention of Inheritable Sperm Histones and Early Embryonic Gene Expression
Article Snippet: This MS Excel file contains also the complete genome-wide sequencing data. (XLSX) Click here for additional data file. .. To visualize differences between wild-type, Parg (110)−/− and PJ34-treated males regarding their sperm MNase tiling array data sets, principal component analysis (PCA, PARTEK software package) was used as a simple eigenvector-based multivariate analyses routinely used to reveal the internal structure of the data that best explains the observed variance.

Sequencing:

Article Title: Paternal Poly (ADP-ribose) Metabolism Modulates Retention of Inheritable Sperm Histones and Early Embryonic Gene Expression
Article Snippet: This MS Excel file contains also the complete genome-wide sequencing data. (XLSX) Click here for additional data file. .. To visualize differences between wild-type, Parg (110)−/− and PJ34-treated males regarding their sperm MNase tiling array data sets, principal component analysis (PCA, PARTEK software package) was used as a simple eigenvector-based multivariate analyses routinely used to reveal the internal structure of the data that best explains the observed variance.

Injection:

Article Title: Paternal Poly (ADP-ribose) Metabolism Modulates Retention of Inheritable Sperm Histones and Early Embryonic Gene Expression
Article Snippet: To visualize differences between wild-type, Parg (110)−/− and PJ34-treated males regarding their sperm MNase tiling array data sets, principal component analysis (PCA, PARTEK software package) was used as a simple eigenvector-based multivariate analyses routinely used to reveal the internal structure of the data that best explains the observed variance. .. PCA of the promoter tiling arrays hybridized with the MND fractions enriched in nucleosomal sperm DNA reveals segregation of fathers according to genotype. (A) PCA of MND fractions isolated from Parg (110)−/− (n = 10) and wild-type control males (n = 9) indicates segregation between data sets. (B) Similar analysis of MND fractions isolated from PJ34 injected (n = 4, 10 mg/kg daily, over 10 weeks) and control males (n = 9), showing segregation between sperm tiling array data according to treatment group. (PDF) Click here for additional data file.

Software:

Article Title: Paternal Poly (ADP-ribose) Metabolism Modulates Retention of Inheritable Sperm Histones and Early Embryonic Gene Expression
Article Snippet: .. To visualize differences between wild-type, Parg (110)−/− and PJ34-treated males regarding their sperm MNase tiling array data sets, principal component analysis (PCA, PARTEK software package) was used as a simple eigenvector-based multivariate analyses routinely used to reveal the internal structure of the data that best explains the observed variance. .. PCA of the promoter tiling arrays hybridized with the MND fractions enriched in nucleosomal sperm DNA reveals segregation of fathers according to genotype. (A) PCA of MND fractions isolated from Parg (110)−/− (n = 10) and wild-type control males (n = 9) indicates segregation between data sets. (B) Similar analysis of MND fractions isolated from PJ34 injected (n = 4, 10 mg/kg daily, over 10 weeks) and control males (n = 9), showing segregation between sperm tiling array data according to treatment group. (PDF) Click here for additional data file.

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    Partek sperm mnase tiling array data
    Aberrant chromatin composition in mouse models of altered PAR metabolism. Chromomycin A3 (CMA3) intercalation into the DNA indicates incomplete chromatin condensation in s perm from <t>Parg</t> (110) −/− (A) and PJ34-treated (C) males with histone retention. (B, D) Histogram of sperm CMA3-staining intensities reflects that severity of CM3A staining varied at the level of individual sperm and individual fathers (n > 200 nuclei/sample, 3 males/group). (E) Immunoblot analyses of sperm protein lysates showing increase in histone retention in PJ34 treated males. TUBA1A: alpha tubulin loading control. (F) Overlaps of genes identified as differentially histone associated in sperm from 3 individual Parg (110) −/− males (“PargA”, “PargB”, “PargC”, the fathers of the embryos analyzed below) by micrococcal nuclease digests (MND) compared to the wild-type controls. The “PargAll” data set contains all genes commonly identified as differentially <t>MNase-sensitive</t> across 10 Parg (110) −/− males compared with 9 wild-type control animals. The red circle indicates common genes that were differentially histone associated in all groups (1604+216 = 1820, red circle) compared with wild-type. (G) PJ34: differentially MNase-sensitive genes in three different males (like in E) and overlap with a surrogate dataset (“PJ34All”) consisting of data from all 4 PJ34-treated males compared with 9 wild-type control males. The overlap of 2,489 genes that were commonly differentially histone associated in sperm samples is indicated (blue circle). (H) Overlap of genes commonly affected by differential histone association between the Parg (110) −/− and the PJ34 models compared to wild-type controls (red and blue circles in F and G). A Pearson correlation examining significance of this overlap using a genetic background of 19,472 genes was calculated with a resulting P
    Sperm Mnase Tiling Array Data, supplied by Partek, used in various techniques. Bioz Stars score: 78/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/sperm mnase tiling array data/product/Partek
    Average 78 stars, based on 1 article reviews
    Price from $9.99 to $1999.99
    sperm mnase tiling array data - by Bioz Stars, 2020-02
    78/100 stars
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    Aberrant chromatin composition in mouse models of altered PAR metabolism. Chromomycin A3 (CMA3) intercalation into the DNA indicates incomplete chromatin condensation in s perm from Parg (110) −/− (A) and PJ34-treated (C) males with histone retention. (B, D) Histogram of sperm CMA3-staining intensities reflects that severity of CM3A staining varied at the level of individual sperm and individual fathers (n > 200 nuclei/sample, 3 males/group). (E) Immunoblot analyses of sperm protein lysates showing increase in histone retention in PJ34 treated males. TUBA1A: alpha tubulin loading control. (F) Overlaps of genes identified as differentially histone associated in sperm from 3 individual Parg (110) −/− males (“PargA”, “PargB”, “PargC”, the fathers of the embryos analyzed below) by micrococcal nuclease digests (MND) compared to the wild-type controls. The “PargAll” data set contains all genes commonly identified as differentially MNase-sensitive across 10 Parg (110) −/− males compared with 9 wild-type control animals. The red circle indicates common genes that were differentially histone associated in all groups (1604+216 = 1820, red circle) compared with wild-type. (G) PJ34: differentially MNase-sensitive genes in three different males (like in E) and overlap with a surrogate dataset (“PJ34All”) consisting of data from all 4 PJ34-treated males compared with 9 wild-type control males. The overlap of 2,489 genes that were commonly differentially histone associated in sperm samples is indicated (blue circle). (H) Overlap of genes commonly affected by differential histone association between the Parg (110) −/− and the PJ34 models compared to wild-type controls (red and blue circles in F and G). A Pearson correlation examining significance of this overlap using a genetic background of 19,472 genes was calculated with a resulting P

    Journal: PLoS Genetics

    Article Title: Paternal Poly (ADP-ribose) Metabolism Modulates Retention of Inheritable Sperm Histones and Early Embryonic Gene Expression

    doi: 10.1371/journal.pgen.1004317

    Figure Lengend Snippet: Aberrant chromatin composition in mouse models of altered PAR metabolism. Chromomycin A3 (CMA3) intercalation into the DNA indicates incomplete chromatin condensation in s perm from Parg (110) −/− (A) and PJ34-treated (C) males with histone retention. (B, D) Histogram of sperm CMA3-staining intensities reflects that severity of CM3A staining varied at the level of individual sperm and individual fathers (n > 200 nuclei/sample, 3 males/group). (E) Immunoblot analyses of sperm protein lysates showing increase in histone retention in PJ34 treated males. TUBA1A: alpha tubulin loading control. (F) Overlaps of genes identified as differentially histone associated in sperm from 3 individual Parg (110) −/− males (“PargA”, “PargB”, “PargC”, the fathers of the embryos analyzed below) by micrococcal nuclease digests (MND) compared to the wild-type controls. The “PargAll” data set contains all genes commonly identified as differentially MNase-sensitive across 10 Parg (110) −/− males compared with 9 wild-type control animals. The red circle indicates common genes that were differentially histone associated in all groups (1604+216 = 1820, red circle) compared with wild-type. (G) PJ34: differentially MNase-sensitive genes in three different males (like in E) and overlap with a surrogate dataset (“PJ34All”) consisting of data from all 4 PJ34-treated males compared with 9 wild-type control males. The overlap of 2,489 genes that were commonly differentially histone associated in sperm samples is indicated (blue circle). (H) Overlap of genes commonly affected by differential histone association between the Parg (110) −/− and the PJ34 models compared to wild-type controls (red and blue circles in F and G). A Pearson correlation examining significance of this overlap using a genetic background of 19,472 genes was calculated with a resulting P

    Article Snippet: To visualize differences between wild-type, Parg (110)−/− and PJ34-treated males regarding their sperm MNase tiling array data sets, principal component analysis (PCA, PARTEK software package) was used as a simple eigenvector-based multivariate analyses routinely used to reveal the internal structure of the data that best explains the observed variance.

    Techniques: Staining