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Single nucleus multi-omics regulatory landscape of the murine pituitary.

Publication ,  Journal Article
Ruf-Zamojski, F; Zhang, Z; Zamojski, M; Smith, GR; Mendelev, N; Liu, H; Nudelman, G; Moriwaki, M; Pincas, H; Castanon, RG; Nair, VD; Zhou, X ...
Published in: Nature communications
May 2021

To provide a multi-omics resource and investigate transcriptional regulatory mechanisms, we profile the transcriptome, chromatin accessibility, and methylation status of over 70,000 single nuclei (sn) from adult mouse pituitaries. Paired snRNAseq and snATACseq datasets from individual animals highlight a continuum between developmental epigenetically-encoded cell types and transcriptionally-determined transient cell states. Co-accessibility analysis-based identification of a putative Fshb cis-regulatory domain that overlaps the fertility-linked rs11031006 human polymorphism, followed by experimental validation illustrate the use of this resource for hypothesis generation. We also identify transcriptional and chromatin accessibility programs distinguishing each major cell type. Regulons, which are co-regulated gene sets sharing binding sites for a common transcription factor driver, recapitulate cell type clustering. We identify both cell type-specific and sex-specific regulons that are highly correlated with promoter accessibility, but not with methylation state, supporting the centrality of chromatin accessibility in shaping cell-defining transcriptional programs. The sn multi-omics atlas is accessible at snpituitaryatlas.princeton.edu.

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Published In

Nature communications

DOI

EISSN

2041-1723

ISSN

2041-1723

Publication Date

May 2021

Volume

12

Issue

1

Start / End Page

2677

Related Subject Headings

  • Transcriptome
  • Sex Factors
  • Regulon
  • Promoter Regions, Genetic
  • Pituitary Gland
  • Models, Genetic
  • Mice, Inbred C57BL
  • Mice
  • Male
  • Gene Regulatory Networks
 

Citation

APA
Chicago
ICMJE
MLA
NLM
Ruf-Zamojski, F., Zhang, Z., Zamojski, M., Smith, G. R., Mendelev, N., Liu, H., … Sealfon, S. C. (2021). Single nucleus multi-omics regulatory landscape of the murine pituitary. Nature Communications, 12(1), 2677. https://doi.org/10.1038/s41467-021-22859-w
Ruf-Zamojski, Frederique, Zidong Zhang, Michel Zamojski, Gregory R. Smith, Natalia Mendelev, Hanqing Liu, German Nudelman, et al. “Single nucleus multi-omics regulatory landscape of the murine pituitary.Nature Communications 12, no. 1 (May 2021): 2677. https://doi.org/10.1038/s41467-021-22859-w.
Ruf-Zamojski F, Zhang Z, Zamojski M, Smith GR, Mendelev N, Liu H, et al. Single nucleus multi-omics regulatory landscape of the murine pituitary. Nature communications. 2021 May;12(1):2677.
Ruf-Zamojski, Frederique, et al. “Single nucleus multi-omics regulatory landscape of the murine pituitary.Nature Communications, vol. 12, no. 1, May 2021, p. 2677. Epmc, doi:10.1038/s41467-021-22859-w.
Ruf-Zamojski F, Zhang Z, Zamojski M, Smith GR, Mendelev N, Liu H, Nudelman G, Moriwaki M, Pincas H, Castanon RG, Nair VD, Seenarine N, Amper MAS, Zhou X, Ongaro L, Toufaily C, Schang G, Nery JR, Bartlett A, Aldridge A, Jain N, Childs GV, Troyanskaya OG, Ecker JR, Turgeon JL, Welt CK, Bernard DJ, Sealfon SC. Single nucleus multi-omics regulatory landscape of the murine pituitary. Nature communications. 2021 May;12(1):2677.

Published In

Nature communications

DOI

EISSN

2041-1723

ISSN

2041-1723

Publication Date

May 2021

Volume

12

Issue

1

Start / End Page

2677

Related Subject Headings

  • Transcriptome
  • Sex Factors
  • Regulon
  • Promoter Regions, Genetic
  • Pituitary Gland
  • Models, Genetic
  • Mice, Inbred C57BL
  • Mice
  • Male
  • Gene Regulatory Networks