A comparative encyclopedia of DNA elements in the mouse genome Journal Article
| Authors: | Yue, F.; Cheng, Y.; Breschi, A.; Vierstra, J.; Wu, W.; Ryba, T.; Sandstrom, R.; Ma, Z.; Davis, C.; Pope, B. D.; Shen, Y.; Pervouchine, D. D.; Djebali, S.; Thurman, R. E.; Kaul, R.; Rynes, E.; Kirilusha, A.; Marinov, G. K.; Williams, B. A.; Trout, D.; Amrhein, H.; Fisher-Aylor, K.; Antoshechkin, I.; DeSalvo, G.; See, L. H.; Fastuca, M.; Drenkow, J.; Zaleski, C.; Dobin, A.; Prieto, P.; Lagarde, J.; Bussotti, G.; Tanzer, A.; Denas, O.; Li, K.; Bender, M. A.; Zhang, M.; Byron, R.; Groudine, M. T.; McCleary, D.; Pham, L.; Ye, Z.; Kuan, S.; Edsall, L.; Wu, Y. C.; Rasmussen, M. D.; Bansal, M. S.; Kellis, M.; Keller, C. A.; Morrissey, C. S.; Mishra, T.; Jain, D.; Dogan, N.; Harris, R. S.; Cayting, P.; Kawli, T.; Boyle, A. P.; Euskirchen, G.; Kundaje, A.; Lin, S.; Lin, Y.; Jansen, C.; Malladi, V. S.; Cline, M. S.; Erickson, D. T.; Kirkup, V. M.; Learned, K.; Sloan, C. A.; Rosenbloom, K. R.; De Sousa, B. L.; Beal, K.; Pignatelli, M.; Flicek, P.; Lian, J.; Kahveci, T.; Lee, D.; Kent, W. J.; Santos, M. R.; Herrero, J.; Notredame, C.; Johnson, A.; Vong, S.; Lee, K.; Bates, D.; Neri, F.; Diegel, M.; Canfield, T.; Sabo, P. J.; Wilken, M. S.; Reh, T. A.; Giste, E.; Shafer, A.; Kutyavin, T.; Haugen, E.; Dunn, D.; Reynolds, A. P.; Neph, S.; Humbert, R.; Hansen, R. S.; De Bruijn, M.; Selleri, L.; Rudensky, A.; Josefowicz, S.; Samstein, R.; Eichler, E. E.; Orkin, S. H.; Levasseur, D.; Papayannopoulou, T.; Chang, K. H.; Skoultchi, A.; Gosh, S.; Disteche, C.; Treuting, P.; Wang, Y.; Weiss, M. J.; Blobel, G. A.; Cao, X.; Zhong, S.; Wang, T.; Good, P. J.; Lowdon, R. F.; Adams, L. B.; Zhou, X. Q.; Pazin, M. J.; Feingold, E. A.; Wold, B.; Taylor, J.; Mortazavi, A.; Weissman, S. M.; Stamatoyannopoulos, J. A.; Snyder, M. P.; Guigo, R.; Gingeras, T. R.; Gilbert, D. M.; Hardison, R. C.; Beer, M. A.; Ren, B.; The Mouse ENCODE Consortium |
| Article Title: | A comparative encyclopedia of DNA elements in the mouse genome |
| Abstract: | The laboratory mouse shares the majority of its protein-coding genes with humans, making it the premier model organism in biomedical research, yet the two mammals differ in significant ways. To gain greater insights into both shared and species-specific transcriptional and cellular regulatory programs in the mouse, the Mouse ENCODE Consortium has mapped transcription, DNase I hypersensitivity, transcription factor binding, chromatin modifications and replication domains throughout the mouse genome in diverse cell and tissue types. By comparing with the human genome, we not only confirm substantial conservation in the newly annotated potential functional sequences, but also find a large degree of divergence of sequences involved in transcriptional regulation, chromatin state and higher order chromatin organization. Our results illuminate the wide range of evolutionary forces acting on genes and their regulatory regions, and provide a general resource for research into mammalian biology and mechanisms of human diseases. |
| Keywords: | nonhuman; comparative study; molecular genetics; disease association; gene expression; genetic association; transcription factor; enzyme activity; experimental mouse; cell type; rna; genome analysis; dna; molecular evolution; transcription regulation; chromatin; mammal; human genome; nucleotide sequence; species difference; binding protein; genome; dna sequence; rodent; rna processing; mouse model; regulatory sequence; histone modification; hypersensitivity; element; dna replication timing; deoxyribonuclease i; human; article; laboratory method; conservation biology; mouse genome |
| Journal Title: | Nature |
| Volume: | 515 |
| Issue: | 7527 |
| ISSN: | 0028-0836 |
| Publisher: | Nature Publishing Group |
| Date Published: | 2014-11-20 |
| Start Page: | 355 |
| End Page: | 364 |
| Language: | English |
| DOI: | 10.1038/nature13992 |
| PROVIDER: | scopus |
| PMCID: | PMC4266106 |
| PUBMED: | 25409824 |
| DOI/URL: | |
| Notes: | Export Date: 2 January 2015 -- Source: Scopus |
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