title: Spatiotemporal expression and transcriptional  perturbations by long noncoding RNAs in the  mouse brain.
abstract: Long noncoding RNAs (lncRNAs) have been implicated in numerous cellular processes including brain development. However, the in vivo expression dynamics and molecular pathways regulated by these loci are not well understood. Here, we leveraged a cohort of 13 lncRNAnull mutant mouse models to investigate the spatiotemporal expression of lncRNAs in the developing and adult brain and the transcriptome alterations resulting from the loss of these lncRNA loci. We show that several lncRNAs are differentially expressed both in time and space, with some presenting highly restricted expression in only selected brain regions. We further demonstrate altered regulation of genes for a large variety of cellular pathways and processes upon deletion of the lncRNA loci. Finally, we found that 4 of the 13 lncRNAs significantly affect the expression of several neighboring proteincoding genes in a cis-like manner. By providing insight into the endogenous expression patterns and the transcriptional perturbations caused by deletion of the lncRNA locus in the developing and postnatal mammalian brain, these data provide a resource to facilitate future examination of the specific functional relevance of these genes in neural development, brain function, and disease.
authors.forename: Loyal A
authors.initials: LA
authors.lastname: Goff
authors.forename: Abigail F
authors.initials: AF
authors.lastname: Groff
authors.forename: Martin
authors.initials: M
authors.lastname: Sauvageau
authors.forename: Zachary
authors.initials: Z
authors.lastname: Trayes-Gibson
authors.forename: Diana B
authors.initials: DB
authors.lastname: Sanchez-Gomez
authors.forename: Michael
authors.initials: M
authors.lastname: Morse
authors.forename: Ryan D
authors.initials: RD
authors.lastname: Martin
authors.forename: Lara E
authors.initials: LE
authors.lastname: Elcavage
authors.forename: Stephen C
authors.initials: SC
authors.lastname: Liapis
authors.forename: Meryem
authors.initials: M
authors.lastname: Gonzalez-Celeiro
authors.forename: Olivia
authors.initials: O
authors.lastname: Plana
authors.forename: Eric
authors.initials: E
authors.lastname: Li
authors.forename: Chiara
authors.initials: C
authors.lastname: Gerhardinger
authors.forename: Giulio S
authors.initials: GS
authors.lastname: Tomassy
authors.forename: Paola
authors.initials: P
authors.lastname: Arlotta
authors.forename: John L
authors.initials: JL
authors.lastname: Rinn
mesh_terms: D000818:Animals; D001483:Base Sequence; D001921:Brain / Q000254:growth & development* / Q000378:metabolism*; D020869:Gene Expression Profiling; D005786:Gene Expression Regulation / Q000235:genetics / Q000502:physiology*; D007150:Immunohistochemistry; D051379:Mice; D018345:Mice, Knockout; D018613:Microscopy, Confocal; D008969:Molecular Sequence Data; D062085:RNA, Long Noncoding / Q000235:genetics / Q000378:metabolism*; D017422:Sequence Analysis, DNA; D001616:beta-Galactosidase
chemical_list: D062085:RNA, Long Noncoding; D001616:beta-Galactosidase