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64 results for “gene gain”
Fig. 5 in Loss and Gain of Group I Introns in the Mitochondrial Gene of the Scleractinia (Cnidaria; Anthozoa).
Fig. 5. Bayesian estimates of divergence times in scleractinians. The basal axis is a geologic time scale in units of million years ago (mya). Different time intervals are labeled with abbreviations (Cam, Cambrian; Ord, Ordovician; Sil, Silurian; Dev, Devonian; Car, Carboniferous; Per, Permian; Tri, Triassic; Jur, Jurassic; Cre, Cretaceous; Pal, Paleogene; Neo, Neogene). The chart below the phylogenetic tree gives the extinction rate (solid line) and origination rate (dashed line) in different geological periods, which were modified from Kiessling (2004) with major extinction events labeled with abbreviations (Rhae, Rhaetian; Plie, Pliensbachian; Kimm, Kimmeridgian; Ceno, Cenomanian; Maa, Maastrichtian, KT-extinction). Species with different types of intron are labeled with symbols: ●, Intron-729 (I729); ▲, Intron-893 (I893); ■, Intron-876 (I876).
Fig. 4 in Loss and Gain of Group I Introns in the Mitochondrial Gene of the Scleractinia (Cnidaria; Anthozoa).
Fig. 4. Comparison of phylogenetic trees between the cox1 exon (left side) and intron (right side) in complex corals and corallimorpharians (A) and in sponges and robust corals (B). Tree topologies presenting the phylogenetic relationships of exons and introns were consensus trees between the maximum-likelihood analysis and Bayesian algorism. Numbers on branches are Shimedaira- Hasegawa-like/posterior probabilities. Dashed lines are potential changes in phylogenetic positions between the exon and intron trees.
Fig. 3 in Loss and Gain of Group I Introns in the Mitochondrial Gene of the Scleractinia (Cnidaria; Anthozoa).
Fig. 3. Phylogeny and characteristics of cox1 intron traits in hexacorals. The tree topology was constructed with Mrbayes. Numbers labeled on branches are Shimodaira-Hasegawa-like support/posterior probabilities. Species with different types of introns are labeled with symbols: ●, Intron-729 (I729); ▲, Intron-893 (I893); ■, Intron-876 (I876).
Fig. 1 in Loss and Gain of Group I Introns in the Mitochondrial Gene of the Scleractinia (Cnidaria; Anthozoa).
Fig. 1. Secondary structures of representative cox1 introns in anthozoans. A: Corallimorpharian (Rhodactis howesii); B: basal and complex corals (Gardeneris hawaiinesis); C: robust corals (Diploastrea heliopora); D: actiniarian (Metridinium senile); E: poriferian (Plakortis angulospiculatus); F: zoantharian (Savalia savaglia). Features of the secondary structure indicate the characteristics of group I introns: 10 helical elements P1~P10; consensus primary structures P, Q, R, and S in hollow letters; internal guide sequence, IGS. Initial and terminal sites of the predicted open reading frame are labeled "ORF start" and "ORF stop", respectively.
Data from: Transcriptional remodeling upon light removal in a model cnidarian: losses and gains in gene expression
Organismal responses to light:dark cycles can result from two general processes: (i) direct response to light or (ii) a free-running rhythm (i.e., a circadian clock). Previous research in cnidarians has shown that candidate circadian clock genes have rhythmic expression in the presence of diel lighting, but these oscillations appear to be lost quickly after removal of the light cue. Here, we measure whole-organism gene expression changes in 136 transcriptomes of the sea anemone Nematostella vectensis, entrained to a light:dark environment and immediately following light cue removal to distinguish two broadly defined responses in cnidarians: light entrainment and circadian regulation. Direct light exposure resulted in significant differences in expression for hundreds of genes, including more than 200 genes with rhythmic, 24-hour periodicity. Removal of the lighting cue resulted in the loss of significant expression for 80% of these genes after one day, including most of the hypothesized cnidarian circadian genes. Further, 70% of these candidate genes were phase shifted. Most surprisingly, thousands of genes, some of which are involved in oxidative stress, DNA damage response, and chromatin modification, had significant differences in expression in the 24 hours following light removal, suggesting that loss of the entraining cue may induce a cellular stress response. Together, our findings suggest that a majority of genes with significant differences in expression for anemones cultured under diel lighting are largely driven by the primary photoresponse rather than a circadian clock when measured at the whole animal level. These results provide context for the evolution of cnidarian circadian biology and help to disassociate two commonly confounded factors driving oscillating phenotypes.
Repression precedes independent evolutionary gains of a highly specific gene expression pattern
<p>Dataset for Repression precedes independent evolutionary gains of a highly specific gene expression pattern</p>
A Study of Alirocumab in Participants With Autosomal Dominant Hypercholesterolemia (ADH) and Gain-of-Function Mutations (GOFm) of the Proprotein Convertase Subtilisin Kexin 9 (PCSK9) Gene or Loss-of-F
ClinicalTrials.gov study NCT01604824. IPD Sharing: Not stated. Countries: 2. Publications: 2.
Data from: Transcriptional remodeling upon light removal in a model cnidarian: losses and gains in gene expression
Open the record for dataset details and reuse information.
Classification of a frameshift/extended and a stop mutation in WT1 as gain of function mutations which activate cell cycle genes and promote Wilms tumor cell proliferation
GEO Series GSE54635. Homo sapiens. 6 samples. Type: Expression profiling by array.
Array-based gene expression, CGH and tissue data define a 12q24 gain in neuroblastic tumors with prognostic implication
GEO Series GSE18144. Homo sapiens. 5 samples. Type: Expression profiling by array; Genome variation profiling by genome tiling array.
Accumulation of epigenetic alterations at the promoters of transcriptional regulator genes in the placentas of pregnancy cases with inadequate maternal gestational weight gain
GEO Series GSE62733. Homo sapiens. 33 samples. Type: Methylation profiling by genome tiling array.
Effects of loss and gain of KAT6B on gene expression in the developing cerebral cortex [Myst4_RNAseq]
GEO Series GSE280784. Mus musculus. 32 samples. Type: Expression profiling by high throughput sequencing.
Gain of gene regulatory network interconnectivity at the origin of vertebrates
GEO Series GSE148783. Ptychodera flava; Branchiostoma lanceolatum; Xenopus tropicalis; Danio rerio. 75 samples. Type: Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing.
Sex-dependent gene expression patterns in control and Rspo1 gain-of-function mouse adrenals
GEO Series GSE178958. Mus musculus. 16 samples. Type: Expression profiling by high throughput sequencing.
Gain-of-function ENL YEATS domain mutations impede nephrogenesis through gene expression control
GEO Series GSE283435. Mus musculus. 34 samples. Type: Expression profiling by high throughput sequencing; Other.
Gene expression profiles of adult neural stem cells with loss-of-function and gain-of-function of SIRT1
GEO Series GSE39551. Mus musculus. 8 samples. Type: Expression profiling by array.
Trichostatin A preferentially reverses the upregulation of gene expression levels induced by gain of chromosome 7 in colorectal cancer cell lines
GEO Series GSE100705. Homo sapiens. 26 samples. Type: Expression profiling by array.
Gain of gene regulatory network interconnectivity at the origin of vertebrates [RNA-seq]
GEO Series GSE148782. Branchiostoma lanceolatum; Danio rerio. 33 samples. Type: Expression profiling by high throughput sequencing.
The global gene expression profile of gain of function miR34c in osteoblast
GEO Series GSE36780. Mus musculus. 6 samples. Type: Expression profiling by array.
Imeglimin, unlike metformin, does not perturb differentiation of human induced pluripotent stem cells towards pancreatic β-like cells and rather enhances gain in β cell identity gene sets
GEO Series GSE242776. Homo sapiens. 18 samples. Type: Expression profiling by high throughput sequencing.
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Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.