GEO DataSets

(Submitter supplied) As an ancient jawless vertebrate species, the lamprey offers an important model to probe the evolutionary history of retinal cells. In this study, we generated a cell atlas of the adult sea lamprey retina using single-cell RNA sequencing

Organism:

Petromyzon marinus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL27508

2 Samples

Download data: MTX, TSV

(Submitter supplied) he neural crest is an embryonic stem cell population unique to vertebrates whose expansion and diversification are thought to have promoted vertebrate evolution by enabling emergence of novel cell types and structures like jaws and peripheral ganglia2. While basal vertebrates have sensory ganglia, convention has it that trunk sympathetic chain ganglia arose only in jawed vertebrates. In contrast, here we report the presence of trunk sympathetic neurons in the sea lamprey, Petromyzon marinus, an extant jawless vertebrate. more...

Organism:

Petromyzon marinus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24751

6 Samples

Download data: TSV

(Submitter supplied) Maternal to paternal epigenome reprogramming during early sea lamprey (Petromyzon marinus) development

Organism:

Petromyzon marinus

Type:

Methylation profiling by high throughput sequencing

Platform:

GPL32929

14 Samples

Download data: BEDGRAPH

(Submitter supplied) Maternal to paternal epigenome reprogramming during early sea lamprey (Petromyzon marinus) development

Organism:

Petromyzon marinus

Type:

Methylation profiling by high throughput sequencing

Platform:

GPL27508

17 Samples

Download data: BW, NARROWPEAK

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Petromyzon marinus

Type:

Methylation profiling by high throughput sequencing

Platforms:

GPL32929 GPL27508

31 Samples

Download data: BEDGRAPH, BW, NARROWPEAK

(Submitter supplied) The human transcription factor (TF) CGGBP1 (“CGG Binding Protein”) is conserved only in amniotes, and is believed to derive from the zf-BED and Hermes transposase DNA-binding domains (DBDs) of a hAT DNA transposon. Here, we examine the DNA binding preferences of a wide variety of metazoan CGGBP1-like TFs with this bipartite domain using PBM experiments. The derived motifs are available at ...

Organism:

Petromyzon marinus; Acipenser ruthenus; Gallus gallus; Erpetoichthys calabaricus; Rhizophagus irregularis; Paramormyrops kingsleyae; Acyrthosiphon pisum; Salmo salar; Fundulus heteroclitus; Sparus aurata; Chrysemys picta; Austrofundulus limnaeus; Anabas testudineus; Amphiprion percula; Salarias fasciatus; Aedes aegypti; Culex quinquefasciatus; Latimeria chalumnae; Cyprinus carpio; synthetic construct; Hucho hucho; Amphiprion ocellaris; Labeo rohita; Mola mola; Sphaeramia orbicularis; Anabarilius grahami; Locusta migratoria; Crocodylus porosus; Homo sapiens; Rhodnius prolixus; Rhipicephalus appendiculatus; Kryptolebias marmoratus; Nematostella vectensis; Acanthochromis polyacanthus; Hippocampus comes; Hofstenia miamia

Type:

Other

Platform:

GPL11260

258 Samples

Download data: TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Petromyzon marinus

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL27509 GPL27508

16 Samples

Download data

(Submitter supplied) We have previously shown that GABA ainhibits caspase activation and promote axon regeneration in descending neurons of the sea lamprey brainstem after a complete spinal cord injury. Here, we repeated this treatment and performed Illumina RNA sequencing studies in the brainstems of control and GABA treated animals.

Organism:

Petromyzon marinus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL27509

6 Samples

Download data: TXT

(Submitter supplied) We have previously shown that baclofen treatments inhibit caspase activation and promote axon regeneration in descending neurons of the sea lamprey brainstem after a complete spinal cord injury. Here, we repeated this treatment and performed Illumina RNA sequencing studies in the brainstems of control and baclofen treated animals.

Organism:

Petromyzon marinus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL27508

10 Samples

Download data: TXT

(Submitter supplied) The neural crest is an embryonic cell population that contributes to key vertebrate-specific features including the craniofacial skeleton and peripheral nervous system. Here we examine the transcriptional profiles and chromatin accessibility of neural crest cells in the basal sea lamprey, in order to gain insight into the ancestral state of the neural crest gene regulatory network (GRN) at the dawn of vertebrates. more...

Organism:

Petromyzon marinus; Lampetra planeri

Type:

Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL24750 GPL24752 GPL24751

28 Samples

Download data: BED, FA, GTF, TXT

(Submitter supplied) We sequenced at mRNA level in adult hearts of zebrafish, pamprey and sea squirt. Combined with other 11 vertebrate heart RNA-Seq data online, we conducted comprehensive evolutionary genomic analyses to address the contribution of gene/genome duplications on heart structure evolution. We observed that number of duplicate genes expressed in heart increased gradually with the increase of heart chamber number along the vertebrate phylogeny, despite that most of them were duplicated at the time near to the origin of vertebrates or more ancient. more...

Organism:

Ciona intestinalis; Petromyzon marinus; Danio rerio

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL14875 GPL20963 GPL20962

3 Samples

Download data: FPKM_TRACKING

(Submitter supplied) The lamprey is a vertebrate that, unlike mammals, achieves spontaneous recovery after spinal cord transection. Despite anatomical, physiological, and behavioral data on spinal cord regeneration in lamprey, the molecular mechanisms underlying this capacity are largely unknown. To address this, we used RNA-Seq to obtain transcriptional profiles from uninjured animals and at 10 time points ranging from 6 hours to 12 weeks post injury. more...

Organism:

Petromyzon marinus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20963

22 Samples

Download data: TXT

(Submitter supplied) This project is designed to measure changes in gene expression during sea lamprey development and in the adult germline

Organism:

Petromyzon marinus

Type:

Expression profiling by array

Platform:

GPL21249

21 Samples

Download data: TXT

(Submitter supplied) This project is designed to measure changes in gene expression during sea lamprey development

Organism:

Petromyzon marinus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20963

6 Samples

Download data: FA, TXT

(Submitter supplied) DNA was isolated from tissues (blood, sperm, or liver). DNA from different tissues from the same organism were labeled with alternate fluorophores (Cy3 or Cy5) and hybridized to a custom array that was designed from lamprey (Petromyzon marinus) genomic sequence.

Organism:

Petromyzon marinus

Type:

Genome variation profiling by genome tiling array

Platform:

GPL10847

6 Samples

Download data: PAIR

(Submitter supplied) To determine gene expression differences in the olfactory epithelium of sea lamprey between sequential yet behaviorally distinct adult life history stages

Organism:

Petromyzon marinus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL11029

2 Samples

Download data: TXT

(Submitter supplied) MicroRNAs are small non-coding RNAs that regulate a variety of biological processes. In the last version of the miRBase database (Release 17), 720 mouse microRNAs are accompanied by only 408 rat microRNAs. Given the importance of rat as a model organism, we used next generation sequencing and microarray technologies to discover novel microRNAs in rat kidneys.

Organism:

Petromyzon marinus; Xenopus tropicalis; Ateles geoffroyi; Symphalangus syndactylus; Homo sapiens; Sus scrofa; Bos taurus; Mus musculus; Tetraodon nigroviridis; Xenopus laevis; Macaca nemestrina; Canis lupus familiaris; Rattus norvegicus; Takifugu rubripes; Rhinopithecus bieti; Saguinus labiatus; Danio rerio; Gallus gallus; Ornithorhynchus anatinus; Macaca mulatta; Pan paniscus; Equus caballus; Oryzias latipes; Pan troglodytes; Pongo pygmaeus; Ovis aries; Taeniopygia guttata

Type:

Non-coding RNA profiling by array

Platform:

GPL14819

6 Samples

Download data: TXT