GEO DataSets

Various C blastomere mutant embryos analyzed to deconvolve C blastomere lineage-specific expression patterns specified by the PAL-1 homeodomain protein. Embryonic tissue examined at various time points from the 4-cell stage (0 minutes) to 186 minutes.

Organism:

Caenorhabditis elegans

Type:

Expression profiling by array, transformed count, 4 genotype/variation, 10 time sets

Platform:

GPL200

Series:

GSE2180

123 Samples

Download data: CEL, EXP

(Submitter supplied) This series of samples comprises multiple early embryonic time courses for C. elegans. Time courses consisting of 10 time points each for 4 different genotypes are included: wild-type (strain N2 grown on E. coli strain OP50), pie-1(zu154) (progeny of homozygous mutant mothers [Unc] of strain JJ532 grown on E. coli strain OP50), pie-1(zu154);pal-1(RNAi) (progeny of homozygous mutant mothers [Unc] of strain JJ532 grown on E. more...

Organism:

Caenorhabditis elegans

Type:

Expression profiling by array

Dataset:

GDS1319

Platform:

GPL200

123 Samples

Download data: CEL, EXP

(Submitter supplied) By collecting and processing individual embryonic cells from sequentially older embryos we have generated the first single cell transcriptome dataset describing embryogenesis from the fertilizaed zygote through to the penultimate cell division for most founder cell lines.

Organism:

Caenorhabditis elegans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18245

2281 Samples

Download data: GFF3, TXT

(Submitter supplied) The pha-4 locus encodes a forkhead box A (FoxA/HNF3) transcription factor homolog that specifies organ identity for Caenorhabditis elegans pharyngeal cells. We used microarrays to identify pharyngeal genes and analyzed those genes to determine which were direct PHA-4 targets. Our data suggest that PHA-4 directly activates most or all pharyngeal genes. Furthermore, the relative affinity of PHA-4 for different TRTTKRY (R = A/G, K = T/G, Y = T/C) elements modulates the onset of gene expression, providing a mechanism to activate pharyngeal genes at different developmental stages. more...

Organism:

Caenorhabditis elegans

Type:

Expression profiling by array

Platforms:

GPL3177 GPL3178

3 Samples

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(Submitter supplied) These experiments were undertaken with the goal of identifying genes whose expression is enriched in or restricted to the sensory rays of the C. elegans male tail. We constructed two mutant strains in which ray development is either compromised (EM672) or enhanced (EM673), and harvested mRNA from adult males. Labeled cDNAs were compared on seven arrays (representing three different sets of mRNA preps). more...

Organism:

Caenorhabditis elegans

Type:

Expression profiling by array

Platforms:

GPL3309 GPL2646 GPL3308

7 Samples

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(Submitter supplied) Transcriptional profiling of early C. elegans embryos comparing control (N2) embryos with mes-2 mutant embryos at different developmental stages: 2E (24-40 cells), 4E (50-90 cells) and 8E stage (100-200 cells). Goal was to determine the effects of mes-2 loss on global gene expression as embryos transit from a developmentally plastic state (2E stage) to the onset of differentiation (8E stage). Our microarray data showed that early-expressed genes remain active, differentiation genes fail to reach wild-type levels in mes-2 mutant embryos at the 8E stage.

Organism:

Caenorhabditis elegans

Type:

Expression profiling by array

Platforms:

GPL8209 GPL7272

21 Samples

Download data: TXT

(Submitter supplied) We sequenced amplified mRNA from 20 pooled AB and 20 pooled P1 blastomeres hand isolated from 2-cell stage C. elegans embryos three replicates each.

Organism:

Caenorhabditis elegans

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL13657 GPL9269

6 Samples

Download data: TXT, WIG

(Submitter supplied) Biological networks are inherently modular, yet little is known about how modules are assembled to enable coordinated and complex functions. We used RNAi and time-series, whole-genome microarray analyses to systematically perturb and characterize components of a C. elegans lineage-specific transcriptional regulatory network. These data are supported by select reporter gene analyses and comprehensive yeast-one-hybrid and promoter sequence analyses. more...

Organism:

Caenorhabditis elegans

Type:

Expression profiling by array

Platform:

GPL200

74 Samples

Download data: CEL

(Submitter supplied) A prevalent hypothesis for the cell-to-cell coordination of the phenomena of early development is that a defined mixture of different mRNA species at specific abundances in each cell determines fate and behavior. With this dataset we explore this hypothesis by quantifying the abundance of every mRNA species in every individual cell of the early C. elegans embryo, for which the exact life history and fate is precisely documented.

Organism:

Caenorhabditis elegans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18245

219 Samples

Download data: BED, TXT

(Submitter supplied) Combinatorial action of transcription factors(TFs) with partially-overlapping expression is a widespreadstrategyto generate novel gene-expression patternsand thuscellular diversity. Known mechanisms underlying combinatorialactivityrequireco-expression of TFswithin the same cell. Here, we describe themechanismby which twoTFsthat are never co-expressed, generate a new, intersectional expression pattern in C. more...

Organism:

Caenorhabditis elegans

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL27998 GPL18245

38 Samples

Download data: BW

(Submitter supplied) Cellular differentiation requires both activation of target cell programs and repression of non-target cell programs. Transcriptional repressors such as RE1-silencing transcription factor (REST) and Hairy/Enhancer of Split (Hes) repress neuronal genes in non-neuronal cells. However, it is unknown whether transcriptional repressors of non-neuronal genes in neuronal precursors are required to specify neuronal fate during development. more...

Organism:

Caenorhabditis elegans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL22765

8 Samples

Download data: TXT, XLSX

(Submitter supplied) We sequence the transcriptomes of 86,024 single cells from C. elegans embryos, spanning from gastrulation to the beginning of cuticle synthesis. We identify the lineage (from the invariant C. elegans cell lineage) and approximate developmental age of each cell in the single cell data. Using these annotations, we investigate the competing influences of cell lineage and cell fate on gene expression.

Organism:

Caenorhabditis elegans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19757

8 Samples

Download data: CSV, TSV, TXT