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1.
Full record GDS5653

Carbonyl cyanide-m-chlorophenyl hydrazone effect on Bacillus subtilis: time course

Temporal analysis of B. subtilis cultured in a defined minimal medium at pH 6.4 in batch fermentors and treated with 0.85 μM carbonyl cyanide-m-chlorophenyl hydrazone (CCCP). Results provide insight into the molecular response of food spoilage bacteria sub-lethally stressed with weak organic acids.
Organism:
Bacillus subtilis
Type:
Expression profiling by array, log2 ratio, 6 time sets
Platform:
GPL6257
Series:
GSE55051
6 Samples
Download data: TXT
DataSet
Accession:
GDS5653
ID:
5653
2.
Full record GDS5652

Potassium acetate effect on Bacillus subtilis: time course

Temporal analysis of B. subtilis cells cultured in a defined minimal medium at pH 6.4 in batch fermentors and treated with 25 mM potassium acetate (KAc). Results provide insight into the molecular response of food spoilage bacteria sub-lethally stressed with weak organic acids.
Organism:
Bacillus subtilis
Type:
Expression profiling by array, log2 ratio, 6 time sets
Platform:
GPL6257
Series:
GSE55051
6 Samples
Download data: TXT
DataSet
Accession:
GDS5652
ID:
5652
3.
Full record GDS4333

Interleukin-2 null effect on the regulatory T cell-deficient scurfy model of autoimmune disease: CD4+ T-cells

Analysis of CD4+ T cells purified from pooled peripheral lymph nodes of scurfy (Sf) mice deficient in interleukin-2. Sf.Il2-/- mice develop liver inflammation, but not inflammation of skin and lung, seen in Sf mice. Results provide insight into role of IL2 in multiorgan inflammation in Sf mice.
Organism:
Mus musculus
Type:
Expression profiling by array, count, 3 genotype/variation sets
Platform:
GPL1261
Series:
GSE23398
7 Samples
Download data: CEL
4.
Full record GDS3833

Metastatic tumor growth in gestating mice: lung and liver

Analysis of lung and liver of 16-day pregnant and virgin NOD/SCID littermates. Enhanced metastatic tumor growth is observed in gestant mice regardless of injected tumor cell type. Results provide insight into the molecular mechanisms underlying permissiveness for tumor metastasis during gestation.
Organism:
Mus musculus
Type:
Expression profiling by array, transformed count, 2 development stage, 2 tissue sets
Platform:
GPL1261
Series:
GSE18907
12 Samples
Download data: CEL
5.
Full record GDS2498

TATA-binding protein Spt15 mutant response to ethanol and glucose stress

Analysis of spt15-300 mutant grown in conditions of ethanol and glucose stress. Mutant generated by global transcription machinery engineering (gTME) and bears 3 mutations in SPT15. Results provide insight into the applicability of gTME to alter cellular eukaryotic phenotypes.
Organism:
Schizosaccharomyces pombe; Saccharomyces cerevisiae
Type:
Expression profiling by array, count, 2 strain, 2 stress sets
Platform:
GPL2529
Series:
GSE5185
12 Samples
Download data: CEL
DataSet
Accession:
GDS2498
ID:
2498
6.
Full record GDS1704

Dark-grown phytochrome phyA phyB single and double mutants

Analysis of dark-grown Col phytochrome mutants given 1 hour of white light to induce germination, followed by 3 days in darkness. Phytochromes mediate a profound developmental shift upon light exposure. Results reveal signaling network paths between photoreceptors and target developmental genes.
Organism:
Arabidopsis thaliana
Type:
Expression profiling by array, count, 4 genotype/variation sets
Platform:
GPL198
Series:
GSE3038
8 Samples
Download data
7.
Full record GDS1703

Dark-grown phytochrome and cryptochrome mutants

Analysis of dark grown Ler seedlings mutant for phytochromes A and B, or cryptochromes cry1 and cry2, or both. Results provide insight into the structure of the signaling network between the photoreceptor families and the target developmental genes that respond to light.
Organism:
Arabidopsis thaliana
Type:
Expression profiling by array, count, 4 genotype/variation sets
Platform:
GPL2598
Series:
GSE2919
4 Samples
Download data
8.
Full record GDS1702

Dark-grown phytochrome phyA phyB double mutants

Analysis of dark-grown Col phytochrome mutants given 1 hour of white light to induce germination, followed by 3 days in darkness. Phytochromes mediate a profound developmental shift upon light exposure. Results reveal signaling network paths between photoreceptors and target developmental genes.
Organism:
Arabidopsis thaliana
Type:
Expression profiling by array, count, 2 genotype/variation sets
Platform:
GPL198
Series:
GSE3002
4 Samples
Download data
9.
Full record GDS1490

Neural tissue profiling

Expression profiling of 24 neural tissues and 10 body regions from adult A/J, C57BL/6J, C3H/HeJ, DBA/2J, and 129S6/SvEvTac males. Relationship of regional gene expression in the brain to architecture and organization of the brain examined.
Organism:
Mus musculus
Type:
Expression profiling by array, count, 2 other, 5 strain, 34 tissue sets
Platform:
GPL81
Series:
GSE3594
150 Samples
Download data
10.

Whole genome DNA methylation profile of sperm cells in mammalian species

(Submitter supplied) DNA methylation in sperm is among the most important factors shaping evolution of the mammalian genome. By directly altering germline mutation rates, the DNA methylation system has shaped the CpG landscape of mammalian genomes, resulting in the CpG island phenomenon. Yet little is known about how this system itself has co-evolved with its substrate during mammalian evolution. We analyzed full-genome single-CpG DNA methylation profiles in sperm from human, chimp, gorilla, rhesus, mouse, rat and dog. more...
Organism:
Canis lupus familiaris; Gorilla gorilla; Rattus norvegicus
Type:
Methylation profiling by high throughput sequencing
Platforms:
GPL18694 GPL16540 GPL21650
12 Samples
Download data: TXT
Series
Accession:
GSE79566
ID:
200079566
11.

Intervals of unmethylated DNA spatially co-segregate in cis and in trans [WGBS]

(Submitter supplied) High order chromatin structure and DNA methylation are implicated in multiple development processes and diseases. Despite the recent developments of methods studying high order chromatin interactions, how DNA methylation is associated with high order chromatin structure is not clear. Currently, it is believed that the insulator protein CTCF binding is blocked by DNA methylation, occurring in its core binding site. more...
Organism:
Homo sapiens
Type:
Methylation profiling by high throughput sequencing
Platform:
GPL18573
1 Sample
Download data: BED
Series
Accession:
GSE107024
ID:
200107024
12.

Haploid embryonic stem cells

(Submitter supplied) Mammalian haploid embryonic stem cells (haESCs) provide new possibilities for large-scale genetic screens because they bear only one copy of each chromosome. However, haESCs are prone to spontaneous diploidization through unknown mechanisms. Here, we report that a small molecule combination could restrain mouse haESCs from diploidization by impeding exit from naïve pluripotency and by shortening the S-G2/M phases. more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL17021
4 Samples
Download data: TXT
Series
Accession:
GSE104519
ID:
200104519
13.

Ebola virus glycoprotein variant with increased infectivity for human cells dominated the 2013-2016 outbreak

(Submitter supplied) The unprecedented magnitude of the 2013-2016 Makona Ebola virus (M-EBOV) epidemic likely resulted from multiple epidemiologic factors that set it apart from previous outbreaks. Nonetheless, genetic adaptations that distinguish M-EBOV from previous isolates may also have contributed to the scale of the epidemic. Of particular interest is a M-EBOV glycoprotein (GP) variant, GP-A82V, that was first detected at the inflection point of the 2013-2016 outbreak - when the number of cases increased exponentially - and which completely supplanted the earlier M-EBOV sequence. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL18573
26 Samples
Download data: TSV
Series
Accession:
GSE84865
ID:
200084865
14.

Exosomal microRNAs in the giant panda (Ailuropoda melanoleuca) breast milk: the potential maternal regulators for the development of newborn cubs

(Submitter supplied) Purpose:To present the miRNA expression profiles in giant panda milk exosomes across five lactation stages (0, 3, 7, 15 and 30 days after birth), aiming to provide new information for investigations into the physiological functions of the giant panda milk Methods: Three females were sampled in all, and each individual were sampled over multiple lactations, including 0, 3, 7, 15 and 30 days after delivery. more...
Organism:
Ailuropoda melanoleuca; Bambusa vulgaris
Type:
Non-coding RNA profiling by high throughput sequencing
Platforms:
GPL22660 GPL22661
8 Samples
Download data: XLSX
Series
Accession:
GSE89755
ID:
200089755
15.

Deciphering the Regulatory Network between the SREBP pathway and Protein Secretion in Neurospora crassa

(Submitter supplied) Sterol Regulatory Element Binding Proteins (SREBPs) are conserved from yeast to mammalian cells and function in regulating sterol homeostasis. In fungi, the SREBP pathway has been implicated in the adaptation to hypoxia and in virulence. In Neurospora crassa and Trichoderma reesei, the SREBP pathway also negatively regulates protein secretion under lignocellulolytic conditions. Here we utilized global transcriptional profiling combined with genetic and physiological analyses to address the regulatory link between the SREBP pathway and protein secretion in N. more...
Organism:
Neurospora crassa
Type:
Expression profiling by high throughput sequencing
Platform:
GPL23150
12 Samples
Download data: FPKM_TRACKING
Series
Accession:
GSE95807
ID:
200095807
16.

Identification of transcriptomic drivers of squamous cell carcinoma development through a preneoplastic intermediate [human RNA-Seq]

(Submitter supplied) Cutaneous squamous cell carcinoma (cuSCC) comprises 15-20% of all skin cancers, accounting for over 700,000 cases in the U.S. annually. Most cuSCC arise in association with a distinct precancerous lesion, the actinic keratosis (AK). In order to identify potential targets for molecularly targeted chemoprevention, we performed integrated cross-species genomic analysis of cuSCC development through the preneoplastic AK stage using matched human samples and a solar UV-driven Hairless mouse model. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL11154
26 Samples
Download data: TXT
Series
Accession:
GSE84293
ID:
200084293
17.

Identification of transcriptomic drivers of squamous cell carcinoma development through a preneoplastic intermediate [human miRNA-Seq]

(Submitter supplied) Cutaneous squamous cell carcinoma (cuSCC) comprises 15-20% of all skin cancers, accounting for over 700,000 cases in the U.S. annually. Most cuSCC arise in association with a distinct precancerous lesion, the actinic keratosis (AK). In order to identify potential targets for molecularly targeted chemoprevention, we performed integrated cross-species genomic analysis of cuSCC development through the preneoplastic AK stage using matched human samples and a solar UV-driven Hairless mouse model. more...
Organism:
Homo sapiens
Type:
Non-coding RNA profiling by high throughput sequencing
Platform:
GPL9115
27 Samples
Download data: TXT
Series
Accession:
GSE84193
ID:
200084193
18.

Identification of transcriptomic drivers of squamous cell carcinoma development through a preneoplastic intermediate [mouse miRNA-Seq]

(Submitter supplied) Cutaneous squamous cell carcinoma (cuSCC) comprises 15-20% of all skin cancers, accounting for over 700,000 cases in the U.S. annually. Most cuSCC arise in association with a distinct precancerous lesion, the actinic keratosis (AK). In order to identify potential targets for molecularly targeted chemoprevention, we performed integrated cross-species genomic analysis of cuSCC development through the preneoplastic AK stage using matched human samples and a solar UV-driven Hairless mouse model. more...
Organism:
Mus musculus
Type:
Non-coding RNA profiling by high throughput sequencing
Platform:
GPL9250
18 Samples
Download data: TXT
Series
Accession:
GSE84192
ID:
200084192
19.

Trithorax-group protein ASH1 defines novel H3K36me3/H3K9me3 bivalent domains

(Submitter supplied) A Trithorax-group (TrxG) protein ASH1 selectively dimethylates histone H3 lysine 36 (H3K36) and is required for expression of Hox genes. Genome-wide targets and molecular functions of ASH1, however, have remained elusive. Here we report ChIP-seq analysis of ASH1 targets in the human genome using a leukemia cell line K562. We identified 4,596 ASH1 binding sites, 2,502 of which are in the coding region, mostly in a proximity of promoters. more...
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL10999
2 Samples
Download data: BED, WIG
Series
Accession:
GSE76145
ID:
200076145
20.

A developmental coordinate of the spectrum of pluripotency among mice, monkeys, and humans

(Submitter supplied) The epiblast (EPI) is the origin of all somatic and germ cells in mammals, and of the spectrum of pluripotent stem cells (PSCs) in vitro. To explore the ontogeny of human/primate pluripotency, we performed comprehensive single-cell RNA sequencing for pre- and post-implantation EPI development in cynomolgus monkeys. Here we show that after specification in the blastocysts [embryonic day (E)7], cyEPI undergoes major transcriptome changes upon implantation. more...
Organism:
Macaca fascicularis; Mus musculus
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL19944 GPL15907
492 Samples
Download data: TXT
Series
Accession:
GSE74767
ID:
200074767
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