GEO DataSets

(Submitter supplied) MicroRNAs (miRNAs) are small non-coding RNAs between 18-23nts in size which regulate the translation and stability of target mRNAs. miRNAs are present in dietary plants and are conventionally thought to be degraded during the gastrointestinal digestion process. Recent reports suggest that a few dietary microRNAs may exhibit resistance to this process, enter systemic circulation and exert biological effects on animal physiology, currently known as cross-kingdom regulation. more...

Organism:

Glycine max; Allium sativum; Curcuma longa; Emblica officinalis

Type:

Non-coding RNA profiling by high throughput sequencing

4 related Platforms

8 Samples

Download data: XLSX

(Submitter supplied) Genomic analyses have redefined the molecular subgrouping of pediatric acute lymphoblastic leukemia (ALL). Molecular subgroups guide risk-stratification and targeted therapies, but outcomes of recently identified subtypes are often unclear, owing to limited cases with comprehensive profiling and cross-protocol studies. We developed a machine learning tool (ALLIUM) for the molecular subclassification of ALL in retrospective cohorts as well as for up-front diagnostics. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

4 related Platforms

340 Samples

Download data: TXT

(Submitter supplied) Allium sativum (garlic) is considered the source of the diverse beneficial effects on thrombosis, heart disease, diabetes, nerve disorders and cancer, as well as being circulatory strengthening. We describe the global changes in transcriptomic activity from a short period of using a moderate amount of fresh garlic and its potential link to some of the beneficial effects.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL23126

20 Samples

Download data: CEL

(Submitter supplied) To explore the clove enlarging growth-related genes, we compared the transcriptome of bulbs whose cloves are before enlargement and under enlarging-growth, respectively, using three garlic accessions, Chalingzipisuan, Ershuizao, and Yuanjiangyangsuan. Consequently, 4,658 genes were identified with a differential expression in at least two of three examined accessions.

Organism:

Allium sativum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23856

18 Samples

Download data: XLS

(Submitter supplied) In malignant hypertension, far more severe kidney injury occurs than in the “benign” form of the disease. The role of high blood pressure and the renin-angiotensin-aldosterone system are well recognized, but the development of malignant nephrosclerosis remains incompletely understood. Using the rat model of two-kidney, one-clip renovascular hypertension in which some but not all animals develop malignant nephrosclerosis, we performed an unbiased analysis of genes by RNA-sequencing to identify transcriptional changes in the kidney specific for malignant nephrosclerosis. more...

Organism:

Rattus norvegicus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18694

16 Samples

Download data: TXT

(Submitter supplied) We show here the transcriptional response in CMT-93 intestinal epithelial cells treated with Trichuris muris antigen and/or a garlic extract (40% PTSO-PTS).

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24247

12 Samples

Download data: XLSX

(Submitter supplied) We show here the transcriptional response in caecum tissue of mice infected with Trichuris muris for 35 days and given either garlic extract treatment or control treatment.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24247

19 Samples

Download data: XLSX

(Submitter supplied) We show here the transcriptional response in RAW 264.7 macrophages treated with LPS and/or a garlic extract (PTSO)

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24247

12 Samples

Download data: XLSX

(Submitter supplied) A total of 84 diverse germplasms collected from 13 countries were performed for population transcriptomic analysis. Then, Pearson’s correlation analysis was performed between four bulb traits and FPKM values of each gene in 84 accession, thereby to identify genes with an expressed association with bulb traits.

Organism:

Allium sativum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23856

84 Samples

Download data: XLSX

(Submitter supplied) To explore the influence of virus-accumulation on garlic growth, we produced a virus-free garlic using the landrace “Chalingzipisuan” with great accumulation of viruses, based on the shoot-tip culture. Then, using the viruses-accumulated garlic and corresponding virus-free garlic, we performed a transcriptomic investigation for the enlarging-growth bulbs, and identified 1,182 garlic genes with differential expression, suggesting these genes involved in the response to viruses-infection

Organism:

Allium sativum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23856

6 Samples

Download data: XLSX

(Submitter supplied) The garlic landrace of ‘Chalingzipisuan’ was used for transcriptome analysis. The axillary bud of garlic is at the base of clove, whereas the storage leaf at the upper clove provides essential nutrition for the germination and seedling growth. Therefore, the basal and storage clove were ere separately performed for RNA sequencing from the bulbs under three different developmental stages (i.e., enlarging growth, dormancy, and germination), generating in total 77-85 million reads.

Organism:

Allium sativum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23856

18 Samples

Download data: TXT

(Submitter supplied) Background: Human intestinal tissue samples are barely accessible to study potential health benefits of nutritional compounds. Numbers of animals used in animal trials, however, need to be minimalized. Therefore, in this study we explored the applicability of an in vitro model, namely human intestinal Caco-2 cells, to study the effect of food compounds on (intestinal) health. In vitro digested yellow (YOd) and white onion extracts (WOd) were used as model food compounds and transcriptomics was applied to obtain more insight into their mode of actions in the intestinal cells. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL11532

15 Samples

Download data: CEL

(Submitter supplied) Explore the underlying mechanisms-of-action of the essential oils diet in the skin of gilthead seabream.

Organism:

Sparus aurata

Type:

Expression profiling by array

Platform:

GPL13442

6 Samples

Download data: TXT

(Submitter supplied) Explore the underlying mechanisms-of-action of the essential oils diet in the intestine of gilthead seabream.

Organism:

Sparus aurata

Type:

Expression profiling by array

Platform:

GPL13442

6 Samples

Download data: TXT

(Submitter supplied) Explore the underlying mechanisms-of-action of the essential oils diet in gills of gilthead seabream.

Organism:

Sparus aurata

Type:

Expression profiling by array

Platform:

GPL13442

6 Samples

Download data: TXT

(Submitter supplied) The capability of the U.S. Food and Drug Administration Enteric Viruses tiling microarray (FDA-EVIR) was assessed for rapid molecular identification of human norovirus (NoV) and hepatitis A virus (HAV) extracted from artificially inoculated fresh produce. Two published viral extraction strategies, total RNA extraction or virus particle isolation, were employed to prepare the viral targets. We also assessed the amount of viral RNA extracted from celery by three commercially-available kits and how well that RNA performed on the FDA-EVIR. more...

Organism:

Rotavirus; Paslahepevirus balayani; Allium fistulosum; Bacillus subtilis; unidentified adenovirus; Hepatovirus A; Astrovirus sp.; Apium graveolens; Solanum lycopersicum; Coxsackievirus; Sapovirus; Norovirus

Type:

Expression profiling by genome tiling array

Platform:

GPL27751

17 Samples

Download data: CEL

(Submitter supplied) To characterize the expression of 58219 genes annotated from garlic genome, the transcriptomes of seven tissues (including garlic sprouts, shoots, bulbs, flowers, roots, pesudostems, and leaves) were sequenced, and finally identified 45,750 genes expressed in various tissues investigated. In addition, the bulbs-transcriptomes in the eight stages of bulbs-development were sequenced, resulting in 6,234 genes isentified to show dynamic expression changes in the bulbs-developmental process.

Organism:

Allium sativum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23856

42 Samples

Download data: FASTA, XLSX

(Submitter supplied) RNA-sequencing of Hordeum vulgare cv. Ingrid wild type and Hvmlo1-5 mutant in non-mycorrhizal (control) and mycorrhizal roots at 17 days post inoculation (dpi) and 26 dpi.

Organism:

Hordeum vulgare

Type:

Expression profiling by high throughput sequencing

Platform:

GPL22077

24 Samples

Download data: TSV

(Submitter supplied) The mads-box mutant line showed an abscisic acid (ABA)-insensitive phenotype. The AGAMOUS-LIKE 67 (AT1G77950) gene encodes a transcription factor that is nuclear-localized, as observed by transiently transformed epidermal onion cells, specifically expressed in seeds and involved in an ABA signaling pathway during seed germination (Fernández-Arbaizar et al. 2012). SALK_050367 seeds were obtained from the Arabidopsis Biological Resource Center, ABRC.

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL198

6 Samples

Download data: CEL, PDF, TXT

(Submitter supplied) Garlic is a popular flavor enhancer in modern cuisines. Although anti-atherosclerotic, anti-proliferative, hypolipidemic and chemopreventative effects of garlic are known for a long time, the mechanisms of garlic as a dietary supplement ramain largely unknown. We used microarrays to analyze the global programme of gene expression in the liver tissues of control (cellulose) and garlic-fed C57BL/6J mice maintained at an SPF (Specific Pathogen Free) facility.

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL1261

6 Samples

Download data: CEL