Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Graphene-soil

ABSTRACT: graphene-soil Raw sequence reads

PROVIDER: PRJNA1137143 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR29875100_1.fastq.gz	Fastqsanger.gz
	SRR29875100_2.fastq.gz	Fastqsanger.gz
	SRR29875101_1.fastq.gz	Fastqsanger.gz
	SRR29875101_2.fastq.gz	Fastqsanger.gz
	SRR29875102_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 36

Similar Datasets

RNA-Seq Analysis to confirm Different Transcriptomic Profiles of Soil-Derived Functional Module Consortia.

Project description:Purpose: Deconstructing the soil microbiome into reduced-complexity functional modules represents a novel method of microbiome analysis. The goals of this study are to confirm differences in transcriptomic patterns among five functional module consortia. Methods: mRNA profiles of 3 replicates each of functional module enrichments of soil inoculum in M9 media with either 1) xylose, 2) n-acetylglucosamine, 3) glucose and gentamycin, 4) xylan, or 5) pectin were generated by sequencing using an Illumina platform (GENEWIZ performed sequencing). Sequence reads that passed quality filters were aligned to a soil metagenome using Burrows Wheeler Aligner. Resulting SAM files were converted to raw reads using HTSeq, and annotated using Uniref90 or EGGNOG databases. Results: To reduce the size of the RNA-Seq counts table and increase its computational tractability, transcripts containing a minimum of 75 total counts, but no more than 3 zero counts, across the 15 samples were removed. The subsequent dataset was normalized using DESeq2, resulting in a dataset consisting of 6947 unique transcripts across the 15 samples, and 185,920,068 reads. We identified gene categories that were enriched in a sample type relative to the overall dataset using Fisher’s exact test. Conclusions: our dataset confirms that the functional module consortia generated from targeted enrichments of a starting soil inoculum had distinct functional trends by enrichment type.

2020-01-14 | GSE143587 | GEO

Microbes in sewage treated with graphene oxide

Project description:Microbes in sewage treated with graphene oxide Raw sequence reads

| PRJNA873880 | ENA

Morus alba Raw protein sequence reads

Project description:Morus alba L. Raw protein sequence reads and sequence

2024-02-08 | PXD049451 |

A transcriptomic overview of lung and liver changes one day after pulmonary exposure to graphene and graphene oxide

Project description:This study investigates transcriptomic differences in the lung and liver after pulmonary exposure to two Graphene based materials with similar physical properties, but different surface chemistry. Female C57BL/6 mouse were exposed by a single intratracheal instillation of 0, 18, 54 or 162 μg/mouse of graphene oxide (GO) or reduced graphene oxide (rGO). Pulmonary and hepatic transcriptional changes were compared to identify commonly and uniquely perturbed functions and pathways by GO and rGO. These changes were then related to previously analyzed endpoints. GO exposure induced more differentially expressed genes, affected more functions, and perturbed more pathways compared to rGO, both in the lung and liver.

2020-10-21 | GSE159707 | GEO

Extremely low frequency electromagnetic fields enhance neuronal differentiation of human mesenchymal stem cells on graphene-based substrate

Project description:Graphene-based substrate has efficient neuronal differentiation of hMSCs. Stimulatory effects of graphene on hMSCs neurogenesis can be enhanced by ELF-EMF exposure and it is mediated by enhancement of cell adhesion accompanied by intracellular signal pathway. We used microarrays to assess up-regulated genes in human gene expression profiles during neurogenesis induced by ELF-EMF exposure on graphene. 3 groups (HMSCs grown in neuronal medium on glass, graphene, graphene under ELF-EMF exposure) were selected for RNA extraction and hybridization on Affymetrix microarrays. We sought to obtain total human gene expression. To that end, we hand-selected up-regulated gene involved in neurogenesis, extracellular matrix, and cell migration.

2014-12-23 | E-GEOD-64416 | biostudies-arrayexpress

The bacterial toxicity effect of HA on graphene

Project description:The bacterial toxicity effect and mechanism of HA on graphene

2025-05-07 | PXD056079 | Pride

Extremely low frequency electromagnetic fields enhance neuronal differentiation of human mesenchymal stem cells on graphene-based substrate

2014-12-23 | GSE64416 | GEO

Bulk RNA sequencing data of rice roots protoplasted for 2.5 hours and 3 hours, as well as rice roots grown in gel, non-compacted soil and compacted soil conditions

Project description:We report raw bulk RNA sequencing data rice roots (X.kitaake) protoplasted for 2.5 hours and 3 hours to eliminate the effects of protoplasting duration on our scRNA-seq analysis, as well as rice roots grown in gel, non-compacted soil and compacted soil conditions to verify our findsing with scRNA-seq studies

2024-12-08 | GSE283428 | GEO

Amplicon data of Marine microbial communities under graphene oxide exposure

Project description:Amplicon data of Marine microbial communities under graphene oxide exposure Raw sequence reads

| PRJNA1149503 | ENA

Bacteria of aquatic environments treated with amino-functionalized graphene oxide

Project description:Bacteria of aquatic environments treated with amino-functionalized graphene oxide Raw sequence reads

| PRJNA1028393 | ENA