Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Silene

ABSTRACT: Species belonging to the Silene Section Psammophilae Raw sequence reads

PROVIDER: PRJNA558348 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR9898700_1.fastq.gz	Fastqsanger.gz
	SRR9898700_2.fastq.gz	Fastqsanger.gz
	SRR9898710_1.fastq.gz	Fastqsanger.gz
	SRR9898710_2.fastq.gz	Fastqsanger.gz
	SRR9898720_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 48

Similar Datasets

Silene

Project description:Silene Raw sequence reads

| PRJNA390833 | ENA

Silene latifolia

Project description:Silene latifolia Raw sequence reads

| PRJNA285775 | ENA

Silene latifolia

Project description:Silene latifolia Raw sequence reads

| PRJNA960912 | ENA

High-throughput sequencing of small RNAs in Silene latifolia

2011-09-30 | GSE32469 | GEO

Silene latifolia

Project description:Silene latifolia Raw sequence reads of HiC

| PRJNA974678 | ENA

Silene latifolia

Project description:Wild Silene latifolia raw cDNA sequence reads

| PRJNA629313 | ENA

High-throughput sequencing of small RNAs in Silene latifolia

Project description:Small RNAs (21-24 nt) are pivotal regulators of gene expression that guide both transcriptional and post-transcriptional silencing mechanisms in diverse eukaryotes, including most if not all plants. MicroRNAs (miRNAs) and short interfering RNAs (siRNAs) are the two major types, both of which have a demonstrated and important role in plant development, stress responses and pathogen resistance. In this work, we used a deep sequencing approach (Sequencing-By-Synthesis, or SBS) to develop sequence resources of small RNAs from Silene latifolia tissues (including leaves, flowers and smutted flowers). The high depth of the resulting datasets enabled us to examine in detail critical small RNA features as size distribution, tissue-specific regulation and sequence conservation between different organs in this species. We also developed database resources and a dedicated website (http://smallrna.udel.edu/) with computational tools for allowing other users to identify new miRNAs or siRNAs involved in specific regulatory pathways, verify the degree of conservation of these sequences in other plant species and map small RNAs on genes or larger regions of the genome under study. Small RNA libraries were derived from female leaves, female flowers and female flowers smutted of Silene latifolia. Total RNA was isolated using the TriReagent (Molecular Research Center), and submitted to Illumina (Hayward, CA, http://www.illumina.com) for small RNA library construction using approaches described in (Lu et al., 2007) with minor modifications. The small RNA libraries were sequenced with the Sequencing-By-Synthesis (SBS) technology by Illumina. PERL scripts were designed to remove the adapter sequences and determine the abundance of each distinct small RNA. We thank Manfred Ruddat for providing the plant material as well as Kan Nobuta and Gayathri Mahalingam for assistance with the computational methods.

2011-09-29 | E-GEOD-32469 | biostudies-arrayexpress

Silene latifolia strain:U11

Project description:Silene latifolia strain:U11 Raw sequence reads

| PRJNA285459 | ENA

Silene noctiflora strain:BRP

Project description:Silene noctiflora strain:BRP Raw sequence reads

| PRJNA292993 | ENA

Silene

Project description:Gene flow analysis between Silene species

| PRJNA295359 | ENA