Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

PacBio Iso-seq transcriptomic analysis of Switchgrass

ABSTRACT: Revealing the Transcriptomic Complexity of Switchgrass by PacBio Long-Read Sequencing

PROVIDER: PRJEB26981 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	ERR2598877_subreads.fastq.gz	Fastqsanger.gz
	ERR2598878_subreads.fastq.gz	Fastqsanger.gz
	ERR2598879_subreads.fastq.gz	Fastqsanger.gz

Items per page:

1 - 3 of 3

Similar Datasets

PacBio Iso-seq sequencing of switchgrass transcriptome

Project description:Revealing the Transcriptomic Complexity of Switchgrass by PacBio Long-Read Sequencing

| PRJEB26977 | ENA

Project description:Revealing the Transcriptomic Complexity of Switchgrass by PacBio Long-Read Sequencing

| PRJEB25632 | ENA

Reference Short-Read Transcriptomes of Human Peripheral Blood Lymphocytes (Illumina RNA-Seq, Matched to PacBio Iso-Seq Data)

2022-09-16 | GSE202328 | GEO

Reference Long-Read Transcriptomes of Human Peripheral Blood Lymphocytes (PacBio Iso-Seq, Matched to Illumina RNA-Seq Data)

2022-09-16 | GSE202327 | GEO

Reference Short-Read Transcriptomes of Activated Human CD4 T cells (Illumina RNA-Seq, Matched to PacBio Iso-Seq Data)

Project description:Long-read sequencing technologies such as Iso-Seq (PacBio Inc.) generate highly accurate sequences of full-length mRNA transcript isoforms. Long-read transcriptomics may be especially useful in the context of T cell functional plasticity as it relates to human health and disease. However, To our knowledge, no long-read transcriptome reference exists for activated human CD4 T cells. To begin to fill this gap, we purified CD4 T cells from the peripheral blood of a healthy female donor and activated these cells with anti-CD3/CD28 beads to generate populations of early activated (4hr), mid-activated (16hr), blasting (48hr) and proliferating (120hr) CD4 T cells. From each of these time points, we obtained high-quality RNA (RIN>9) for PacBio Iso-Seq analysis and parallel RNA-Seq analysis, which we hope will serve as a reference for future transcriptomic studies of these populations. UCSC genome browser tracks for these samples can be accessed at: http://genome.ucsc.edu/cgi-bin/hgHubConnect?hgHub_do_redirect=on&hgHubConnect.remakeTrackHub=on&hgHub_do_firstDb=on&position=chr1:206,903,317-206,921,941&hubUrl=http://162.215.210.70/~tracks/Mitchell_IsoSeq_Stim/hub.txt

2025-02-12 | GSE229969 | GEO

Pacbio long read Iso-sequencing is performed to acquire a high-precision transcription landscape after STAMBPL1 knockingdown in Huh7 cells（Long-read）

Project description:STAMBPL1 plays a previously unappreciated role in post-transcriptional regulation, especially in RNA splicing pathways. Thus, PacBio long-read iso-sequencing was performed to acquire a high-precision transcription landscape after STAMBPL1 knockingdown in Huh7 cells

2024-09-11 | GSE276508 | GEO

Reference Long-read Isoform-aware Transcriptomes of Activated Human CD4 T cells (PacBio Iso-Seq, matched to Illumina RNA-Seq Data)

2025-02-12 | GSE229971 | GEO

PacBio Iso-Seq transcriptome sequencing data of multiplexed maize cDNA

Project description:Full-Length cDNA transcriptome (Iso-Seq) data sequenced on the PacBio Sequel system using 2.1 chemistry. Multiplexed cDNA library of 12 samples (3 tissues x 4 strains). Tissues: root, embryo, endosperm. Strains: B73, Ki11, B73xKi11, Ki11xB73.

2020-02-25 | E-MTAB-7837 | biostudies-arrayexpress

Pacbio Hifi sequencing of a naked mole-rat male subordinate kidney sample

Project description:Two PacBio Hifi sequencing runs from the kidney of a single male NMR sample used to make the mHetGla4.1.primary genome assembly. Specifically, we assembled a second NMR genome from an unrelated male of a separate captive colony in Toronto, Canada, using PacBio HiFi (155.8 Gb, read N50 = 11.45 Kb) and ONT-LSK (299.6 Gb, read N50 = 10.1 Kb) reads (contig N50 = 75.7 Mb, Compleasm S = 98%). This accession stores the Pacbio Hifi data for this independent assembly.

2026-08-05 | E-MTAB-17313 | biostudies-arrayexpress

PacBio Iso-seq of Lupinus angustifolius L. leaf and stem transcriptomes

Project description:The aim of this experiment was to obtain full length transcript sequences of genes expressed in leaves and stems of narrow-leafed lupin (Lupinus angustifolius L.) using PacBio Iso-Seq. Total RNA was isolated from leaves and stems of five narrow-leafed lupin (Lupinus angustifolius L.) genotypes with contrasting alkaloid regulation, including an iucundus low-alkaloid line (83A:476), a bitter Iucundus line (P27255) and three Bryansk low-alkaloid lines carrying the Iucundus-type RAP2-7 allele: 95826 (Bryanskij-35), 95927 (Bryanskij-123) and 95928 (Bryanskij-237/83). Plants, in five replicates per genotype, were grown under controlled conditions optimal for growth, and leaf and stem samples were collected at flowering stage. For each genotype and organ, total RNA from five biological replicates was pooled in equal amounts and used for PacBio Iso-Seq library preparation and sequencing.

2026-06-30 | E-MTAB-16429 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data