Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

42 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Wing disc transcriptomic variation from 32 Drosophila genetic reference panel (DGRP) lines selected for a broad range of wing sizes

ABSTRACT: We performed RNA sequencing of wing discs at the wandering L3 larval stage from 32 inbred lines of Drosophila genetic reference panel (DGRP) that consists of 16 big and 16 small wing lines. We aimed to understand system-wide gene regulatory mechanisms that attain the observed natural variation in wing size including the sexual size dimorphism.

INSTRUMENT(S): NextSeq 500

ORGANISM(S): Drosophila melanogaster

SUBMITTER: Ernst Hafen

PROVIDER: E-MTAB-7662 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

Bulk RNA Barcoding and sequencing (BRB-seq) protocol for RNA-seq of human pre-adipocytes and differentiated adipocytes

Project description:Here, we validate a novel protocol, Bulk RNA Barcoding and sequencing (BRB-seq), that combines the multiplexing-driven cost-effectiveness of a single-cell RNA-seq protocol with the efficiency of a bulk RNA-seq procedure. For this we use BRB-seq protocol on human pre-adipocytes and differentiated adipocytes, and compare its effectiveness as compared to TruSeq. Indeed, one of the principal limitations of bulk RNA-seq is the time and costs of library preparation, which makes it difficult to profile many samples simultaneously. Here, BRB-seq produces 3’ libraries that exhibit similar gene expression quantification to TruSeq and maintain this quality even with low quality RNA samples.

2018-02-06 | E-MTAB-6469 | biostudies-arrayexpress

Bulk RNA Barcoding and sequencing (BRB-seq) protocol for RNA-seq of 60 human LCL from the 1000G project

2018-12-17 | E-MTAB-7524 | biostudies-arrayexpress

Commensal bacteria act as a broad genetic buffer that maintains phenotypic homogeneity and developmental robustness in Drosophila

Project description:Among the diverse forms of symbioses, facultative nutritional mutualism forged by the host and its resident gut microbiota permits the symbiont to adapt to the changing nutritional environment during the host’s life time. The horizontally acquired gut bacteria in Drosophila are a perfect example of nutritional mutualists. Here, we study the Lactobacillus plantarum (Lp WJL) infection effect in the Drosophila Genetic Reference Panel (DGRP) collection in context of larvae raised in chronic undernutrtion.

2019-05-29 | E-MTAB-6518 | biostudies-arrayexpress

Characterisation of the in-vivo miRNA landscape in Drosophila ribonuclease mutants reveals Pacman mediated regulation of the highly conserved let-7 cluster during apoptotic processes

Project description:RNA extracted from Drosophila wandering L3 wing imaginal discs was 2S rRNA depleted and prepared for miRNA sequencing using the QIAseq miRNA Library kit. The experiment was performed on Pacman and Dis3L2 null mutants and their respective isogenic control lines with four replicates of each condition.

2024-02-28 | E-MTAB-13781 | biostudies-arrayexpress

Dis3L2 regulates cell proliferation and tissue growth through a conserved mechanism

Project description:RNA-seq on 120hr L3 larval wing imaginal discs. 3 replicates of dis3L2 null mutant, and 3 replicates of control wing discs. rRNA depleted, Illumina TruSeq libraries. Paired-end sequencing on a HiSeq 3000.

2021-10-18 | E-MTAB-7451 | biostudies-arrayexpress

3’RNA-seq of murine fresh and expanded ASPCs

Project description:To characterize murine ASPCs we performed bulk RNA-seq (BRB-seq, Alpern et al., 2019) of total, CD142− and CD142+ (Aregs) mouse adipose stem and progenitor cells (ASPCs). ASPCs were collected as Lin− (CD31− CD45− TER119−) CD29+ CD34+ SCA1+ cells of the mouse subcutaneous stromal vascular fraction using FACS. The cells were sequenced directly after sort or after expansion.

2022-07-04 | E-MTAB-10179 | biostudies-arrayexpress

3’RNA-seq of murine CD142− and CD142+ ASPCs freshly sorted with four different anti-CD142 antibodies

Project description:To validate that the robustness of Aregs' (CD142+ ASPCs') molecular identity regardless of the antibody used, we performed transcriptomic profiling of freshly isolated CD142− and CD142+ mouse adipose stem and progenitor cells (ASPCs) sorted using four different anti-CD142 antibodies. ASPCs were collected as Lin− (CD31− CD45− TER119−) CD29+ CD34+ SCA1+ CD142+/− cells of the mouse subcutaneous stromal vascular fraction using FACS.

2022-07-04 | E-MTAB-10181 | biostudies-arrayexpress

3’RNA-seq of murine ASPCs derived from P0, P16, 4wo, 7wo and 11wo-mice

Project description:To explore the molecular identity of mouse adipose stem and progenitor cells (ASPCs) and more specifically of CD142+ ASPCs (Aregs), we performed bulk RNA-seq on freshly isolated total, CD142− and CD142+ ASPCs of new-born pups (P0), post-natal day 16 mice (P16), 4 week-old (4wo), 7wo and 11wo mice. ASPCs were collected as Lin− (CD31− CD45− TER119−) CD29+CD34+ SCA1+ cells of the mouse subcutaneous stromal vascular fraction using FACS.

2022-07-04 | E-MTAB-10182 | biostudies-arrayexpress

3’RNA-seq of post-differentiation murine CD142− and CD142+ ASPCs sorted with four different anti-CD142 antibodies

Project description:To characterize CD142+ ASPCs (Aregs) after exposure to an adipogenic cocktail we performed bulk RNA-seq (using BRB-seq) of total, CD142− and CD142+ mouse adipose stem and progenitor cells (ASPCs), sorted using four different anti-CD142 antibodies. ASPCs were collected as Lin− (CD31− CD45− TER119−) CD29+ CD34+ SCA1+ cells of the mouse subcutaneous stromal vascular fraction using FACS.

2022-07-04 | E-MTAB-10180 | biostudies-arrayexpress

3’RNA-seq of murine CD142− ASPCs co-cultured with CD142+ ASPCs (Aregs) carrying specific gene knockdowns

Project description:To study the involvement of key Areg (CD142+ ASPC)-specifics factors in the inhibitory capacity of CD142+ ASPCs on adipogenesis, we performed transcriptomic profiling of CD142− ASPCs exposed to the secretome of CD142+ ASPCs carrying knockdowns of the indicated genes. CD142− ASPCs were co-cultured and co-differentiated (within the transwell set-up) with CD142+ ASPCs in which siRNA-based knockdowns of specific genes were performed. ASPCs were collected as Lin− (CD31− CD45− TER119−) CD29+ CD34+ SCA1+ cells of the mouse subcutaneous stromal vascular fraction using FACS.

2022-07-04 | E-MTAB-10183 | 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