Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Belcour2020 - Chondrus crispus Genome-Scale Metabolic Network model, version 1.3

ABSTRACT: This is the first version of a Genome-Scale Metabolic Network model of the red alga Chondrus crispus, published in a paper by Belcour et al., iScience 2020 (https://doi.org/10.1016/j.isci.2020.100849)

SUBMITTER: Gabriel Markov

PROVIDER: MODEL2101250001 | BioModels | 2023-04-25

REPOSITORIES: BioModels

ACCESS DATA

Json Xml

Similar Datasets

Effects of a glyphosate-based herbicide on the transcriptome of Aspergillus Nidulans

Project description:In order to evaluate the molecular effects of Roundup at a concentration at which no morphological effects were identified, RNA extracted from Roundup-treated A. nidulans cultures were subjected to a global gene expression profiling using a custom agilent microarray (8 × 15 K format), for which the reproducibility, specificity and sensitivity was described previously (Delomenie et al., Curr Genet 2016 Nov;62(4):897-910. PMID: 27038308). This data is published in Mesnage R, Oestreicher N, Poirier F, Nicolas V, Boursier C, Vélot C. (2020) Transcriptome profiling of the fungus Aspergillus nidulans exposed to a commercial glyphosate-based herbicide under conditions of apparent herbicide tolerance. Environmental Research. Available online 7 January 2020, 109116. https://doi.org/10.1016/j.envres.2020.109116

2020-01-08 | GSE95241 | GEO

Gene expression in Tuber melanosporum fruiting bodies at different developmental stages

Project description:This study characterizes the transcriptomic alterations of Tuber melanosporum during fruiting body development. Stage III, IV, V and VI were analyzed. For images and description of stages see Zarivi et al.2015 (https://doi.org/10.1016/j.phytochem.2015.02.024)

2018-01-15 | GSE108014 | GEO

mRNA-seq time course of C. elegans sampled at and after release from dauer starvation at 25 degrees

Project description:We find that the 'high-confidence oscillating' genes initiate oscillations similarly as after release from L1 dauer. We performed high-throughput RNA sequencing on worms that were synchronously released from the dauer stage by refeeding on OP50. In particular, we investigate oscillatory gene expression as described in Hendriks et al., 2014 (doi: 10.1016/j.molcel.2013.12.013) and observe the re-initiation of oscillatory gene expression from stable expression with a time delay upon dauer exit. Experimental observation of the transitions between non-oscillatory and oscillatory states during the first 5 hours after dauer exit reveals that the oscillatory gene expression is arrested in a specific oscillator phase, similar to the observation we make in animals released from L1 arrest (see Meeuse et al., 2020, doi: https://doi.org/10.1101/755421).

2020-07-27 | GSE147894 | GEO

gene expression in hippocampus from ophn1tim1Bill mouse males and controls during 24h

Project description:Oligophrenin1 X-linked Intelectual disability (ID) gene is mutated in ID patients with cerebellar hypoplasia. It encodes OPHN1 protein which has been shown to interact with Rev-erb alpha, a negative regulator of the circadian clock in cells (https://doi.org/10.1038/nn.2911) In this study, we searched fo gene expression differences in hippocampi from adult mouse ophn1 KO and controls during 24 hours. Three replicates were collected evey 6 hours for both genotype. Data from controls were analyzed and reported in http://dx.doi.org/10.1016/j.neuroscience.2015.08.066.

2021-12-24 | GSE190891 | GEO

Deciphering cell states and genealogies of human hematopoiesis with single-cell multi-omics

Project description:This SuperSeries is composed of the SubSeries listed below. The main processed data are organized in the following two Figshare links: Seurat objects: https://doi.org/10.6084/m9.figshare.23290004 ReDeeM-V output: https://doi.org/10.6084/m9.figshare.24418966.v1

2023-11-18 | GSE219015 | GEO

Project description:Long-read sequencing and hybrid assemblies related to the NORM collection described in Gladstone et al. 2020 https://doi.org/10.1016/S2666-5247(21)00031-8

| PRJEB45354 | ENA

Aberrant phase separation of transcription factors in human developmental disorders

Project description:Components of the transcription machinery can undergo liquid-liquid phase separation, but the functional importance of phase-separated condensates in transcriptional control is not well understood. Here we report that disease-causing mutations in several transcription factors (TFs) alter the phase separation capacity of those TFs. We first demonstrate that the Hoxd13 TF, and its intrinsically disordered N-terminus form phase-separated condensates. Expansions of a polyalanine repeat, which cause hereditary synpolydactyly in humans, facilitate phase separation of Hoxd13, and alter the transcriptional program of several cell types in a cell-specific manner in vivo. Disease-associated expansions of aminoacid repeats in intrinsically disordered regions of other TFs were similarly found to alter phase separation. These results suggest that aberrant phase separation of transcriptional regulators may underlie a spectrum of human pathologies. The paper is available at https://doi.org/10.1016/j.cell.2020.04.018

2020-05-07 | GSE128818 | GEO

scRNA-seq of human trophoblast stem cells as a model of trophoblast-cytotrophoblast (TB-CTB)

Project description:Placenta derived Okae et al. human trophoblast stem cells cultured in Okae et al. conditions (ttps://doi.org/10.1016/j.stem.2017.11.004). In addition, we sequenced SHEF6 primed human pluripotent stem cells as a control. Individual cells were manually isolated with a mouth pipette and subjected to single-cell full-lengths transcriptome profiling using a modified version of Smart-Seq2.

2022-06-03 | E-MTAB-10890 | biostudies-arrayexpress

Lipidome of archaea From Hypersaline Lakes2

Project description:the intact polar lipids of archaea from hypersaline lakes https://doi.org/10.3389/fmicb.2019.00377 https://doi.org/10.1016/j.syapm.2022.126336

2022-07-07 | MSV000089832 | MassIVE

Lipidome of archaea From Hypersaline Lakes1

Project description:The intact polar lipids of archaea from hypersaline lakes https://doi.org/10.1016/j.syapm.2021.126249 https://doi.org/10.1099/ijsem.0.003506

2022-07-07 | MSV000089830 | MassIVE

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

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