Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

29 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcription profiling of Arabidopsis wild type and flk mutants under different light regimes

ABSTRACT: Examination of Columbia-O wildtype and flk mutant tissues under the following conditions:; 7 day-old long-day grown, collected 1hr after dawn (exp3: GSM26236-GSM26241);; 16 day-old continuous-light-grown (exp2: GSM26230-GSM26235);; 16 day-old long-day grown, collected at 16hrs after dawn (exp1: GSM26224-GSM26229).

ORGANISM(S): Arabidopsis thaliana

SUBMITTER: Todd Mockler

PROVIDER: E-GEOD-1512 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Publications

Regulation of flowering time in Arabidopsis by K homology domain proteins.

Mockler Todd C TC Yu Xuhong X Shalitin Dror D Parikh Dhavan D Michael Todd P TP Liou Jasmine J Huang Jie J Smith Zachery Z Alonso Jose M JM Ecker Joseph R JR Chory Joanne J Lin Chentao C

Proceedings of the National Academy of Sciences of the United States of America 20040813 34

The transition from vegetative growth to reproductive development in Arabidopsis is regulated by multiple floral induction pathways, including the photoperiodic, the autonomous, the vernalization, and the hormonal pathways. These pathways converge to regulate the expression of a small set of genes critical for floral initiation and different signal transduction pathways can interact to govern the time to flower. One important regulator of floral initiation is the MADS-box transcription factor FL ...[more]

PMID: 15310842

Similar Datasets

flk_vs_wt

Project description:Examination of Columbia-O wildtype and flk mutant tissues under the following conditions: 7 day-old long-day grown, collected 1hr after dawn (exp3: GSM26236-GSM26241); 16 day-old continuous-light-grown (exp2: GSM26230-GSM26235); 16 day-old long-day grown, collected at 16hrs after dawn (exp1: GSM26224-GSM26229). Keywords = Arabidopsis Keywords = flowering Keywords = flk Keywords: other

2004-09-01 | GSE1512 | GEO

Low abundance of the matrix arm of complex I in the mitochondria predicts longevity

Project description:The mouse liver mitochondrial proteome was analysed in four different mouse groups (allocation of the samples to Exp1 and Exp2 in brackets): AL (ad libitum fed) C57Bl6 (Exp1 129, Exp1 130, Exp2 130), DR (dietary restriction) C57Bl6 (Exp1 126, Exp1 127, Exp1 128), AL ICRFa (Exp2 128, Exp2 129) and old ICRFa (Exp2 126, Exp2 127). To achieve quantitative standardisation between Exp1 and Exp2, all 10 samples were pooled and one portion of the pool was anlaysed in each Exp (Exp1 131 and Exp2 131). Following tryptic digest and TMT 6-plex labelling, samples were separated by OffGel electrophoresis and all fractions were subsequently analysed by LCMSMS on an Orbitrap LTQ XL. One survey scan (res. 30,000) was followed by a high energy HCD scan (res. 6000) and a low energy CID scan in the LTQ. HCD data were used for the quantitation and CID data for the identification of peptides. Data were searched using Mascot (v. 2.2) through the Proteome Discoverer interface. Peptide raw quantitations were extracted as text files and further processed using dpeaqms (http://r-forge.r-project.org/projects/dpeaqms/) to obtain probability values for the differences in protein amounts for specific proteins between the different animal groups.

2014-03-18 | PXD000272 | Pride

Next Generation Sequencing to Study FLK-affected genes

Project description:Purpose: The goals of this study are to compare RNA-seq profiles of Col-0, acd6-1, flk-1, flk-5, acd6-1flk-1, and acd6-1flk-5 to identify genes affected by FLK. Methods: Total RNA was extracted from 25-d old plants. A total amount of 1 μg RNA per sample was used to generate cDNA libraries, using NEBNext® UltraTM RNA Library Prep Kit for Illumina® (NEB, USA) following manufacturer’s recommendations. Deep sequencing was performed using Illumina NovaSeq 6000 (Novogene Corporation Inc.). Triplicate biological samples were used for all genotypes except acd6-1flk-5, which had duplicate samples because one sample failed to pass quality control. The samples were multiplexed and sequenced with the standard paired-end sequencing that has a read length of 150bp per end and 20M reads per end per sample. Results: We found that over 8000 genes are differentially affected by FLK based on the RNAseq analysis. GO analysis revealed that FLK-affected genes are enchriched for genes involved in primary metabolism and in response to abiotic and biotic stimuli. Conclusions: The RNAseq analysis support a role of FLK in regulation of plant development and defense.

2023-04-12 | GSE164424 | GEO

Comparison of Flk-1+/Etv2- vs Flk-1+/Etv2+ populations

2011-08-31 | GSE31743 | GEO

Comparison of Flk-1+/Etv2- vs Flk-1+/Etv2+ populations

Project description:Screening for genes up in Etv2+ cells within Flk-1+ ES derived mesoderm Microarray analysis performed to screen for the candidate genes regulated by Etv2. Differentiated Flk-1+ mesoderm can be devided into Etv2+ or-. Etv2+ cells are assumed to be committed to hemato/endothelial cells. Comparison of two populations can reveal genes relevant in this commitment. Extract RNA from sorted Flk-1+/Etv2- vs Flk-1+/Etv2+ populations.Etv2-Venus KI ES cells were differentiated on OP9 for 4-5 days and Flk-1+ population was separated into Etv2-Venus+ or- cells. Total RNA was purified from each population for analysis.

2011-08-30 | E-GEOD-31743 | biostudies-arrayexpress

Comparison of Flk-1+/PDGFRa+(Flk-1PRa+(DP)) population from Etv2Het vs Etv2KO ES cells

2011-08-31 | GSE31744 | GEO

Comparison of Flk-1+/PDGFRa+(Flk-1PRa+(DP)) population from Etv2Het vs Etv2KO ES cells

Project description:Screening for genes regulated by Etv2 within Flk-1+/PDGFRa+ ES derived mesoderm.Microarray analysis performed to screen for the candidate genes regulated by Etv2. TT2 ES cells differentiated on OP9 feeder cells were sorted using Flk-1 and PDGFRa antibodies.Gene expressions from these two populations were compared. Extract RNA from sorted Flk-1+/PDGFRa+ populations from Etv2Het vs KO cells. To obtain primitive mesoderm cells TT2 ES cells of corresponding genotypes were differentiated on OP9 cells for 4 days. Flk-1+/PDGFRa+ populations were sorted from Etv2 Het vs. KO cells for RNA extraction.

2011-08-30 | E-GEOD-31744 | biostudies-arrayexpress

IBMCP JLeon lab NO-exposed (15, 30 and 60 min after pulse of 300 ppm NO during 5 min) wt Col-0 versus untreated wt Col -0

Project description:Compared analysis of the transcriptomes of 12-day old seedlings from wild type Col-0 treated with NO for 15, 30 and 60 min vs untreated control seedlings. Samples were harvested 12 h after dawn of day 12 after sowing and seedlings were grown under long days (16 h light / 8 h darkness) photoperiodic conditions.

2015-12-01 | GSE75509 | GEO

Expression data from day 3 Flk-1 mesoderm between ER71 overexpressed and ER71 knockout mouse embryonic stem cell

Project description:Ets transcription factor ER71 is critical for Flk-1 mesoderm specification to different cell lineages. In this dataset, we determine to investigate the mechanisms by which ER71 regulates hematopoietic and endothelial cell versus cardiac cell lineage development. Expression of all four Flk-1+ mesoderm populations (i.e. Er71 overexpressed versus control, Er71 deficient versus control Flk-1+ mesoderm) was compared. Specifically, we sorted Flk-1+ mesoderm from day 3 differentiated embryonic stem(ES) cells, including induced Er71 and control ES cells, as well as Er71+/+ as well as Er71-/- ES cells .

2012-02-20 | E-GEOD-35793 | biostudies-arrayexpress

Medicago truncatula R108: permissive medium versus non permissive medium. Comparison of the transcriptomic response of medicago truncatula plants.

Project description:12plex_medicago_2013-08 - r108 permissive medium versus non permissive medium. - Two experiments to compare the transcriptomic response of medicago plants: Agar medium versus Phytagel medium (exp1) and rhizobium WT versus BacA (exp2). - Medicago truncatula R108 seedlings were inoculated with S. medicae WSM419 and were cultivated during three days on buffered nidulation medium solidified with Phytagel or Agar.

2018-11-01 | GSE121771 | GEO

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