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GenomicsBenchmark study of different chromatin isolation methods using the E2Fa transcription factor
Genome-wide identification of transcription factor (TF) binding sites is pivotal to our understanding of gene expression regulation. Although much progress has been made in the determination of potential binding regions of proteins by chromatin immunoprecipitation (ChIP), this method has some inhere...
ORGANISM(S): Arabidopsis thaliana 
2014-02-04 | E-GEOD-53422 | biostudies-arrayexpress
ProteomicsA systematic phosphoproteome screen to identify targets of the Target of Rapamycin (TOR) kinase in Arabidopsis thaliana
The target of rapamycin (TOR) kinase is a central regulatory hub that translates environmental and nutritional information into permissive or restrictive growth decisions. Although the TOR pathway is conserved among eukaryotes, plants developed unique adaptations to this pathway to cope with their a...
ORGANISM(S): Arabidopsis thaliana (Mouse-ear cress) 
2019-07-17 | PXD008355 | Pride
Arabidopsis Sucrose Azd8055 Target of rapamycin (tor) Cell culture Label-free quantitative ms Phosphoproteomics Rapamycin 
GenomicsAPC/CCCS52A2 repressed phytosulfokine signaling restricts root QC cell proliferation through ERF115 degradation
The quiescent center (QC) plays an essential role during root development by creating a microenvironment that preserves the stem cell fate of its surrounding cells. Strikingly, in order to retain root structure, QC cells only occasionally self-renew, displaying a proliferation rate far below that...
ORGANISM(S): Arabidopsis thaliana 
2013-11-04 | E-GEOD-48793 | biostudies-arrayexpress
TranscriptomicsGenome-wide transcriptome analysis bZIP29 dominant negative repressor line in root tips of Arabidopsis
The Arabidopsis basic leucine zipper transcription factor bZIP29 of the bZIP group I TF family, expressed mainly in proliferative tissues, is functionally characterized in this study. In roots, bZIP29 is highly expressed in the quiescent centre and the columella cells of the root apical meristem. Mu...
ORGANISM(S): Arabidopsis thaliana 
2016-11-07 | E-MTAB-3755 | biostudies-arrayexpress
ProteomicsThe composition and structure of the outer kinetochore KMN complex is conserved across Kingdoms
In eukaryotes, chromosome segregation during cell division requires attachment to the spindle, which is ensured by a large multi-protein structure called the kinetochore. The outer layer of the kinetochore attaches to the microtubules and is named after three of its components KNL1C, MIS12C, and NDC...
ORGANISM(S): Arabidopsis thaliana (Mouse-ear cress) 
2025-11-17 | PXD062209 | Pride
Ap-ms Arabidopsis Kinetochore Kmn complex 
UnknownGenetic deficiency of NOD2 confers resistance to invasive aspergillosis.
Not available
S-EPMC6035256 | biostudies-literature
ProteomicsA MULTI-DIMENSIONAL INTERACTOMICS VIEW ON THE PLANT SNRK1 KINASE COMPLEX REVEALS A KEY REGULATORY ROLE FOR THE CLASS II T6P SYNTHASE-LIKE PROTEINS – part1 AP-MS dataset
The plant SNF1-related kinase (SnRK1) plays a central role in energy and metabolic homeostasis. SnRK1 controls growth upon activation by energy-depleting stress conditions, while also monitoring key developmental transitions and nutrient allocation between source and sink tissues. To obtain deeper i...
ORGANISM(S): Arabidopsis thaliana (Mouse-ear cress) 
2022-08-30 | PXD029833 | Pride
Ap-ms Arabidopsis Snrk1 complex 
TranscriptomicsNINJA connects JAZ proteins to the co-repressor TOPLESS
NINJA (At4g28910) and TOPLESS proteins function as negative regulators of jasmonate responses. Our results point to TPL proteins as general co-repressors that affect multiple signalling pathways through the interaction with specific adaptor proteins. This new insight reveals how stress- and growth-...
ORGANISM(S): Arabidopsis thaliana 
2010-04-05 | E-GEOD-19455 | biostudies-arrayexpress
UnknownA polymorphic enhancer near GREM1 influences bowel cancer risk through differential CDX2 and TCF7L2 binding.
Not available
S-EPMC4471812 | biostudies-literature
GenomicsIdentification of Peopod2 (PPD2) target genes through GSyellow-based ChIP-seq in Arabidopsis thaliana PSB-D cell cultures.
Genome-wide target genes of PPD2 were identified through ChIP-seq on Arabidopsis cell cultures. For ChIP-seq, PPD2 was fused to the GSyellow TAP tag and expressed from the 35S promoter. The p35S:PPD2-GSyellow construct was transformed into Arabidopsis thaliana PSB-D cell culture. ChIP was performed ...
ORGANISM(S): Arabidopsis thaliana 
2018-08-07 | E-MTAB-6513 | biostudies-arrayexpress
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