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TranscriptomicsLigand-Dependent Enhancer Activation Regulated by Topoisomerase-I Activity
The discovery that enhancers are regulated transcription units, encoding eRNAs, has raised new questions about the mechanisms of their activation. Here, we report an unexpected molecular mechanism that underlies ligand-dependent enhancer activation, based on DNA nicking to relieve torsional stress f...
ORGANISM(S): Homo sapiens 
2015-01-22 | E-GEOD-63202 | biostudies-arrayexpress
ProteomicsProteome Dynamics Underlying Drought Resistance Heterosis in Rice Flag Leaves
This study investigates the molecular mechanisms underlying drought resistance heterosis (DRH) in rice, specifically using the water-saving and drought-resistant rice hybrid Hanyou73 (HY73) and its parental lines Hanhui3 (HH3) and Huhan7B (HH7B). Given the significant impact of drought stress on glo...
ORGANISM(S): Oryza sativa (Rice) 
2026-06-28 | PXD064898 | Pride
Dia-ms Proteomic Flag leaf Heterosis Drought resistance Rice 
ProteomicsSynthetic yeast genome project
The experiment aimed to study the proteome variation in a yeast strain (YS031), which chromosome II was artificially synthezied, compared with the wild type strain (BY4741). Proteins were extracted from the yeast cells and digested with trypsin. The peptides were label with iTRAQ, separated with 2D ...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2018-10-27 | PXD003435 | Pride
Saccharomyces cerevisiae Itraq Lc-ms/ms 
ProteomicsLysine acetylomic profiling of hybrid rice HY73 in response to drought
This study investigates the molecular mechanisms underlying drought-resistant heterosis (DRH) in the elite hybrid rice HY73. Utilizing a quantitative lysine acetylome profiling approach on flag leaves of HY73 under well-watered (WW) and drought-stressed (DS) conditions, we aimed to unravel the role ...
ORGANISM(S): Oryza sativa (Rice) 
2026-06-28 | PXD064916 | Pride
Hybrid rice Drought resistance Lysine acetylation Acetylome Heterosis 
ProteomicsArsenic Trioxide Acts as a Molecular Glue to Promote STUB1-Mediated NPM-ALK Degradation in ALK⁺ ALCL
The NPM-ALK fusion constitutively activates ALK tyrosine kinase, driving oncogenesis in anaplastic large cell lymphoma (ALCL). Although arsenic trioxide (ATO) exhibits therapeutic potential in NPM-ALK⁺ ALCL by inhibiting proliferation and inducing apoptosis, its molecular mechanism remains unclear. ...
ORGANISM(S): Homo sapiens (Human) 
2026-09-07 | PXD074054 | Pride
Karpas299 Ato Targeted protein degradation Npm-alk+ alcl 
ProteomicsArsenic Trioxide Acts as a Molecular Glue to Promote STUB1-Mediated NPM-ALK Degradation in ALK⁺ ALCL
The NPM-ALK fusion constitutively activates ALK tyrosine kinase, driving oncogenesis in anaplastic large cell lymphoma (ALCL). Although arsenic trioxide (ATO) exhibits therapeutic potential in NPM-ALK⁺ ALCL by inhibiting proliferation and inducing apoptosis, its molecular mechanism remains unclear. ...
ORGANISM(S): Homo sapiens (Human) 
2026-09-07 | PXD073992 | Pride
Deslanoside Ato Targeted protein degradation Npm-alk+ alcl Stub1 Combination therapy 
ProteomicsIdentification of DDR1-interacting proteins by IP-MS screening
To investigate and identify the potential DUBs that stabilize and interact with DDR1, we performed immunoprecipitation of endogenous DDR1 with anti-DDR1 antibody (specific IP) or anti-IgG antibody (negative control) in A549 cells followed by mass spectrometry analysis.
ORGANISM(S): Homo sapiens (Human) 
2025-09-08 | PXD065332 | Pride
Ddr1 Ip-ms Co-immunoprecipitated proteins 
ProteomicsPhosphoproteome and proteome of mouse hepatocyte maturation and human hepatic reprogramming
To identify central protein kinases that potentially promote the maturation, we chemically induced liver progenitor cells (CLiPs) from mouse hepatocytes using a previously established protocol, and profiled the phosphoproteome and proteome of freshly isolated primary mouse hepatocytes (MHs) and ALBU...
ORGANISM(S): Homo Sapiens Mus Musculus 
2022-08-05 | PXD035829 |
ProteomicsDetect the shared protein components between spider dragline silk and silkworm cocoon by Label free quantitative proteomics
The spider major ampullate gland and silkworm silk gland have similar morphological structure and function, so we explored whether there are some common protein components on silks, with three biological replicates for each sample. Dragline silk samples from mature female Trichonephila clavata spide...
ORGANISM(S): Bombyx Mori Trichonephila 
2022-12-09 | PXD038734 |
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