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ProteomicsEschericha coli proteomics with Tanaka and Tachikawa
Relative comparison of Escherichia coli proteome between wild-type and pta mutant
ORGANISM(S): Escherichia Coli 
2021-06-21 | PXD020753 | JPOST Repository
TranscriptomicsAcyclic retinoid targets platelet-derived growth factor signaling in the prevention of hepatic fibrosis and hepatocellular carcinoma development
Gene expression profiling in non tumor lesion in the liver of patients prior to administering peretinoin was unrelated to the clinical outcome, however, gene expression profiling 8 weeks after starting peretinoin therapy significantly predicted the recurrence of HCC Peretinoin, a member of the acycl...
ORGANISM(S): Homo sapiens 
2012-08-19 | E-GEOD-29302 | biostudies-arrayexpress
ProteomicsProteome data for unbiased curvature-gradient proteomics reveals anti-curvature sensors
The results contain measurements of protein interacting with membranes of three different curvatures (positive, negative, and zero curvature).
ORGANISM(S): Homo Sapiens (human) 
2026-09-10 | PXD078093 | JPOST Repository
TranscriptomicsSerial gene expression profiling in the liver of Pdgf-c Tg mice that developed hepatic fibrosis and tumors
Over expression of PDGF-C in mouse liver resulted in the progression of hepatic fibrosis, steatosis and the development of HCC; this mouse model closely resembles the human HCC that is frequently associated with hepatic fibrosis. Peretinoin (generic name; code, NIK-333), developed by the Kowa Compan...
ORGANISM(S): Mus musculus 
2012-10-03 | E-GEOD-31431 | biostudies-arrayexpress
TranscriptomicsTranscriptome analysis of medaka germ cells and gonadal somatic cells during the gonadal sex differentiation.
Microarray analysis was performed using germ cells and gonadal somatic cells isolated by Fluorescence Activated Cell Sorter (FACS) from XX and XY embryos at st.33 and st.35. Medaka germ cells (olvas-EGFP) and somatic cells (sox9b-DsRed) were isolated by FACS. The microarray experiments were done us...
ORGANISM(S): Oryzias latipes 
2014-08-31 | E-GEOD-59521 | biostudies-arrayexpress
ProteomicsLFQ of GFP-Trap IP-MS from MEF cells expressing GFP-WIPI2d
Control or GFP-WIPI2d expressing MEFs were treated with or without 0.5uM Apilimod for one hour, and then cross-linked with 0.1% formaldehyde for ten mins at room temperature. After cross-linking was quenched with 100mM glycine for four mins at room temperature, cells were washed with HEPES saline co...
ORGANISM(S): Mus Musculus (mouse) 
2024-06-25 | PXD043701 | JPOST Repository
ProteomicsLFQ of GFP-Trap IP-MS from MEF cells expressing GFP-Rubicon
Control or GFP-Rubicon expressing MEFs were treated with or without 0.5uM Apilimod for one hour, and then cross-linked with 0.1% formaldehyde for ten mins at room temperature. After cross-linking was quenched with 100mM glycine for four mins at room temperature, cells were washed with HEPES saline c...
ORGANISM(S): Mus Musculus (mouse) 
2024-06-25 | PXD043695 | JPOST Repository
ProteomicsTMTpro-18plex analysis of HEK293T cells transfected with DCAF siRNAs
HEK293T cells transfected with control, CUL4, COP1, DCAF3, DCAF14, or RBBP7 siRNA were lysed in 150 µL guanidine buffer. After heating and sonication, the lysates were centrifuged at 20,000 × g for 15 min at 4°C. The supernatants were recovered, and proteins (150 µg each) were purified by methanol-c...
ORGANISM(S): Homo Sapiens (human) 
2025-11-14 | PXD057876 | JPOST Repository
ProteomicsDIA-based quantitative proteomics of HEK293T cells treated with MLN4294
HEK293T cells were cultured in 6-well plates and treated with DMSO or 2 µM MLN4924. After 6 h (MLN4924) or 24 h (DMSO or MLN4924), the cells (n=3) were collected using 1 mL of PBS by pipetting. All samples were centrifuged at 500 × g for 3 min at 4°C, and cell pellets were lysed in 160 µL of guanidi...
ORGANISM(S): Homo Sapiens (human) 
2026-03-05 | PXD064494 | JPOST Repository
ProteomicsProximity biotinylation of HEK293T cells stably expressing AirID-DCAFs
HEK293T cells stably expressing AGIA-AirID-DCAF, -SKP2, and -IκBα were cultured in a 10-cm dish in biological replicates (n = 2) and treated with 10 µM MG132 for 6 h in the presence of 10 µM biotin for 24 h. The cell pellet was then lysed in 300 µL of a guanidine buffer (6 M guanidine-HCl, 100 mM HE...
ORGANISM(S): Homo Sapiens (human) 
2025-11-14 | PXD057875 | JPOST Repository
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