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UnknownCorrelates of intended COVID-19 vaccine acceptance across time and countries: results from a series of cross-sectional surveys.
Not available
S-EPMC8331327 | biostudies-literature
ProteomicsSelective targeting of TBXT with DARPins identifies regulatory networks and therapeutic vulnerabilities in chordoma
Aberrant expression of the embryonal transcription factor TBXT (also known as brachyury) drives chordoma, a rare spinal neoplasm with no effective drug therapies. The gene network regulated by TBXT is poorly understood, and strategies to disrupt its abnormal activity for therapeutic purposes are lac...
ORGANISM(S): Homo sapiens (Human) 
2025-07-31 | PXD055982 | Pride
Tbxt Chordoma Darpin Brachyury 
TranscriptomicsTranscriptome-wide Analysis of Exosome Targets in the Budding Yeast Saccharomyces cerevisiae
Purpose: The exosome plays major roles in RNA processing and surveillance but the in vivo target range and substrate acquisition mechanisms remain unclear. We applied an in vivo cross-linking technique coupled with deep sequencing (CRAC) that captures transcriptome-wide interactions between individu...
ORGANISM(S): Saccharomyces cerevisiae 
2012-09-25 | E-GEOD-40046 | biostudies-arrayexpress
ProteomicsMulti-Omic and Functional Analysis for Classification and Treatment of Sarcomas with FUS-TFCP2 or EWSR1-TFCP2 Fusions
Linking clinical multi-omics analyses with mechanistic studies may improve the understanding of rare cancers. We leveraged two precision oncology programs to investigate rhabdomyosarcoma with FUS/EWSR1-TFCP2 fusions, an orphan malignancy without effective therapies. All tumors exhibited outlier ALK ...
ORGANISM(S): Homo sapiens (Human) 
2023-11-13 | PXD045522 | Pride
Alk Fus-tfcp2 Sarcoma Ewsr1-tfcp2 
TranscriptomicsRNA sequencing comparing different stages of leukemic progression in a mouse model of severe congenital neutropenia (SCN)
To address how Csf3r and RUNX1 mutations in combination with CSF3 administration affect hematopoiesis in vivo, we performed serial transplantation experiments. Lineage-negative Csfr-d715 BM cell cells were lentivirally transduced with the patient specific RUNX1-D171N (RHD) mutant or an empty vector ...
ORGANISM(S): Mus musculus 
2020-08-24 | E-MTAB-9377 | biostudies-arrayexpress
ProteomicsFunctional states in tumor-initiating cell differentiation in human colorectal cancer
Intra-tumor heterogeneity of tumor-initiating cell (TIC) activity drives colorectal cancer (CRC) progression and therapy resistance. Here, we used single-cell mRNA-sequencing (scRNA-seq) of patient-derived CRC models to decipher distinct cell subpopulations based on their transcriptional profiles. C...
ORGANISM(S): Homo sapiens (Human) 
2021-05-07 | PXD018230 | Pride
Tumor heterogeneity Transcriptional programs Colorectal cancer Tumor cell differentiation Patient-derived cancer models Tumor-initiating cells Tumor metabolism Single-cell rna-sequencing 
TranscriptomicsRNA sequencing comparing the transcriptome of a severe congenital neutropenia (SCN) patient who progressed to AML (SCN-AML) with the SCN phase and healthy controls
CD34+ hematopoietic stem progenitor cells (HSPCs) from cryo-preserved blood or bone marrow were FACS sorted in TriZol and RNA was isolated according to the manufacturer’s protocol. SMARTer Ultra Low Input RNA kit for sequencing (Clontech, v4 Cat# 634891) was used to generate cDNA. Sequencing librari...
ORGANISM(S): Homo sapiens 
2020-08-24 | E-MTAB-9381 | biostudies-arrayexpress
TranscriptomicsRNA sequencing comparing the effect of the introduction of RUNX1-D171N (RHD) in control- or SCN -CSF3R-d715 hematopoietic progenitor cells (HPCs)
To address how CSF3R and RUNX1 mutations affect hematopoiesis in a severe congenital neutropenia (SCN) background we used SCN patient, or control, derived induced pluripotent stem cells (iPSC). HPCs were generated from CRISPR-Cas9 genome edited CSF3R-d715 SCN or control-derived iPSCs with the STEMdi...
ORGANISM(S): Homo sapiens 
2020-08-24 | E-MTAB-9375 | biostudies-arrayexpress
TranscriptomicsRNA sequencing comparing SCN CSF3R-d715 RUNX1-D171N (RHD) treated with the HDAC inhibitor MS275, octyl-(R)-2hydroxyglutarate (2HG) or solvent control (DMSO)
Effects of TET2 on repressing inflammation have been assigned to its methylcytosine dioxygenase activity, but also to its ability to recruit HDAC-mediated repressor activity to pro-inflammatory genes. To discriminate between the two above-proposed functions of TET2, we asked how inhibition of its en...
ORGANISM(S): Homo sapiens 
2020-08-24 | E-MTAB-9374 | biostudies-arrayexpress
TranscriptomicsRNA sequencing comparing the effect of the introduction of RUNX1-D171N in Csf3r-d715 mice bone marrow cells
To address how Csf3r and RUNX1 mutations in combination with CSF3 administration affect hematopoiesis in vitro, we performed hematopoietic expansion cultures in LODISH stem cell expansion medium. Lineage-negative Csfr-d715 BM cell cells were retrovirally transduced with the patient specific RUNX1-D1...
ORGANISM(S): Mus musculus 
2020-08-24 | E-MTAB-9373 | biostudies-arrayexpress
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