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ProteomicsTHEMIS is a novel substrate and allosteric activator of SHP1, playing dual roles during T cell development
By combining strategies of substrate trapping for PTPs and pupylation-based interaction tagging (PUP-IT) for protein-protein interaction, we develop a systematic proximity labeling methodology PEPSI in identifying novel substrate for PTPs. We apply this approach to SHP1 and surprisingly, identified ...
ORGANISM(S): Homo Sapiens 
PXD028689 |
GenomicsNkx2-1 Represses a Latent Gastric Differentiation Program in Lung Adenocarcinoma
Tissue-specific differentiation programs become dysregulated during cancer evolution. The transcription factor Nkx2-1 is a master regulator of pulmonary differentiation that is downregulated in poorly differentiated lung adenocarcinoma. Here we use conditional murine genetics to study the fate of l...
ORGANISM(S): Mus musculus 
2013-04-09 | E-GEOD-43252 | biostudies-arrayexpress
MetabolomicsELAPOR1 induces the classical/progenitor subtype and contributes to reduced disease aggressiveness through metabolic reprogramming in pancreatic cancer
Pancreatic ductal adenocarcinoma (PDAC) is a heterogeneous disease with distinct molecular subtypes described as classical/progenitor and basal-like/squamous PDAC. We hypothesized that integrative transcriptome and metabolome approaches can identify candidate genes whose inactivation contributes to ...
2024-04-02 | MTBLS9418 | MetaboLights
UnknownProspective study to define the clinical utility and benefit of Decipher testing in men following prostatectomy.
Not available
S-EPMC7237345 | biostudies-literature
Transcriptomicsp63+/Krt5+ Distal Airway Stem Cells are Essential for Lung Regeneration (transplanted and damaged)
The possibility of lung regeneration has been long discounted due to the irreversible nature of chronic lung diseases. However, patients who sustain massive loss of lung tissue during acute infections often recover full pulmonary function. Correspondingly, we previously demonstrated lung regenerat...
ORGANISM(S): Mus musculus 
2014-11-20 | E-GEOD-60830 | biostudies-arrayexpress
Transcriptomicsp63+/Krt5+ Distal Airway Stem Cells are Essential for Lung Regeneration (Dtox treatment)
The possibility of lung regeneration has been long discounted due to the irreversible nature of chronic lung diseases. However, patients who sustain massive loss of lung tissue during acute infections often recover full pulmonary function. Correspondingly, we previously demonstrated lung regenerat...
ORGANISM(S): Mus musculus 
2014-11-20 | E-GEOD-60829 | biostudies-arrayexpress
Transcriptomicsp63+/Krt5+ Distal Airway Stem Cells are Essential for Lung Regeneration (tracheal epithelium and alveoli)
The possibility of lung regeneration has been long discounted due to the irreversible nature of chronic lung diseases. However, patients who sustain massive loss of lung tissue during acute infections often recover full pulmonary function. Correspondingly, we previously demonstrated lung regenerat...
ORGANISM(S): Mus musculus 
2014-11-20 | E-GEOD-61091 | biostudies-arrayexpress
Transcriptomicsp63+/Krt5+ Distal Airway Stem Cells are Essential for Lung Regeneration (before and after in vitro differentiation)
The possibility of lung regeneration has been long discounted due to the irreversible nature of chronic lung diseases. However, patients who sustain massive loss of lung tissue during acute infections often recover full pulmonary function. Correspondingly, we previously demonstrated lung regenerat...
ORGANISM(S): Mus musculus 
2014-11-20 | E-GEOD-60828 | biostudies-arrayexpress
TranscriptomicsImpact of library preparation on downstream analysis and interpretation of RNA-seq data: comparison between Illumina PolyA and NuGEN Ovation protocol
Objectives: The sequencing by the PolyA selection is the most common approach for library preparation. With limited amount or degraded RNA, alternative protocols such as the NuGEN have been developed. However, it is not yet clear how the different library preparations affect the downstream analyses ...
ORGANISM(S): Homo sapiens 
2013-08-28 | E-GEOD-47933 | biostudies-arrayexpress
TranscriptomicsDeep Sequence Analysis of the Relationship between Gene Expression, CpG Island Methylation, and Gene Copy Number in Breast Cancer Cells
We used deep sequencinge technology to profile the transcriptome, gene copy number, and CpG island methylation status simultaneously in eight commonly used breast cell lines to develop a model for how these genomic features are integrated in estrogen receptor positive (ER+) and negative breast cance...
ORGANISM(S): Homo sapiens 
2011-03-16 | E-GEOD-27003 | biostudies-arrayexpress
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