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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
TranscriptomicsCell cycle promoter tiling
Discover novel transcriptional units upstream of cell cycle genes Transcription of long noncoding RNAs (lncRNAs) within gene regulatory elements can modulate gene activity in response to external stimuli, but the scope and functions of such noncoding transcription are not known. Here we use an ultr...
ORGANISM(S): Homo sapiens 
2011-05-21 | E-GEOD-28631 | 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
ProteomicsProteomic Profiling in HeLa Cells
This study combined co-immunoprecipitation (Co-IP) and LC-MS/MS proteomics in MARCH8-overexpressing HeLa cells to identify potential substrates of the E3 ubiquitin ligase MARCH8. Using empty vector-transfected cells as controls, we generated a comprehensive protein interaction dataset to elucidate M...
ORGANISM(S): Homo Sapiens 
2025-03-23 | PXD062157 |
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
TranscriptomicsSynthetic Lethality (SLAM) Project Data
Synthetic lethality is a type of genetic interaction in which two non-lethal mutations acting together result in a loss of viability. Such interactions are important for the insights they may offer into how gene functions are organized into distinct cellular processes. The datasets in this Series re...
ORGANISM(S): Saccharomyces cerevisiae 
2013-02-28 | E-GEOD-14217 | biostudies-arrayexpress
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