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TranscriptomicsPTB CLIP-seq
Recent transcriptome analysis indicates that >90% of human genes undergoes alternative splicing, underscoring the contribution of differential RNA processing to diverse proteomes in higher eukaryotic cells. The polypyrimidine tract binding protein PTB is a well-characterized splicing repressor, but ...
ORGANISM(S): Homo sapiens 
2009-12-24 | E-GEOD-19323 | biostudies-arrayexpress
TranscriptomicsEpigenomic landscapes of human inflammation associated macrophages [RNA-seq]
We previously demonstrated by genomic and bioinformatical approaches that human macrophage (MΦ) activation is best described by a spectrum model (Xue et al, Immunity, 2014). MΦ integrate exogenous input signals on transcriptional level in a unique fashion to generate specific functional programs, ...
ORGANISM(S): Homo sapiens 
2016-02-28 | E-GEOD-66593 | biostudies-arrayexpress
TranscriptomicsEvaluating the Impact of Sequencing Depth on Transcriptome Profiling in Human Adipose
Recent advances in RNA sequencing (RNA-Seq) have enabled the discovery of novel transcriptomic variations that are not possible with traditional microarray-based methods. Tissue and cell specific transcriptome changes during pathophysiological stress, in disease cases versus controls and in response...
ORGANISM(S): Homo sapiens 
2013-07-12 | E-GEOD-46323 | biostudies-arrayexpress
MetabolomicsA novel strategy for mining and identification of acylcarnitines using data-independent-acquisition (DIA) based retention time prediction modeling and pseudo-characteristic fragmentation ions matching
It is a challenging work to screen, identify, and quantify acylcarnitines in complex biological samples. A method, based on the retention time (RT) prediction and data-independent acquisition strategies, was proposed for the large-scale identification of acylcarnitines using liquid chromatography co...
2021-10-06 | MTBLS1932 | MetaboLights
GenomicsAcetylated histone H3K56 interacts with Oct4 to promote mouse embryonic stem cell pluripotency
The presence of acetylated histone H3K56 in human embryonic stem cells (ESCs) correlates positively with the binding of Nanog, Sox2 and Oct4 (NSO) transcription factors at their target gene promoters. However, the function of H3K56ac there has been unclear. We now report that Oct4 interacts with K56...
ORGANISM(S): Mus musculus 
2013-06-25 | E-GEOD-47387 | biostudies-arrayexpress
TranscriptomicsFunctional and Transcriptomic Characterization of iPSC-derived Macrophages and their Application in Modeling Mendelian Disease
Using RNA-Seq, we reported novel findings in the comparison of transcriptome profiles of isogenic HMDM and IPSDM during differentiation and polarization. First, IPSDM lost expression of pluripotency markers, had remarkably distinct gene expression profiles relative to precursor iPSCs, and had largel...
ORGANISM(S): Homo sapiens 
2015-07-08 | E-GEOD-55536 | biostudies-arrayexpress
UnknownOssification of the cervical anterior longitudinal ligament is an underdiagnosed cause of difficult airway: a case report and review of the literature.
Not available
S-EPMC7325286 | biostudies-literature
TranscriptomicsTissue-specific RNA-seq in human evoked inflammation identifies novel blood and adipose lincRNA signatures of cardio-metabolic diseases
Inappropriate or sustained activation of innate immunity is a pathologic feature of several common cardio-metabolic disorders. Little is known, however, about transcriptomic modulation during inflammatory stress in disease-relevant human tissues. We applied deep RNA sequencing (RNA-seq) during low-d...
ORGANISM(S): Homo sapiens 
2014-01-02 | E-GEOD-50792 | biostudies-arrayexpress
ProteomicsHuman pancreatic cancer LC-MSMS
Despite decades of effort, pancreatic adenocarcinoma (PDAC) remains an intractable clinical challenge. An insufficient understanding of mechanisms underlying tumor cell responses to chemotherapy contributes significantly to the lack of effective treatment regimens. Here, paclitaxel, a first-line che...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2018-08-31 | MSV000082878 | MassIVE
TranscriptomicsTranscriptome-based network analysis reveals a spectrum model of human macrophage activation [miRNA-seq]
Macrophage activation is associated with profound transcriptional reprogramming. Although much progress has been made in the understanding of macrophage activation, polarization and function, the transcriptional programs regulating these processes remain poorly characterized. We stimulated human mac...
ORGANISM(S): Homo sapiens 
2014-02-13 | E-GEOD-51307 | biostudies-arrayexpress
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