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TranscriptomicsHigh-resolution profiling and analysis of viral and host small RNAs during human cytomegalovirus infection
Small RNA deep sequencing analysis was conducted on primary human fibroblasts infected with human cytomegalovirus (HCMV). HCMV-encoded miRNAs accumulated to ~20% of the total smRNA population at late stages of infection, and our analysis led to improvements in viral miRNA annotations and identificat...
ORGANISM(S): Homo sapiens 
2011-11-10 | E-GEOD-33584 | biostudies-arrayexpress
TranscriptomicsIntegrative genome-wide analysis reveals cooperative regulation of alternative splicing by hnRNP proteins
This SuperSeries is composed of the following subset Series: GSE34992: Integrative genome-wide analysis reveals cooperative regulation of alternative splicing by hnRNP proteins (splice array) GSE34993: Integrative genome-wide analysis reveals cooperative regulation of alternative splicing by hnRNP p...
ORGANISM(S): Homo sapiens 
2012-02-20 | E-GEOD-34996 | biostudies-arrayexpress
TranscriptomicsDisrupted processing of long pre-mRNAs and widespread RNA missplicing are components of neuronal vulnerability from loss of nuclear TDP-43 (CLIP)
Cross-linking and immunoprecipitation coupled with high-throughput sequencing was used to identify binding sites within 6,304 genes as the brain RNA targets for TDP-43, an RNA binding protein which when mutated causes Amyotrophic Lateral Sclerosis (ALS). Use of massively parallel sequencing and spli...
ORGANISM(S): Mus musculus 
2011-03-03 | E-GEOD-27201 | biostudies-arrayexpress
UnknownPlasmid-Mediated Co-Occurrence of <i>mcr-1.1</i> in Extended-Spectrum <i>β</i>-Lactamase (ESBL)-Producing <i>Escherichia coli</i> Isolated From the Indigenous Seminomadic Community in Malaysia.
Not available
S-EPMC12017022 | biostudies-literature
TranscriptomicsEnhanced CLIP (eCLIP) enables robust and scalable transcriptome-wide discovery and characterization of RNA binding protein binding sites
This SuperSeries is composed of the SubSeries listed below. Refer to individual Series
ORGANISM(S): Homo sapiens 
2016-03-28 | E-GEOD-77634 | biostudies-arrayexpress
Proteomics,MultiomicsMudPIT analyses of the proteins co-purified with Halo-tagged Human HNRNP proteins from HEK293T cells with and without RNAse
Plasmids encoding full-length open-reading frames (ORF) of heterogeneous nuclear ribonucleoproteins fused to a HaloTag (HT) were transfected in human HEK293T cells in biological duplicates. The expressed proteins were: HNRNPA0 (NM_006805; NP_006796.1), HNRNPA1 (NM_002136; NP_002127.1), HNRNPD (NM_00...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2016-04-18 | MSV000079669 | MassIVE
TranscriptomicsDivergent roles of ALS-linked proteins FUS/TLS and TDP-43 intersect in processing long pre-mRNAs (CLIP-Seq)
FUS/TLS and TDP-43 are RNA/DNA-binding proteins integrally involved in amyotrophic lateral sclerosis (ALS) and frontal temporal dementia. FUS/TLS is shown to bind RNAs from >5,500 genes in mouse and human brain, primarily through a GUGGU binding motif. A characteristic sawtooth-like binding pattern ...
ORGANISM(S): Homo sapiens 
2012-09-30 | E-GEOD-40651 | biostudies-arrayexpress
TranscriptomicsFunctional analyses of human LUC7-like proteins involved in splicing regulation and myeloid neoplasms
We characterized the functions of the understudied LUC7-like family of splicing factors in human cells using seCLIP-seq, RBP knockdown followed by RNA-seq, and Co-IP mass spectrometry.
ORGANISM(S): Homo sapiens 
2021-04-14 | E-MTAB-9709 | biostudies-arrayexpress
UnknownReintroduction of the archaic variant of NOVA1 in cortical organoids alters neurodevelopment.
Not available
S-EPMC8006534 | biostudies-literature
TranscriptomicsEnhanced CLIP uncovers IMP protein-RNA targets in human pluripotent stem cells important for cell adhesion and survival
This SuperSeries is composed of the SubSeries listed below. Refer to individual Series
ORGANISM(S): Homo sapiens 
2016-04-07 | E-GEOD-78509 | biostudies-arrayexpress
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