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Knockdown of PTBP3 in human K562 cells

ABSTRACT: PTBP1 is a widely expressed RNA binding protein known to play roles in regulation of alternative pre-mRNA splicing and other post-transcriptional processes. The PTBP2 paralog is expressed in neurons and switching from expression of PTBP1 to PTBP2 regulates a subset of alternative splicing events during neuronal differentiation. The PTBP3 paralog is conserved across vertebrates and is expressed highly in cells of the hematopoietic system. However, the unique non-redundant roles of PTBP3 are currently unclear. We therefore tested the transcriptomic consequences of knocking down PTBP3 in human K562 erythroleukemia cells. K562 cells were treated with two separate siRNAs (Rd5 and Rd9) targeted against all isoforms of PTBP3 or with a control non-specific siRNA (C2). Triplicate samples were used for each of the three experimental conditions. Transcriptome analysis used the Affymetrix HJAY array, allowing detection of changes in alternative splicing and in transcript levels. Despite at least 75% PTBP3 depletion, as monitored by western blot, only modest changes at the transcriptome level were observed.

ORGANISM(S): Homo sapiens

SUBMITTER: Chris Smith

PROVIDER: E-MTAB-4847 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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An Alternative Splicing Event Amplifies Evolutionary Differences Between Vertebrates

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2016-07-03 | E-GEOD-70985 | biostudies-arrayexpress

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2016-07-03 | E-GEOD-71075 | biostudies-arrayexpress

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Global regulation of alternative splicing by adenosine deaminase acting on RNA (ADAR) [RNA-seq]

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2013-06-17 | E-GEOD-47997 | biostudies-arrayexpress

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2016-07-03 | E-GEOD-71079 | biostudies-arrayexpress

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