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Effect of INTS11, INTS9, CPSF73 knockdown on transcription

ABSTRACT: Effect of INTS11, INTS9, CPSF73 knockdown on transcription

PROVIDER: PRJNA854600 | ENA |

REPOSITORIES: ENA

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Effect of INTS11, INTS9, CPSF73 knockdown on transcription

Project description:As a key component for transcription, Transcriptional results of INTS11 knockdown were analyzed by chromatin associated RNA sequencing (ChrRNA-seq). We used ChrRNA-seq, 4sU-seq and TT-seq data of HCT116-INTS11-AID cells under normal condition, induction condition and recovery condition, and HCT116-INTS9-AID cells, Chrna-seq data of HCT116-CPSF73-AID cells before and after protein knockdown were analyzed for gene expression profile.

2023-07-25 | GSE207268 | GEO

Distribution of RNA polymerase II and changes of carbo-terminal phosphorylation sites after INTS11 knockdown

Project description:As Integrator is tightly associated with RNAPII-CTD, it is critical to understand how the RNAPII engaged and conducted within the active gene promoter for divergent transcription. We thus employed RNAPII ChIP-seq (Chromatin Immuno-precipitation with RNAPII antibody) to determine the distribution of the total RNAPII and its phosphorylation isoforms. Total RNA polymerase II and its carbon terminal phosphorylation(RNA polymerase II-ctd-Tyr-1，RNA polymerase II-ctd-ser-2) before and after INTS11 knockdown in HCT116-INTS11-AID cells changes chromatin immunoprecipitation DNA sequencing (ChIP-seq).

2023-07-25 | GSE207269 | GEO

Human promoter directionality is determined by transcriptional initiation and the opposing activities of INTS11 and CDK9 (INTS11-dTAG_ChIP-seq)

Project description:RNA polymerase II (RNAPII) transcription initiates bidirectionally at many human protein-coding genes. Sense transcription usually dominates and leads to messenger RNA production, whereas antisense transcription rapidly terminates. The basis for this directionality is not fully understood. Here, we show that sense transcriptional initiation is more efficient and focused than in the antisense direction. After transcription begins, directionality is maintained by the opposing functions of Integrator (INTS11) and cyclin-dependent kinase 9 (CDK9). INTS11 terminates antisense transcription, whereas sense transcription is protected from this attenuation by CDK9. However, INTS11 terminates transcription in both directions upon CDK9 inhibition, and the engineered recruitment of CDK9 abrogates attenuation by INTS11. Therefore, transcriptional initiation and the asymmetric activities of CDK9 and INTS11 explain the attenuation of antisense transcription, the more extensive nature of sense transcription, and promoter directionality.

2024-03-19 | GSE243259 | GEO

Human promoter directionality is determined by transcriptional initiation and the opposing activities of INTS11 and CDK9 (INTS11dTAG_POINT-seq)

2024-03-19 | GSE243262 | GEO

Human promoter directionality is determined by transcriptional initiation and the opposing activities of INTS11 and CDK9 (TS11dTAG_NVP2_POINT-seq)

2024-03-19 | GSE243260 | GEO

Human promoter directionality is determined by transcriptional initiation and the opposing activities of INTS11 and CDK9 (INTS11dTAG_sPOINT-seq)

2024-03-19 | GSE243264 | GEO

Human promoter directionality is determined by transcriptional initiation and the opposing activities of INTS11 and CDK9 (RBBP6_POINT-Seq)

2024-03-19 | GSE243265 | GEO

Ints11 is essential for normal function of hematopoietic stem/progenitor cells [ChIP-Seq]

Project description:To investigate the role of INTS11 in normal hematopoiesis, Ints11 conditional KO mouse model was generated. We purified the Lin-cKit+ cells from bone marrow of WT and Ints11 KO mice and performed the ChIP-seq using different histone modifications to invesigate the gene regulation.

2021-09-22 | GSE159402 | GEO

Ints11 is essential for normal function of hematopoietic stem/progenitor cells [RNA-seq]

Project description:To investigate the role of INTS11 in normal hematopoiesis, Ints11 conditional KO mouse model was generated. We purified the Lin-cKit+ cells from bone marrow of WT and Ints11 KO mice and studied the differentially expressed genes due to the Ints11 loss.

2021-09-22 | GSE159403 | GEO

TT-seq on INTS11-degron cells

Project description:Here, we use elongation velocity analysis showed that acute loss INTS11 caused a general transcriptome-wide attenuation of elongation velocity in cells.

2023-04-23 | GSE230125 | GEO

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