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GEO help: Mouse over screen elements for information. |
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Status |
Public on Dec 01, 2022 |
Title |
PARP1 gene knockout suppresses expression of DNA Base Excision Repair genes |
Organism |
Homo sapiens |
Experiment type |
Expression profiling by high throughput sequencing
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Summary |
PARP1 is a member of various DNA repair pathways - main target for anti-cancer treatment. We evaluated the effect of topotecan and TDP1 Inhibitor in HEK293 wild-type and PARP1 knockout cells on the gene expression
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Overall design |
Knockout HEK293A cell line was generated using the CRISPR/Cas9 method. gRNA were design against region with constitutive protein-encoding exons of Parp1 gene. Then, we performed comparative gene expression profiling analysis of RNA-seq data for HEK293 wild type cells and Parp1 KO under influnce of topotecan, OL9-119 and its combination.
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Contributor(s) |
Dyrkheeva NS, Malakhova AA, Zakharenko AL, Okorokova LS, Shtokalo DN, Pavlova SV, Medvedev SP, Zakian SM, Nushtaeva AA, Kabilov MR, Tupikin AA, Luzina OA, Salakhutdinov NF, Lavrik OI |
Citation(s) |
36982223 |
Submission date |
Nov 28, 2022 |
Last update date |
Oct 23, 2023 |
Contact name |
Maxim Ri |
E-mail(s) |
maxim.ree@gmail.com
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Organization name |
LLC AcademGene
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Street address |
Lavrenteva st. 6
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City |
Novosibirsk |
ZIP/Postal code |
630090 |
Country |
Russia |
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Platforms (1) |
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Samples (40)
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GSM6758020 |
L01_4, WT, OL9, biol rep 1 |
GSM6758021 |
L01_13, WT, TPC, biol rep 1 |
GSM6758022 |
L01_97, KO_PARP1, no, biol rep 1 |
GSM6758023 |
L01_98, KO_PARP1, DMSO, biol rep 1 |
GSM6758024 |
L01_99, KO_PARP1, TPC_OL9, biol rep 1 |
GSM6758025 |
L01_100, KO_PARP1, OL9, biol rep 1 |
GSM6758026 |
L01_101, KO_PARP1, TPC, biol rep 1 |
GSM6758027 |
L01_102, KO_PARP1, no, biol rep 2 |
GSM6758028 |
L01_103, KO_PARP1, DMSO, biol rep 2 |
GSM6758029 |
L01_104, KO_PARP1, TPC_OL9, biol rep 2 |
GSM6758030 |
L02_14, WT, no, biol rep 2 |
GSM6758031 |
L02_15, WT, DMSO, biol rep 2 |
GSM6758032 |
L02_16, WT, TPC_OL9, biol rep 2 |
GSM6758033 |
L02_114, WT, OL9, biol rep 2 |
GSM6758034 |
L02_115, WT, TPC, biol rep 2 |
GSM6758035 |
L02_121, KO_PARP1, OL9, biol rep 2 |
GSM6758036 |
L02_122, KO_PARP1, TPC, biol rep 2 |
GSM6758037 |
L02_123, KO_PARP1, no, biol rep 3 |
GSM6758038 |
L02_124, KO_PARP1, DMSO, biol rep 3 |
GSM6758039 |
L02_125, KO_PARP1, TPC_OL9, biol rep 3 |
GSM6758040 |
L02_126, KO_PARP1, OL9, biol rep 3 |
GSM6758041 |
L02_127, KO_PARP1, TPC, biol rep 3 |
GSM6758042 |
L02_128, KO_PARP1, no, biol rep 4 |
GSM6758043 |
L03_116, WT, no, biol rep 3 |
GSM6758044 |
L03_117, WT, DMSO, biol rep 3 |
GSM6758045 |
L03_25, WT, TPC_OL9, biol rep 3 |
GSM6758046 |
L03_26, WT, OL9, biol rep 3 |
GSM6758047 |
L03_28, WT, TPC, biol rep 3 |
GSM6758048 |
L03_29, WT, no, biol rep 4 |
GSM6758049 |
L03_30, WT, DMSO, biol rep 4 |
GSM6758050 |
L03_32, WT, TPC_OL9, biol rep 4 |
GSM6758051 |
L03_33, WT, OL9, biol rep 4 |
GSM6758052 |
L03_34, WT, TPC, biol rep 4 |
GSM6758053 |
L03_124, KO_PARP1, DMSO, biol rep 4 |
GSM6758054 |
L03_126, KO_PARP1, TPC_OL9, biol rep 4 |
GSM6758055 |
L03_127, KO_PARP1, OL9, biol rep 4 |
GSM6758056 |
L03_128, KO_PARP1, TPC, biol rep 4 |
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Relations |
BioProject |
PRJNA906061 |
Supplementary file |
Size |
Download |
File type/resource |
GSE218871_raw_counts.tsv.gz |
1.6 Mb |
(ftp)(http) |
TSV |
SRA Run Selector |
Raw data are available in SRA |
Processed data are available on Series record |
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