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Status |
Public on Nov 10, 2023 |
Title |
Epigenetic regulator landscape of HOX/MEIS expression in AML |
Organism |
Homo sapiens |
Experiment type |
Expression profiling by high throughput sequencing Genome binding/occupancy profiling by high throughput sequencing Other
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Summary |
This SuperSeries is composed of the SubSeries listed below.
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Overall design |
Refer to individual Series
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Citation missing |
Has this study been published? Please login to update or notify GEO. |
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Submission date |
Nov 11, 2022 |
Last update date |
Nov 10, 2023 |
Contact name |
Karina Ofelia Barbosa Guerra |
E-mail(s) |
karinabarbosa4@gmail.com, adeshpande@sbpdiscovery.org
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Organization name |
Sanford Burnham Prebys Medical Discovery Institute
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Department |
Tumor Initiation & Maintenance Program
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Lab |
Deshpande
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Street address |
10901 North Torrey Pines Rd, Deshpande Lab RM6210B
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City |
La Jolla |
State/province |
CA |
ZIP/Postal code |
92037 |
Country |
USA |
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Platforms (2) |
GPL18573 |
Illumina NextSeq 500 (Homo sapiens) |
GPL24676 |
Illumina NovaSeq 6000 (Homo sapiens) |
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Samples (47)
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GSM6726605 |
U937 cells, CNK2A1 knockout, rep 1 |
GSM6726606 |
U937 cells, CNK2A1 knockout, rep 2 |
GSM6726607 |
U937 cells, CNK2A1 knockout, rep 3 |
GSM6726608 |
U937 cells, non-targeting control, rep 1 |
GSM6726609 |
U937 cells, non-targeting control, rep 2 |
GSM6726610 |
U937 cells, non-targeting control, rep 3 |
GSM6726611 |
U937 cells, non-targeting control, rep 4 |
GSM6726612 |
U937 cells, SGF29 knockout, rep 1 |
GSM6726613 |
U937 cells, SGF29 knockout, rep 2 |
GSM6726614 |
U937 cells, SGF29 knockout, rep 3 |
GSM6726615 |
U937 cells, non-targeting control, SGF29 batch, rep 1 |
GSM6726616 |
U937 cells, non-targeting control, SGF29 batch, rep 2 |
GSM6726617 |
U937 cells, non-targeting control, SGF29 batch, rep 3 |
GSM6726618 |
MOLM13 cells, SGF29 knockout, rep 1 |
GSM6726619 |
MOLM13 cells, SGF29 knockout, rep 2 |
GSM6726620 |
MOLM13 cells, non-targeting control, rep 1 |
GSM6726621 |
MOLM13 cells, non-targeting control, rep 2 |
GSM6726622 |
MOLM13 cells, non-targeting control, rep 3 |
GSM6726623 |
U937, non-targeting control, IGG [UB3_NTC1_IGG] |
GSM6726624 |
U937, non-targeting control, H3K9AC, Replicate 1 [UB3_NTC1_K9AC] |
GSM6726625 |
U937, non-targeting control, H3K9AC, Replicate 2 [UB3_NTC2_K9AC] |
GSM6726626 |
U937, non-targeting control, H3K9Me3, Replicate 1 [UB3_NTC1_K9M3] |
GSM6726627 |
U937, non-targeting control, H3K9Me3, Replicate 2 [NTC2_K9M3] |
GSM6726630 |
U937, non-targeting control, H2K120Ub1, Replicate 1 [NTC1_H2B] |
GSM6726631 |
U937, non-targeting control, H2K120Ub1, Replicate 2 [NTC2_H2B] |
GSM6726632 |
U937, SGF29 knockout, IGG [SGFKO_IGG] |
GSM6726633 |
U937, SGF29 knockout, H3K9AC, Replicate 1 [SGFKO1_K9AC] |
GSM6726634 |
U937, SGF29 knockout, H3K9AC, Replicate 2 [SGFKO2_K9AC] |
GSM6726637 |
U937, SGF29 knockout, H2K120Ub1, Replicate 1 [SGFKO1_H2B] |
GSM6726638 |
U937, SGF29 knockout, H2K120Ub1, Replicate 2 [SGFKO2_H2B] |
GSM6726639 |
U937, non-targeting control, input [NTC_R1_INPUT] |
GSM6726640 |
U937, SGF29 knockout, input [SGF_R1_INPUT] |
GSM6726642 |
U937 SGF29 D196R FLAG mutant overexpression, Flag antibody, Replicate 2 [Mutant_H2_Flag] |
GSM6726643 |
U937 SGF29 D196R FLAG mutant overexpression, input [Mutant_H2_input] |
GSM6726644 |
U937 SGF29 FLAG overexpression, Flag antibody, Replicate 1 [WT_F7_Flag] |
GSM6726645 |
U937 SGF29 FLAG overexpression, input [WT_F7_input] |
GSM6726647 |
U937 cells, Epigenetic CRISPR pool, Day 0 unsorted, clone D5 |
GSM6726648 |
U937 cells, Epigenetic CRISPR pool, Day 5 GFP-high, clone D5 |
GSM6726649 |
U937 cells, Epigenetic CRISPR pool, Day 5 GFP-low, clone D5 |
GSM6726650 |
U937 cells, Epigenetic CRISPR pool, Day 0 unsorted, clone E6 |
GSM6726651 |
U937 cells, Epigenetic CRISPR pool, Day 5 GFP-high, clone E6 |
GSM6726652 |
U937 cells, Epigenetic CRISPR pool, Day 5 GFP-low, clone E6 |
GSM6726653 |
U937 CROPseq, replicate 1, scRNAseq |
GSM6726654 |
U937 CROPseq, replicate 2, scRNAseq |
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This SuperSeries is composed of the following SubSeries:
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GSE217776 |
Effect of CRISPR knockout of MLL, CSNK2A1 and SGF29 on gene expression profiles in acute myeloid leukemia U937 cells [RNA-seq] |
GSE217777 |
Mapping of genome-wide histone modifications in SGF29 knockout vs NTC U937 AML cells. Mapping of binding of SGF29 and Tudor-domain mutant SGF29_D196R by FLAG ChIP [ChIP-seq SGF29] |
GSE217778 |
CRISPR Phenotypic enrichment screen for epigenetic regulators of MEIS1 expression in acute myeloid leukemia (AML) [CRISPRScreens] |
GSE217779 |
The Epigenetic Regulator Landscape of HOX/MEIS Expression in AML [scRNA-seq] |
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Relations |
BioProject |
PRJNA900618 |
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