Silencing of NFYC-AS1 by Gapmer antisense oligonucleotides and CRISPR/Cas9 TSS deletion.
RNA-seq (gene expression) · human · 23 samples
- What it is
- RNA-seq (gene expression)Gene activity measured by sequencing. The summary does not mention single-cell work, so this is most likely bulk: one average per sample, the usual starting point for comparing groups.
- Organism
- Homo sapiens (human)
- Samples
- 23 samples: 18 distinct titles, 2 of them repeatedGroups are read from the sample names, not from the paper. Check the list below.
- Data you can get
- A processed table (series matrix) and supplementary files from NCBI; the raw sequencing reads from ENA. Which of these hold counts depends on the study, so check the file list.
- Paper
- The pancancer overexpressed NFYC Antisense 1 controls cell cycle mitotic progression through in cis and in trans modes of actionCell death & disease · 2024
Direct links to NCBI and ENA, no account and no request form. Pick by what you want to do: take the small processed table to look, the supplementary files to re-analyse, or the original raw data to start over.
Processed table
The series matrix: one table of values per sample as the submitters processed it. The smallest download, and it opens in Excel or R. Start here to see what the data look like.
Supplementary files
The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE240468_RAW.tar (it can run to tens of gigabytes).
Raw sequencing reads
The original FASTQ files, straight from the sequencer, held at ENA. Large, and you align them yourself, so only choose this if you need to re-process the study from scratch.
What the files usually look like: For RNA-seq the counts are usually a table among the supplementary files (look for 'counts', 'expression', 'FPKM' or 'TPM' in the file name). The series matrix of a sequencing study is sometimes nearly empty.
Also filed as BioProject PRJNA1003851 and SRA study SRP454251. Searching any of these in the dataset finder brings you back here.
How we read this: Read from 23 sample titles: 18 distinct titles with little repetition. These groups are guessed from the sample names, not taken from the paper, so check them against the sample list below before relying on them.
- GSM7698412 RNA
- GSM7698413 RNB
- GSM7698414 RNC
- GSM7698415 RND
- GSM7698416 R2A
- GSM7698417 R2B
- GSM7698418 R2C
- GSM7698419 R2D
- GSM7698420 R3A
- GSM7698421 R3B
- GSM7698422 R3C
- GSM7698423 R3D
- GSM7698424 R4A
- GSM7698425 R4B
- GSM7698426 R4C
- GSM7698427 R4D
- GSM7698428 E1
- GSM7698429 E2
- GSM7698430 E4
- GSM7698431 E5
- GSM7698432 W1
- GSM7698433 W2
- GSM7698434 W3
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- GSE301632 Genome-wide CRISPR-Cas9 knockout screening identifies NUDCD2 depletion as sensitizer for bortezomib, carfilzomib and ixazomib in multiple myeloma. 27 samples shares crispr, cas9
- GSE303100 Dissecting Resistance to CDK4/6 Inhibition in Experimental Glioma via Genome-wide CRISPR-Cas9 Screening 24 samples shares crispr, cas9
- GSE248671 Gene expression analysis of human sickle cell disease (SCD) and healthy donor (HD) CD34+ hematopoietic stem/progenitor cells (HSPCs) treated with CRISPR/Cas9 targeting the HBG promoters or untreated samples 24 samples shares crispr, cas9
- GSE283554 A CRISPR/Cas9-based enhancement of high-throughput single-cell transcriptomics 22 samples shares crispr, cas9
- GSE226978 RNA-Sequencing Analysis of LNCaP Wildtype (WT) and RB-p53 CRISPR-Cas9 Double Knockout (DKO) Cells Treated with Enzalutamide 16 samples shares crispr, cas9
- GSE319117 Simultaneous orthogonal cell engineering by a single CRISPR-Cas9 polyfunctional editor [RNA-seq T-cells B2M/TET2/TGFBR2] 14 samples shares crispr, cas9
- GSE330047 CRISPR/Cas9-MEDIATED PHOX2B FUNCTIONAL KNOCK-OUT IN IMR32 NEUROBLASTOMA CELLS IMPAIRS NEURONAL EXCITABILITY THROUGH DYSREGULATION OF ION CHANNELS GENES 13 samples shares crispr, cas9
Metadata from NCBI GEO, cached and refreshed periodically — the NCBI page above is authoritative. Downloads link straight to NCBI/ENA; nothing is proxied through BioTransfer.