RNA-seq study of a helicon peptide targeting β-Catenin/TCF transcription factor [PDX]
RNA-seq (gene expression) · human · 31 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
- 31 samples: 31 samples, each with a distinct title — no replicated groupsGroups 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.
Read the full summary ↓
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 GSE228260_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 PRJNA949163. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 31 sample titles: 31 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.
- GSM7117855 Gr1, rep1 [C22012985LR01_Gr1_620210]
- GSM7117856 Gr1, rep2 [C22012986LR01_Gr1_620232]
- GSM7117857 Gr1, rep3 [C22012987LR01_Gr1_620233]
- GSM7117858 Gr1, rep4 [C22012988LR01_Gr1_620239]
- GSM7117859 Gr1, rep5 [C22012989LR01_Gr1_620243]
- GSM7117860 Gr1, rep6 [C22012990LR01_Gr1_620270]
- GSM7117861 Gr1, rep7 [C22012991LR01_Gr1_620298]
- GSM7117862 Gr1, rep8 [C22012992LR01_Gr1_620308]
- GSM7117863 Gr2, rep1 [C22012993LR01_Gr2_620211]
- GSM7117864 Gr2, rep2 [C22012994LR01_Gr2_620222]
- GSM7117865 Gr2, rep3 [C22012995LR01_Gr2_620253]
- GSM7117866 Gr2, rep4 [C22012996LR01_Gr2_620254]
- GSM7117867 Gr2, rep5 [C22012997LR01_Gr2_620283]
- GSM7117868 Gr2, rep6 [C22012998LR01_Gr2_620289]
- GSM7117869 Gr2, rep7 [C22012999LR01_Gr2_620290]
- GSM7117870 Gr2, rep8 [C22013000LR01_Gr2_620320]
- GSM7117871 Gr3, rep1 [C22013001LR01_Gr3_620204]
- GSM7117872 Gr3, rep2 [C22013002LR01_Gr3_620260]
- GSM7117873 Gr3, rep3 [C22013003LR01_Gr3_620262]
- GSM7117874 Gr3, rep4 [C22013004LR01_Gr3_620265]
- GSM7117875 Gr3, rep5 [C22013006LR01_Gr3_620288]
- GSM7117876 Gr3, rep6 [C22013007LR01_Gr3_620305]
- GSM7117877 Gr3, rep7 [C22013008LR01_Gr3_620326]
- GSM7117878 Gr4, rep1 [C22013009LR01_Gr4_620223]
- GSM7117879 Gr4, rep2 [C22013010LR01_Gr4_620231]
- GSM7117880 Gr4, rep3 [C22013011LR01_Gr4_620242]
- GSM7117881 Gr4, rep4 [C22013012LR01_Gr4_620325]
- GSM7117882 Gr4, rep5 [C22013013LR01_Gr4_620278]
- GSM7117883 Gr4, rep6 [C22013014LR01_Gr4_620282]
- GSM7117884 Gr4, rep7 [C22013015LR01_Gr4_620307]
- GSM7117885 Gr4, rep8 [C22013016LR01_Gr4_620330]
- GSE222556 Neoadjuvant PARPi or Chemotherapy in Ovarian Cancer Informs Targeting Effector Treg Cells for Homologous-Recombination-Deficient Tumors [10x scRNA-seq] 67 samples shares targeting, rna-seq
- GSE189357 Spatiotemporal transcriptional atlas of lung adenocarcinoma from adenocarcinoma in situ to invasive carcinoma [scRNA-seq] 9 samples shares transcription, rna-seq
- GSE318861 Quantitative analysis of Tat-dependent and host-driven HIV transcription by ChIP-seq and RNA-seq 52 samples shares transcription, rna-seq
- GSE289465 Targeting a Galectin-3/EGR1 transcriptional complex inhibits the pro-metastatic signature in TRIM49-deficient gastric adenocarcinoma 18 samples shares transcription, targeting
- GSE267470 Dual targeting of processive transcription for Myc-driven circuitry in medulloblastoma [CUT&RUN] 12 samples shares transcription, targeting
- GSE305896 Selective targeting of HIV infected clones by cognate peptide stimulation and antiproliferative drugs 10 samples shares targeting, peptide
- GSE215328 Pivotal Role of the NuRD Complex in Remodeling Chromatin Environment and Maintaining Genome Architecture at CTCF Sites [hESC_H9_d049_ChIP_Seq] 135 samples shares tcf
- GSE253694 Pivotal Role of the NuRD Complex in Remodeling Chromatin Environment and Maintaining Genome Architecture at CTCF Sites [HEK293T_siNURD_CTCF_ChIP_Seq] 36 samples shares tcf
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.