Transcriptomic determinants of humoral immunity for heterogeneously antigenic PL45 cells
RNA-seq (gene expression) · human · 12 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)
- Topic
- Pancreatic cancerThis series is part of our curated briefing on it.
- Samples
- 12 samples: 3 × A1_IgG_Negative vs 3 × A1_IgG_Positive vs 3 × A14_IgG_Negative vs 3 × A14_IgG_PositiveGroups 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 GSE334534_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 PRJNA1475408 and SRA study SRP707197. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 4 replicated groups read from 12 sample titles; they account for 12 of them. 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.
- GSM9790462 A1_IgG_Negative_Rep1 A1_IgG_Negative
- GSM9790463 A1_IgG_Negative_Rep2 A1_IgG_Negative
- GSM9790464 A1_IgG_Negative_Rep3 A1_IgG_Negative
- GSM9790465 A1_IgG_Positive_Rep1 A1_IgG_Positive
- GSM9790466 A1_IgG_Positive_Rep2 A1_IgG_Positive
- GSM9790467 A1_IgG_Positive_Rep3 A1_IgG_Positive
- GSM9790468 A14_IgG_Negative_Rep1 A14_IgG_Negative
- GSM9790469 A14_IgG_Negative_Rep2 A14_IgG_Negative
- GSM9790470 A14_IgG_Negative_Rep3 A14_IgG_Negative
- GSM9790471 A14_IgG_Positive_Rep1 A14_IgG_Positive
- GSM9790472 A14_IgG_Positive_Rep2 A14_IgG_Positive
- GSM9790473 A14_IgG_Positive_Rep3 A14_IgG_Positive
- GSE333988 Transcriptomic analysis of GKB202-treated circulating tumor cells isolated from patients with lung cancer and pancreatic cancer 10 samples same disease briefing
- GSE147549 Transcriptomic profiling of human pancreatic cancer-derived cell lines MiaPACA-2 depleted of TRIP12 mRNA compared to control cells 8 samples same disease briefing
- GSE148188 NOXA dependent induction of apoptosis in pancreatic cancer cells 49 samples same disease briefing
- GSE143584 Gene expression from laser capture microdissected epithelium and stroma during pancreatic carcinogenesis 366 samples same disease briefing
- GSE113616 Stromal Fibroblasts Drive Single Cell Heterogeneity in Pancreatic Cancer 189 samples same disease briefing
- GSE111672 Integrating microarray-based spatial transcriptomics and single-cell RNA-seq reveals tissue architecture in pancreatic ductal adenocarcinomas 23 samples same disease briefing
- GSE224502 RNA-Seq profiles of pancreatic adenocarcinoma PANC-1 and osteosarcoma U2OS cells with Pin1 knocking down 18 samples same disease briefing
- GSE141017 Single cell transcriptomes of pancreatic pre-invasive lesions and cancer reveal acinar metaplastic cells’ heterogeneity 12 samples same disease briefing
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.