GEO series
Single-Molecule Barcoding Technology for Single-Cell Genomics
GSE272618
Mus musculus; Homo sapiens
Expression profiling by high throughput sequencing
140 samples
Submitted 2026/07/18
Platform GPL34281Platform GPL21697Platform GPL24625
Summary
Recent advances in barcoding technologies have introduced unprecedented scalability to single-cell genomic experiments. However, most large-scale studies are focused on the generation of reference cell atlases, which prioritize this goal over cost-efficiency and logistics. For large-scale, multi-million-cell studies to be routine in fields such as clinical diagnostics, drug/target discovery, genetic screening, and gene therapy, it is crucial to simplify the single-cell workflow and the generation of barcoding reagents. Here, we introduce AmpliDrop, a technology that streamlines single-cell barcoding by initiating the process using inexpensive single-copy barcodes, which are then amplified as part of the library preparation process, rather than relying on pre-synthesized multi-copy barcode pools. This strategy eliminates the need for barcoded beads and complex combinatorial indexing workflows. Additionally, cell compartmentalization is achieved using a conventional electronic pipette or a robotic liquid handler for automation, providing flexibility for any scale and number of samples. AmpliDrop can capture transcriptomes and chromatin accessibility and can also accommodate user-customized modalities for protein profiling, bacterial or viral DNA detection, and genetic perturbations without construct limitations. We showcase the discovery potential of AmpliDrop by investigating the influence of physical perturbation on cell diversity in human cortical organoids, revealing the selective vulnerability of glycolytic radial glia.
This dataset
Download
Direct links to NCBI, no account and no request form: the whole study as GSE272618_RAW.tar, processed values as the series matrix, the supplementary file directory, and per-sample supplementary files for any of the 140 samples. Raw sequencing reads are also available from ENA.
Also filed as BioProject PRJNA1137817 and SRA study SRP520934. Searching any of these in the dataset finder brings you back here.
Study design
34 × Barnyard_96well
Supports a between-group comparison across 34 samples.
1 replicated groups read from the first 40 of 140 sample titles; they account for 34 of them. Check it against the sample list below before relying on it.
Samples in this study
0 selected
- GSM8407027 Barnyard_0dot2mL_1k
- GSM8407028 Barnyard_0dot2mL_2dot5k
- GSM8407029 Barnyard_0dot2mL_5k
- GSM8407030 Barnyard_0dot2mL_9k
- GSM8407031 Barnyard_0dot2mL_11k
- GSM8407032 Barnyard_1mL_6dot5k
- GSM8407033 Barnyard_96well_rep1
- GSM8407034 Barnyard_96well_rep2
- GSM8407035 Barnyard_96well_rep3
- GSM8407036 Barnyard_96well_rep4
- GSM8407037 Barnyard_96well_rep5
- GSM8407038 Barnyard_96well_rep6
- GSM8407039 Barnyard_96well_rep7
- GSM8407040 Barnyard_96well_rep8
- GSM8407041 Barnyard_96well_rep9
- GSM8407042 Barnyard_96well_rep10
- GSM8407043 Barnyard_96well_rep11
- GSM8407044 Barnyard_96well_rep12
- GSM8407045 Barnyard_96well_rep13
- GSM8407046 Barnyard_96well_rep14
- GSM8407047 Barnyard_96well_rep15
- GSM8407048 Barnyard_96well_rep16
- GSM8407049 Barnyard_96well_rep17
- GSM8407050 Barnyard_96well_rep18
- GSM8407051 Barnyard_96well_rep19
- GSM8407052 Barnyard_96well_rep20
- GSM8407053 Barnyard_96well_rep21
- GSM8407054 Barnyard_96well_rep22
- GSM8407055 Barnyard_96well_rep23
- GSM8407056 Barnyard_96well_rep24
- GSM8407057 Barnyard_96well_rep25
- GSM8407058 Barnyard_96well_rep26
- GSM8407059 Barnyard_96well_rep27
- GSM8407060 Barnyard_96well_rep28
- GSM8407061 Barnyard_96well_rep29
- GSM8407062 Barnyard_96well_rep30
- GSM8407063 Barnyard_96well_rep31
- GSM8407064 Barnyard_96well_rep32
- GSM8407065 Barnyard_96well_rep33
- GSM8407066 Barnyard_96well_rep34
+ 100 more — browse all 140 samples with per-sample file links →
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