From: Choice of pre-processing pipeline influences clustering quality of scRNA-seq datasets
sample ID | organism | common name | tissue | 10X version | FACS sorted | source | reference | ensembl reference version |
---|---|---|---|---|---|---|---|---|
dr-RGC-larva-s1 | D. rerio | zebrafish | Retinal ganglion cells (RGCs) | 2 | yes | GSE152842 | Koelsch et al., 2020 | 101 |
dr-RGC-adult-s17 | D. rerio | zebrafish | RGCs | 2 | yes | GSE152842 | Koelsch et al., 2020 | 101 |
dr-pineal-s1 | D. rerio | zebrafish | pineal gland | 2 | no | SRR8315377/SRR8315378 | [7] | 101 |
dr-pineal-s2 | D. rerio | zebrafish | pineal gland | 2 | no | SRR8315379/SRR8315380 | [7] | 101 |
nf-embryo-s1 | N. furzeri | killifish | tail blastema | 2 | no | SRR11886701 | [8] | 101 |
nf-embryo-s2 | N. furzeri | killifish | tail blastema | 2 | no | SRR11917464 | [8] | 101 |
am-hk-cave | A. mexicanus | mexican cavefish | head kidney | 3 | yes | GSE128306/L39134 | [6] | 100 |
am-hk-surf | A. mexicanus | mexican cavefish | head kidney | 3 | yes | GSE128306/L39132 | [6] | 100 |
dm-brain-s1 | D. melanogaster | drosophila | brain | 2 | no | SRR6327103 | [2] | 100 |
dm-brain-s2 | D. melanogaster | drosophila | brain | 2 | no | SRR6327104 | [2] | 100 |
ce-embryo-s1 | C. elegans | C. elegans | embryo | 2 | no | SRR8611991 | [4] | 100 |
ce-embryo-s2 | C. elegans | C. elegans | embryo | 2 | no | SRR8611992 | [4] | 100 |
ci-larva-s1 | C. intestinalis | ciona | larva | 2 | no | SRR9051005 | [1] | 100 |
ci-larva-s2 | C. intestinalis | ciona | larva | 2 | no | SRR9051006 | [1] | 100 |
hs-pbmc-4 k-v2 | H. sapiens | human | pbmc | 2 | no | * | 10X Genomics | 100 |
hs-pbmc-8 k-v2 | H. sapiens | human | pbmc | 2 | no | * | 10X Genomics | 100 |
mm-neuron-2 k-v2 | M. musculus | mouse | neurons | 2 | no | * | 10X Genomics | 100 |
mm-neuron-9 k-v2 | M. musculus | mouse | neurons | 2 | no | * | 10X Genomics | 100 |
hs-pbmc-10 k-v3 | H. sapiens | human | pbmc | 3 | no | * | 10X Genomics | 100 |
hs-pbmc-1 k-v3 | H. sapiens | human | pbmc | 3 | no | * | 10X Genomics | 100 |
mm-neuron-10 k-v3 | M. musculus | mouse | neurons | 3 | no | * | 10X Genomics | 100 |
mm-neuron-1 k-v3 | M. musculus | mouse | neurons | 3 | no | * | 10X Genomics | 100 |
* https://support.10xgenomics.com/single-cell-gene-expression/datasets |