Side N
The Filters That Decide What a Single-Cell Experiment Saw
Which sources back which section of this article, and what its evidence base looks like.
Which sources back which section
| Section | Sources behind it |
|---|---|
| What Happened | The method papers for EmptyDrops, Scrublet, DoubletFinder, scDblFinder, SoupX, DecontX and CellBender, 2019 to 2023; Osorio and Cai, Bioinformatics, 2021; Xi and Li, Cell Systems, 2020; Sarieva and colleagues, iScience, 2026; Bloom, PeerJ, 2018; the Parse Biosciences support suite and dataset page |
| Timeline | Ilicic and colleagues, Genome Biology (2016); Rosenberg and colleagues, Science (2018); Bloom, PeerJ (2018); EmptyDrops, Scrublet and DoubletFinder (2019); Luecken and Theis, Molecular Systems Biology (2019); DecontX and SoupX (2020); Xi and Li, Cell Systems (2020); Osorio and Cai, Bioinformatics (2021); scDblFinder (2021); Heumos and colleagues, Nature Reviews Genetics (2023); CellBender, Nature Methods (2023); Xie and colleagues, International Journal of Molecular Sciences (2024); Filippov and colleagues, BMC Genomics (2024); Sarieva and colleagues, iScience (2026); the Parse Biosciences patent announcement |
| The Argument | Osorio and Cai, Bioinformatics (2021); Sarieva and colleagues, iScience (2026) |
| What Others Add | Xie and colleagues, International Journal of Molecular Sciences (2024); Filippov and colleagues, BMC Genomics (2024); Sarieva and colleagues, iScience (2026); Xi and Li, Cell Systems (2020); scDblFinder (2021); Bloom, PeerJ (2018); SoupX, DecontX and CellBender; the Parse Biosciences support suite and product page |
| Conclusion | Osorio and Cai, Bioinformatics (2021); Sarieva and colleagues, iScience (2026); Xi and Li, Cell Systems (2020) and scDblFinder (2021), on the open question they leave; the Parse Biosciences vendor material, named as such throughout |
What the evidence base looks like
- 24Sources behind this article
- 5Sections, every one of them sourced
- 7Read in full
- 17Read at the abstract only
| What the source is | How many | How they were read |
|---|---|---|
| Peer-reviewed research papers | 15 | All read at the abstract only; the full text sits behind a journal login for every one of them |
| Best-practice reviews and tutorials | 2 | Both read at the abstract only, for the same reason |
| Company material from Parse Biosciences | 7 | Four read in full via the support site's API, after its public page refused automated access; three read in full directly from the page |
Reliable
Reliable, but with an interestWorth believing and reliableWeak on both, and used with careHonest, but thin
Worth believing