MEF to iPSC reprogramming - Serum condition

Default Boolean Operator: Terms in a search string will be connected by the AND operator, EXAMPLE: searching genomic melanoma will produce the same results as genomic AND melanoma .
AND, OR, NOT: Combine terms in a search with the boolean operators AND (to add specificity), OR (to broaden), or NOT (to eliminate a term). Operators must be capitalized (all other search terms are not case-sensitive).
Wild Card: Add wild card symbols * (open-ended) and ? (single character) to truncate terms. EXAMPLE: searching gen* shows results for 'gene', 'genetic', 'genomic, etc. Searching gene? returns results for 'gene' or 'genes' but not for 'genome'.
Phrase Searching: Enclose search in quotation marks "keyword or search term" to search for an exact phrase. EXAMPLE: "transcription factors" returns results for records where transcription is immediately followed by the word factors .
Diacritics: Words containing diacritics translate those characters to non-diacritic form. EXAMPLE: massague returns results for Massague&#769 .
Filter by: Located on the homepage (left panel), use filters to search for records or narrow the search. From search results page, filters can be removed by clicking on the term at the top of the page.

UID: 11367

Author(s): Weiler, Philipp, Lange, Marius, Klein, Michal

Description: Description from Figshare:

"scRNA-seq time-series dataset of mouse embryonic fibroblast (MEF) reprogramming to induced pluripotent stem cells (iPSCs) subsetted to the serum condition and assayed using 10x Genomics. Contains 39 time points spanning days 0-18 during reprogramming. Total cell number is 165,892.

Note that this dataset has already been normalized by total counts and log-transformed. We added the `cell_sets` annotation by slightly modifying and combining the pre-computed annotations, introducing a `MEF/other` category that didn't exist in the original data."

DOI corresponds to the Figshare data collection to which this dataset belongs

Subject of Study

Subject(s)

Access via figshare
Access Restrictions: Free to All
Access Instructions: Download from Figshare to access
DOI: 10.6084/m9.figshare.c.6843633.v1
Associated Publications: Weiler P, Lange M, Klein M, Pe’er D, Theis F. CellRank 2: Unified fate mapping in multiview single-cell data. Nature Methods. 2024; 21(7):1196-1205.
Software Used: Waddington-OT
A software package for analyzing snapshots of developmental processes
Dataset Format(s): H5AD
Dataset Size: 3.59 GB

Do you have or know of a dataset that should be added to the catalog? Let us know!