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ZENODO
Dataset . 2023
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ZENODO
Dataset . 2023
License: CC BY
Data sources: ZENODO
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ZENODO
Dataset . 2023
License: CC BY
Data sources: Datacite
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Reads-per-UMI tables across single-cell RNA sequencing protocols

Authors: Lause, Jan; Ziegenhain, Christoph; Hartmanis, Leonard; Berens, Philipp; Kobak, Dmitry;

Reads-per-UMI tables across single-cell RNA sequencing protocols

Abstract

Data analyzed in Lause, Ziegenhain et al. (2023). Code to obtain these tables from public data sources is available on github. Each row in the table is a UMI-tag detected in a certain cell (column RG) attached to a molecule from a specific gene (column GE) with a certain barcode (column UB). Column N gives the number of times the UMI was detected for that gene and cell. Data sources and protocols are given with the respective file names below. Johnsson2022_Smartseq3_PE.hd1.txt.gz: Mouse fibroblasts profiled with Smart-seq3 paired-end; accession E-MTAB-10148, sample plate2, Paper Hagemann-Jensen2020_Smartseq3_SE.hd1.txt.gz: Mouse fibroblasts profiled with Smart-seq3 single-end; accession E-MTAB-8735, sample Smartseq3.Fibroblasts.smFISH Paper Hagemann-Jensen2022_Smartseq3xpress.hd1.txt.gz: HEK293 cells profiled with Smart-seq3Xpress; accession E-MTAB-11467. Paper Ziegenhain2017.hd1.txt.gz: Mouse embryonic stem cells profiled by CEL-seq2, Drop-seq, MARS-seq, and SCRB-seq; GEO accession GSE75790 Paper

Related Organizations
Keywords

single cell sequncing, UMI, reads, amplification, PCR

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selected citations
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This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
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popularity
This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
BIP!Popularity provided by BIP!
influence
This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
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impulse
This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
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