Biology:List of single cell omics methods

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A list of more than 100 different single cell sequencing (omics) methods have been published.[1] The large majority of methods are paired with short-read sequencing technologies, although some of them are compatible with long read sequencing.

List

Method Reference Sequencing Mode Early Estimate Late Estimate
Tang method [2] Short Reads 2008 2009
CyTOF [3] Short Reads 2011 2012
STRT-seq / C1 [4] Short Reads 2011 2012
SMART-seq [5] Short Reads 2012 2013
CEL-seq [6] Short Reads 2012 2013
Quartz-Seq [7] Short Reads 2012 2013
PMA / SMA [8] Short Reads 2012 2013
scBS-seq [9] Short Reads 2013 2014
AbPair [10] Short Reads 2014 2014
MARS-seq [11] Short Reads 2014 2015
DR-seq [12] Short Reads 2014 2015
G&T-Seq [13] Short Reads 2014 2015
SCTG [14] Short Reads 2014 2015
SIDR-seq [15] Short Reads 2014 2015
sci-ATAC-seq [16] Short Reads 2014 2015
Hi-SCL [17] Short Reads 2015 2015
SUPeR-seq [18] Short Reads 2015 2015
Drop-Chip [19] Short Reads 2015 2015
CytoSeq [20] Short Reads 2015 2016
inDrop [21] Short Reads 2015 2016
sc-GEM [22] Short Reads 2015 2016
scTrio-seq [23] Short Reads 2015 2016
scM&T-seq Short Reads 2015 2016
PLAYR [24] Short Reads 2015 2016
Genshaft-et-al-2016 [25] Short Reads 2015 2016
Darmanis-et-al-2016 [26] Short Reads 2015 2016
CRISP-seq [27] Short Reads 2015 2016
scGESTALT [28] Short Reads 2015 2016
CEL-Seq2 / C1 [29] Short Reads 2015 2016
STRT-seq-2i [30] Short Reads 2016 2017
RNAseq @10xgenomics [31] Short Reads 2016 2017
RNAseq / Gene Expression @nanostringtech [32] Short Reads 2016 2017
sc Targeted Gene Expression @fluidigm [33] Short Reads 2016 2017
scTCR Wafergen [34] Short Reads 2016 2017
CROP-seq [35] Short Reads 2016 2017
SiC-seq [36] Short Reads 2016 2017
mcSCRB-seq [37] Short Reads 2016 2017
Patch-seq [38] Short Reads 2016 2017
Geo-seq [39] Short Reads 2016 2017
scNOMe-seq [40] Short Reads 2016 2017
scCOOL-seq [41] Short Reads 2016 2017
CUT&Run [42] Short Reads 2016 2017
MATQ-seq [43] Short Reads 2016 2017
Quartz-Seq2 [44] Short Reads 2017 2018
Seq-Well [45] Short Reads 2017 2018
DroNC-Seq [46] Short Reads 2017 2018
sci-RNA-seq [47] Short Reads 2017 2018
scATAC @10xgenomics [48] Short Reads 2017 2018
scVDJ @10xgenomics [49] Short Reads 2017 2018
scNMT triple omics [50] Short Reads 2017 2018
SPLIT-seq Parse Biosciences [51] Short Reads 2017 2018
CITE-Seq [52] Short Reads 2017 2018
scMNase-seq [53] Short Reads 2017 2018
Chaligne-et-al-2018 Short Reads 2017 2018
LINNAEUS [54] Short Reads 2017 2018
TracerSeq [55] Short Reads 2017 2018
CellTag [56] Short Reads 2017 2018
ScarTrace [57] Short Reads 2017 2018
scRNA-Seq Dolomite Bio [58] Short Reads 2017 2018
Trac-looping [59] Short Reads 2017 2018
Perturb-ATAC [60] Short Reads 2018 2019
scMethylation [61] Short Reads 2018 2019
scHiC [62] Short Reads 2018 2019
Multiplex Droplet scRNAseq [63] Short Reads 2018 2019
sci-CAR [64] Short Reads 2018 2019
C1 CAGE single cell [65] Short Reads 2018 2019
sc paired microRNA-mRNA [66] Short Reads 2018 2019
scCAT-seq [67] Short Reads 2018 2019
REAP-seq @fluidigm [68] Short Reads 2018 2019
scCC [69] Short Reads 2018 2019
yscRNA-SEQ [70] Short Reads 2018 2019
TARGET-seq [71] Short Reads 2018 2019
MULTI-seq [72] Short Reads 2018 2019
snRNA-seq [73] Short Reads 2018 2019
sci-RNA-seq3 [74] Short Reads 2018 2019
BRIF-seq [75] Short Reads 2018 2019
Drop-seq Dolomite Bio [58] Short Reads 2018 2019
Slide-seq [76] Short Reads 2018 2019
CUT&Tag [77] Short Reads 2018 2019
CellTagging [78] Short Reads 2018 2019
DART-Seq [79] Short Reads 2018 2019
scDamID&T [80] Short Reads 2018 2019
ACT-seq [81] Short Reads 2018 2019
Sci-Hi-C [82] Short Reads 2018 2019
Slide-seq [83] Short Reads 2018 2019
Simplified-Drop-seq [84] Short Reads 2018 2019
scChIC-seq [85] Short Reads 2018 2019
Dip-C [86] Short Reads 2018 2019
CoBATCH [87] Short Reads 2018 2019
Convert-seq [88] Short Reads 2018 2019
Droplet-based scATAC-seq [89] Short Reads 2018 2019
ECCITE-seq [90] Short Reads 2018 2019
dsciATAC-seq [89] Short Reads 2018 2019
CLEVER-seq [91] Short Reads 2018 2019
scISOr-Seq [92] Short Reads 2018 2019
MARS-seq2.0 [93] Short Reads 2018 2019
nano-NOMe [94] Long Reads 2018 2019
MeSMLR-seq [95] Long Reads 2018 2019
SMAC-seq [96] Long Reads 2018 2019
MoonTag/SunTag [97] Short Reads 2018 2019
SCoPE2 [98] Short Reads 2018 2019
sci-fate [99] Short Reads 2018 2019
μDamID [100] Short Reads 2018 2019
Methyl-HiC [101] Short Reads 2018 2019
RAGE-seq [102] Long Reads 2018 2019
Paired-Seq [103] Short Reads 2018 2019
Tn5Prime [104] Short Reads 2018 2019
NanoPARE [105] Short Reads 2018 2019
BART-Seq [106] Short Reads 2018 2019
scDam&T-seq [107] Short Reads 2018 2019
itChIP-seq [108] Short Reads 2018 2019
SNARE-seq [109] Short Reads 2018 2019
ASTAR-seq [110] Short Reads 2018 2019
sci-Plex [111] Short Reads 2018 2019
MIX-Seq [112] Short Reads 2018 2019
microSPLiT [113] Short Reads 2018 2019
PAIso-seq [114] Short Reads 2018 2019
FIN-Seq [115] Short Reads 2018 2019
LIBRA-seq [116] Short Reads 2018 2019
scifi-RNA-seq [117] Short Reads 2018 2019
plexDIA [118] Short Reads 2021 2021
scGET-seq [119] Short Reads 2022 2022
MPX [120] Short Reads 2023 2023

References

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