单细胞技术、分析软件和学习资源

作者: 六六_ryx | 来源:发表于2019-02-27 18:31 被阅读0次

单细胞技术、分析软件和学习资源
cellranger实战1：非正常数据之改header
单细胞转录组数据分析||Seurat并行策略
跟着Cell学单细胞转录组分析(二):单细胞转录组测序文件的读入
从单细胞转录组数据识别细胞类型：Identification o
实用干货 | 运用Seurat包做单细胞数据的合并分析
单细胞文章解读+代码复现（一）
单细胞转录组流程一：安装运行cellranger及结果解读
单细胞数据细胞通讯分析软件NATMI
单细胞转录数据分析之Scanpy

链接：
https://docs.google.com/spreadsheets/d/1IPe2ozb1Mny8sLvJaSE57RJr3oruiBoSudAVhSH-O8M/edit#gid=11468010

Methods

Method	Reference	Early Estimate	Late Estimate
STRT-seq	https://doi.org/10.1016%2Fj.celrep.2012.08.003	2011	2012
SMART-seq	https://doi.org/10.1038%2Fnmeth.2772	2012	2013
CEL-seq	Jaitin, D. A. et al. Massively Parallel Single-Cell RNA-Seq for Marker-Free Decomposition of Tissues into Cell Types. Science (80-.). 343 (2014).	2012	2013
Quartz-Seq	https://genomebiology.biomedcentral.com/articles/10.1186/gb-2013-14-4-r31	2012	2013
scBS-seq	https://www.ncbi.nlm.nih.gov/pubmed/25042786	2013	2014
AbPair	http://biorxiv.org/content/10.1101/134841v1	2014	2014
MARS-seq	https://doi.org/10.1038%2Fnmeth.2639	2014	2015
Hi-SCL	http://www.ncbi.nlm.nih.gov/pubmed/26000628	2015	2015
CytoSeq	http://www.ncbi.nlm.nih.gov/pubmed/25657253	2015	2016
inDrop	http://www.ncbi.nlm.nih.gov/pubmed/26000487	2015	2016
STRT-seq-2i	https://www.nature.com/articles/s41598-017-16546-4	2016	2017
RNAseq @10xgenomics	https://www.10xgenomics.com/single-cell-technology/	2016	2017
RNAseq / Gene Expression @nanostringtech	https://www.nanostring.com/scientific-content/technology-overview/ncounter-technology	2016	2017
sc Targetted Gene Expression @fluidigm	https://www.fluidigm.com/reagents/single-cell-targeted-gene-expression	2016	2017
scTCR Wafergen	https://www.prnewswire.com/news-releases/wafergen-presents-single-cell-t-cell-receptor-sequencing-results-using-the-icell8-single-cell-system-at-the-2016-single-cell-genomics-meeting-300327741.html	2016	2017
CROP-seq	https://www.nature.com/articles/nmeth.4177	2016	2017
SiC-seq	https://www.nature.com/articles/nbt.3880	2016	2017
mcSCRB-seq	https://www.biorxiv.org/content/10.1101/188367v1	2016	2017
Patch-seq	https://bmcbiol.biomedcentral.com/articles/10.1186/s12915-017-0396-0	2016	2017
Geo-seq	https://www.nature.com/articles/nprot.2017.003	2016	2017
Quartz-Seq2	https://www.biorxiv.org/content/10.1101/159384v3	2017	2018
Seq-Well	https://www.nature.com/articles/nmeth.4179	2017	2018
DroNC-Seq	https://europepmc.org/abstract/ppr/ppr27414	2017	2018
sci-RNA-seq	http://science.sciencemag.org/content/357/6352/661	2017	2018
scATAC @10xgenomics	https://www.10xgenomics.com/solutions/single-cell-atac/	2017	2018
scVDJ @10xgenomics	https://www.10xgenomics.com/solutions/vdj/	2017	2018
scNMT triple omics wolf.reik@babraham.ac.uk	https://www.biorxiv.org/content/early/2019/01/13/519207	2017	2018
SPLIT-seq Split Biosciences	http://science.sciencemag.org/content/360/6385/176	2017	2018
CITE-seq	https://www.nature.com/articles/nmeth.4380	2017	2018
scMNase-seq	https://www.nature.com/articles/s41586-018-0567-3	2017	2018
Perturb-ATAC	https://t.co/luTQMBVv0l	2018	2019
scMethylation	https://www.cell.com/trends/biotechnology/fulltext/S0167-7799(18)30115-X	2018	2019
scHiC	https://www.nature.com/articles/nsmb.3404	2018	2019
Multiplex Droplet scRNAseq	https://www.nature.com/articles/nbt.4042	2018	2019
sci-CAR	http://science.sciencemag.org/content/361/6409/1380	2018	2019
C1 CAGE single cell	https://www.nature.com/articles/s41467-018-08126-5	2018	2019
sc paired microRNA-mRNA	https://www.nature.com/articles/s41467-018-07981-6	2018	2019
scCAT-seq	https://www.nature.com/articles/s41467-018-08205-7	2018	2019
REAP-seq @fluidigm	https://globenewswire.com/news-release/2019/01/31/1708388/0/en/Fluidigm-Introduces-REAP-Seq-for-Multi-Omic-Single-Cell-Analysis-on-the-C1.html#.XFQDey2gz8c.twitter	2018	2019
scCC	https://www.biorxiv.org/content/10.1101/538553v1	2018	2019
yscRNA-SEQ	https://www.nature.com/articles/s41564-018-0346-9	2018	2019
TARGET-seq	https://www.cell.com/molecular-cell/fulltext/S1097-2765(19)30009-7	2018	2019
MULTI-seq	https://www.biorxiv.org/content/10.1101/387241v1	2018	2019
snRNA-seq	https://www.biorxiv.org/content/10.1101/476036v1	2018	2019
sci-RNA-seq3	https://oncoscape.v3.sttrcancer.org/atlas.gs.washington.edu.mouse.rna/sciRnaSeq3	2018	2019
BRIF-seq	https://www.sciencedirect.com/science/article/pii/S1674205219300097	2018	2019
		2018	2019