Literature DB >> 32209591

PscB: A Browser to Explore Plant Single Cell RNA-Sequencing Data Sets.

Xiaoli Ma1, Tom Denyer1, Marja C P Timmermans2.   

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Year:  2020        PMID： 32209591      PMCID： PMC7271789          DOI： 10.1104/pp.20.00250

Source DB:  PubMed          Journal:  Plant Physiol        ISSN： 0032-0889            Impact factor:   8.340


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  10 in total

1.  Droplet barcoding for single-cell transcriptomics applied to embryonic stem cells.

Authors:  Allon M Klein; Linas Mazutis; Ilke Akartuna; Naren Tallapragada; Adrian Veres; Victor Li; Leonid Peshkin; David A Weitz; Marc W Kirschner
Journal:  Cell       Date:  2015-05-21       Impact factor: 41.582

2.  Highly Parallel Genome-wide Expression Profiling of Individual Cells Using Nanoliter Droplets.

Authors:  Evan Z Macosko; Anindita Basu; Rahul Satija; James Nemesh; Karthik Shekhar; Melissa Goldman; Itay Tirosh; Allison R Bialas; Nolan Kamitaki; Emily M Martersteck; John J Trombetta; David A Weitz; Joshua R Sanes; Alex K Shalek; Aviv Regev; Steven A McCarroll
Journal:  Cell       Date:  2015-05-21       Impact factor: 41.582

3.  A Single-Cell RNA Sequencing Profiles the Developmental Landscape of Arabidopsis Root.

Authors:  Tian-Qi Zhang; Zhou-Geng Xu; Guan-Dong Shang; Jia-Wei Wang
Journal:  Mol Plant       Date:  2019-04-17       Impact factor: 13.164

4.  Spatiotemporal Developmental Trajectories in the Arabidopsis Root Revealed Using High-Throughput Single-Cell RNA Sequencing.

Authors:  Tom Denyer; Xiaoli Ma; Simon Klesen; Emanuele Scacchi; Kay Nieselt; Marja C P Timmermans
Journal:  Dev Cell       Date:  2019-03-25       Impact factor: 12.270

5.  Single-Cell RNA Sequencing Resolves Molecular Relationships Among Individual Plant Cells.

Authors:  Kook Hui Ryu; Ling Huang; Hyun Min Kang; John Schiefelbein
Journal:  Plant Physiol       Date:  2019-02-04       Impact factor: 8.340

6.  Spatial reconstruction of single-cell gene expression data.

Authors:  Rahul Satija; Jeffrey A Farrell; David Gennert; Alexander F Schier; Aviv Regev
Journal:  Nat Biotechnol       Date:  2015-04-13       Impact factor: 54.908

7.  The dynamics and regulators of cell fate decisions are revealed by pseudotemporal ordering of single cells.

Authors:  Cole Trapnell; Davide Cacchiarelli; Jonna Grimsby; Prapti Pokharel; Shuqiang Li; Michael Morse; Niall J Lennon; Kenneth J Livak; Tarjei S Mikkelsen; John L Rinn
Journal:  Nat Biotechnol       Date:  2014-03-23       Impact factor: 54.908

8.  Massively parallel digital transcriptional profiling of single cells.

Authors:  Grace X Y Zheng; Jessica M Terry; Phillip Belgrader; Paul Ryvkin; Zachary W Bent; Ryan Wilson; Solongo B Ziraldo; Tobias D Wheeler; Geoff P McDermott; Junjie Zhu; Mark T Gregory; Joe Shuga; Luz Montesclaros; Jason G Underwood; Donald A Masquelier; Stefanie Y Nishimura; Michael Schnall-Levin; Paul W Wyatt; Christopher M Hindson; Rajiv Bharadwaj; Alexander Wong; Kevin D Ness; Lan W Beppu; H Joachim Deeg; Christopher McFarland; Keith R Loeb; William J Valente; Nolan G Ericson; Emily A Stevens; Jerald P Radich; Tarjei S Mikkelsen; Benjamin J Hindson; Jason H Bielas
Journal:  Nat Commun       Date:  2017-01-16       Impact factor: 14.919

9.  High-Throughput Single-Cell Transcriptome Profiling of Plant Cell Types.

Authors:  Christine N Shulse; Benjamin J Cole; Doina Ciobanu; Junyan Lin; Yuko Yoshinaga; Mona Gouran; Gina M Turco; Yiwen Zhu; Ronan C O'Malley; Siobhan M Brady; Diane E Dickel
Journal:  Cell Rep       Date:  2019-05-14       Impact factor: 9.423

10.  Dynamics of Gene Expression in Single Root Cells of Arabidopsis thaliana.

Authors:  Ken Jean-Baptiste; José L McFaline-Figueroa; Cristina M Alexandre; Michael W Dorrity; Lauren Saunders; Kerry L Bubb; Cole Trapnell; Stanley Fields; Christine Queitsch; Josh T Cuperus
Journal:  Plant Cell       Date:  2019-03-28       Impact factor: 11.277
  10 in total
  9 in total

1.  Computational modeling and quantitative physiology reveal central parameters for brassinosteroid-regulated early cell physiological processes linked to elongation growth of the Arabidopsis root.

Authors:  Ruth Großeholz; Friederike Wanke; Ursula Kummer; Klaus Harter; Leander Rohr; Nina Glöckner; Luiselotte Rausch; Stefan Scholl; Emanuele Scacchi; Amelie-Jette Spazierer; Lana Shabala; Sergey Shabala; Karin Schumacher
Journal:  Elife       Date:  2022-09-07       Impact factor: 8.713

Review 2.  Exploiting plant transcriptomic databases: Resources, tools, and approaches.

Authors:  Peng Ken Lim; Xinghai Zheng; Jong Ching Goh; Marek Mutwil
Journal:  Plant Commun       Date:  2022-04-09

3.  Shedding light on AT1G29480 of Arabidopsis thaliana-An enigmatic locus restricted to Brassicacean genomes.

Authors:  Kumari Billakurthi; Stefanie Schulze; Eva Lena Marie Schulz; Tammy L Sage; Tina B Schreier; Julian M Hibberd; Martha Ludwig; Peter Westhoff
Journal:  Plant Direct       Date:  2022-10-17

Review 4.  The biology of time: dynamic responses of cell types to developmental, circadian and environmental cues.

Authors:  Joseph Swift; Kathleen Greenham; Joseph R Ecker; Gloria M Coruzzi; C Robertson McClung
Journal:  Plant J       Date:  2021-12-06       Impact factor: 7.091

5.  Distinct identities of leaf phloem cells revealed by single cell transcriptomics.

Authors:  Ji-Yun Kim; Efthymia Symeonidi; Tin Yau Pang; Tom Denyer; Diana Weidauer; Margaret Bezrutczyk; Manuel Miras; Nora Zöllner; Thomas Hartwig; Michael M Wudick; Martin Lercher; Li-Qing Chen; Marja C P Timmermans; Wolf B Frommer
Journal:  Plant Cell       Date:  2021-05-05       Impact factor: 11.277

6.  Single-cell RNA sequencing of developing maize ears facilitates functional analysis and trait candidate gene discovery.

Authors:  Xiaosa Xu; Megan Crow; Brian R Rice; Forrest Li; Benjamin Harris; Lei Liu; Edgar Demesa-Arevalo; Zefu Lu; Liya Wang; Nathan Fox; Xiaofei Wang; Jorg Drenkow; Anding Luo; Si Nian Char; Bing Yang; Anne W Sylvester; Thomas R Gingeras; Robert J Schmitz; Doreen Ware; Alexander E Lipka; Jesse Gillis; David Jackson
Journal:  Dev Cell       Date:  2021-01-04       Impact factor: 13.417

7.  The YTHDF proteins ECT2 and ECT3 bind largely overlapping target sets and influence target mRNA abundance, not alternative polyadenylation.

Authors:  Laura Arribas-Hernández; Sarah Rennie; Michael Schon; Carlotta Porcelli; Balaji Enugutti; Robin Andersson; Michael D Nodine; Peter Brodersen
Journal:  Elife       Date:  2021-09-30       Impact factor: 8.140

8.  PCMDB: a curated and comprehensive resource of plant cell markers.

Authors:  Jingjing Jin; Peng Lu; Yalong Xu; Jiemeng Tao; Zefeng Li; Shuaibin Wang; Shizhou Yu; Chen Wang; Xiaodong Xie; Junping Gao; Qiansi Chen; Lin Wang; Wenxuan Pu; Peijian Cao
Journal:  Nucleic Acids Res       Date:  2022-01-07       Impact factor: 16.971

Review 9.  Single-cell RNA sequencing technologies and applications: A brief overview.

Authors:  Dragomirka Jovic; Xue Liang; Hua Zeng; Lin Lin; Fengping Xu; Yonglun Luo
Journal:  Clin Transl Med       Date:  2022-03
  9 in total

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