Literature DB >> 34744216

Discussion of "Exponential-family Embedding with Application to Cell Developmental Trajectories for Single-cell RNA-seq Data".

Zhicheng Ji1, Hongkai Ji2.   

Abstract

Exponential-family singular value decomposition (eSVD) is a new approach for embedding multivariate data into a lower-dimensional space. It provides an elegant dimension reduction framework with flexibility to handle one-parameter exponential family distributions and proven consistency. This approach adds a valuable new tool to the toolbox of data analysts. Here we discuss a number of open problems and challenges that remain to be addressed in the future in order to unleash the full potential of eSVD and other similar approaches.

Entities:  

Keywords:  Big Data; Dimension Reduction; Genomics; Multivariate Analysis

Year:  2021        PMID: 34744216      PMCID: PMC8570643          DOI: 10.1080/01621459.2021.1880920

Source DB:  PubMed          Journal:  J Am Stat Assoc        ISSN: 0162-1459            Impact factor:   4.369


  6 in total

1.  Comprehensive Integration of Single-Cell Data.

Authors:  Tim Stuart; Andrew Butler; Paul Hoffman; Christoph Hafemeister; Efthymia Papalexi; William M Mauck; Yuhan Hao; Marlon Stoeckius; Peter Smibert; Rahul Satija
Journal:  Cell       Date:  2019-06-06       Impact factor: 41.582

2.  A Single-Cell Atlas of In Vivo Mammalian Chromatin Accessibility.

Authors:  Darren A Cusanovich; Andrew J Hill; Delasa Aghamirzaie; Riza M Daza; Hannah A Pliner; Joel B Berletch; Galina N Filippova; Xingfan Huang; Lena Christiansen; William S DeWitt; Choli Lee; Samuel G Regalado; David F Read; Frank J Steemers; Christine M Disteche; Cole Trapnell; Jay Shendure
Journal:  Cell       Date:  2018-08-02       Impact factor: 41.582

3.  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

4.  Multi-Omics Resolves a Sharp Disease-State Shift between Mild and Moderate COVID-19.

Authors:  Yapeng Su; Daniel Chen; Dan Yuan; Christopher Lausted; Jongchan Choi; Chengzhen L Dai; Valentin Voillet; Venkata R Duvvuri; Kelsey Scherler; Pamela Troisch; Priyanka Baloni; Guangrong Qin; Brett Smith; Sergey A Kornilov; Clifford Rostomily; Alex Xu; Jing Li; Shen Dong; Alissa Rothchild; Jing Zhou; Kim Murray; Rick Edmark; Sunga Hong; John E Heath; John Earls; Rongyu Zhang; Jingyi Xie; Sarah Li; Ryan Roper; Lesley Jones; Yong Zhou; Lee Rowen; Rachel Liu; Sean Mackay; D Shane O'Mahony; Christopher R Dale; Julie A Wallick; Heather A Algren; Michael A Zager; Wei Wei; Nathan D Price; Sui Huang; Naeha Subramanian; Kai Wang; Andrew T Magis; Jenn J Hadlock; Leroy Hood; Alan Aderem; Jeffrey A Bluestone; Lewis L Lanier; Philip D Greenberg; Raphael Gottardo; Mark M Davis; Jason D Goldman; James R Heath
Journal:  Cell       Date:  2020-10-28       Impact factor: 41.582

5.  Exponential-Family Embedding With Application to Cell Developmental Trajectories for Single-Cell RNA-Seq Data.

Authors:  Kevin Z Lin; Jing Lei; Kathryn Roeder
Journal:  J Am Stat Assoc       Date:  2021-02-08       Impact factor: 5.033

6.  The Human Cell Atlas.

Authors:  Aviv Regev; Sarah A Teichmann; Eric S Lander; Ido Amit; Christophe Benoist; Ewan Birney; Bernd Bodenmiller; Peter Campbell; Piero Carninci; Menna Clatworthy; Hans Clevers; Bart Deplancke; Ian Dunham; James Eberwine; Roland Eils; Wolfgang Enard; Andrew Farmer; Lars Fugger; Berthold Göttgens; Nir Hacohen; Muzlifah Haniffa; Martin Hemberg; Seung Kim; Paul Klenerman; Arnold Kriegstein; Ed Lein; Sten Linnarsson; Emma Lundberg; Joakim Lundeberg; Partha Majumder; John C Marioni; Miriam Merad; Musa Mhlanga; Martijn Nawijn; Mihai Netea; Garry Nolan; Dana Pe'er; Anthony Phillipakis; Chris P Ponting; Stephen Quake; Wolf Reik; Orit Rozenblatt-Rosen; Joshua Sanes; Rahul Satija; Ton N Schumacher; Alex Shalek; Ehud Shapiro; Padmanee Sharma; Jay W Shin; Oliver Stegle; Michael Stratton; Michael J T Stubbington; Fabian J Theis; Matthias Uhlen; Alexander van Oudenaarden; Allon Wagner; Fiona Watt; Jonathan Weissman; Barbara Wold; Ramnik Xavier; Nir Yosef
Journal:  Elife       Date:  2017-12-05       Impact factor: 8.140

  6 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.