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Eleven grand challenges in single-cell data science
Genome Biology ( IF 12.3 ) Pub Date : 2020-02-07 , DOI: 10.1186/s13059-020-1926-6
David Lähnemann 1, 2, 3 , Johannes Köster 1, 4 , Ewa Szczurek 5 , Davis J McCarthy 6, 7 , Stephanie C Hicks 8 , Mark D Robinson 9 , Catalina A Vallejos 10, 11 , Kieran R Campbell 12, 13, 14 , Niko Beerenwinkel 15, 16 , Ahmed Mahfouz 17, 18 , Luca Pinello 19, 20, 21 , Pavel Skums 22 , Alexandros Stamatakis 23, 24 , Camille Stephan-Otto Attolini 25 , Samuel Aparicio 13, 26 , Jasmijn Baaijens 27 , Marleen Balvert 27, 28 , Buys de Barbanson 29, 30, 31 , Antonio Cappuccio 32 , Giacomo Corleone 33 , Bas E Dutilh 28, 34 , Maria Florescu 29, 30, 31 , Victor Guryev 35 , Rens Holmer 36 , Katharina Jahn 15, 16 , Thamar Jessurun Lobo 35 , Emma M Keizer 37 , Indu Khatri 38 , Szymon M Kielbasa 39 , Jan O Korbel 40 , Alexey M Kozlov 23 , Tzu-Hao Kuo 3 , Boudewijn P F Lelieveldt 41, 42 , Ion I Mandoiu 43 , John C Marioni 44, 45, 46 , Tobias Marschall 47, 48 , Felix Mölder 1, 49 , Amir Niknejad 50, 51 , Alicja Rączkowska 5 , Marcel Reinders 17, 18 , Jeroen de Ridder 29, 30 , Antoine-Emmanuel Saliba 52 , Antonios Somarakis 42 , Oliver Stegle 40, 46, 53 , Fabian J Theis 54 , Huan Yang 55 , Alex Zelikovsky 22, 56 , Alice C McHardy 3 , Benjamin J Raphael 57 , Sohrab P Shah 58 , Alexander Schönhuth 27, 28
Affiliation  

The recent boom in microfluidics and combinatorial indexing strategies, combined with low sequencing costs, has empowered single-cell sequencing technology. Thousands—or even millions—of cells analyzed in a single experiment amount to a data revolution in single-cell biology and pose unique data science problems. Here, we outline eleven challenges that will be central to bringing this emerging field of single-cell data science forward. For each challenge, we highlight motivating research questions, review prior work, and formulate open problems. This compendium is for established researchers, newcomers, and students alike, highlighting interesting and rewarding problems for the coming years.

中文翻译:

单细胞数据科学的十大挑战

最近微流体和组合索引策略的蓬勃发展,加上较低的测序成本,推动了单细胞测序技术的发展。在一次实验中分析数千甚至数百万个细胞相当于单细胞生物学中的一场数据革命,并提出了独特的数据科学问题。在这里,我们概述了十一项挑战,这些挑战对于推动单细胞数据科学这一新兴领域的发展至关重要。对于每一个挑战,我们都会强调激励性的研究问题,回顾之前的工作,并提出开放性问题。本纲要面向资深研究人员、新人和学生,强调了未来几年有趣且有益的问题。
更新日期:2020-02-07
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