Voices in methods development

Polina Anikeeva^{1

2

3}, Edward Boyden^{3

4

5}, Clifford Brangwynne⁶, Ibrahim I Cissé⁷, Oliver Fiehn⁸, Petra Fromme⁹, Anne-Claude Gingras¹⁰, Casey S Greene^{11

12}, Edith Heard^{13

14}, Stefan W Hell^{15

16}, Elizabeth Hillman^{17

18}, Grant Jay Jensen¹⁹, Rachel Karchin^{20

21

22

23}, Laura L Kiessling²⁴, Benjamin P Kleinstiver^{25

26

27}, Rob Knight^{28

29

30

31}, Philipp Kukura³², Madeline A Lancaster³³, Nicholas Loman³⁴, Loren Looger³⁵, Emma Lundberg^{36

37

38}, Qingming Luo^{39

40}, Atsushi Miyawaki^{41

42}, Eugene W Myers Jr^{43

44

45}, Garry P Nolan⁴⁶, Paola Picotti⁴⁷, Wolf Reik^{48

49

50}, Markus Sauer⁵¹, Alex K Shalek^{24

52

53

54

55

56

57}, Jay Shendure^{58

59}, Nikolai Slavov^{60

61}, Amos Tanay⁶², Olga Troyanskaya^{63

64}, David van Valen⁶⁵, Hong-Wei Wang⁶⁶, Chengqi Yi⁶⁷, Peng Yin^{68

69}, Magdalena Zernicka-Goetz^{70

71}, Xiaowei Zhuang⁷²

Affiliations

¹ Departments of Materials Science & Engineering and Brain & Cognitive Sciences, Massachusetts Institute of Technology, Cambridge, MA, USA.
² Research Laboratory of Electronics, Massachusetts Institute of Technology, Cambridge, MA, USA.
³ McGovern Institute for Brain Research, Massachusetts Institute of Technology, Cambridge, MA, USA.
⁴ Department of Neurotechnology, Massachusetts Institute of Technology, Cambridge, MA, USA.
⁵ MIT Media Lab, Massachusetts Institute of Technology, Cambridge, MA, USA.
⁶ Department of Chemical and Biological Engineering, Princeton University and Howard Hughes Medical Institute, Princeton, NJ, USA.
⁷ Department of Physics, Massachusetts Institute of Technology, Cambridge, MA, USA.
⁸ West Coast Metabolomics Center, University of California Davis, Davis, CA, USA.
⁹ Biodesign Center for Applied Structural Discovery and School of Molecular Sciences, Arizona State University, Tempe, AZ, USA.
¹⁰ Lunenfeld-Tanenbaum Research Institute, Sinai Health System, Toronto, Ontario, Canada.
¹¹ Department of Systems Pharmacology and Translational Therapeutics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, USA.
¹² Childhood Cancer Data Lab, Alex's Lemonade Stand Foundation, Philadelphia, PA, USA.
¹³ European Molecular Biology Laboratory, Heidelberg, Germany.
¹⁴ Collège de France, Paris, France.
¹⁵ Max Planck Institute for Biophysical Chemistry, Göttingen, Germany.
¹⁶ Max Planck Institute for Medical Research, Heidelberg, Germany.
¹⁷ Departments of Biomedical Engineering and Radiology, Columbia University, New York, NY, USA.
¹⁸ Mortimer B. Zuckerman Mind Brain Behavior Institute, Columbia University, New York, NY, USA.
¹⁹ Departments of Biology and Biophysics, California Institute of Technology and Howard Hughes Medical Institute, Pasadena, CA, USA.
²⁰ Department of Biomedical Engineering, The Johns Hopkins University, Baltimore, Maryland, USA.
²¹ Department of Oncology, Johns Hopkins Medical Institutions, Baltimore, Maryland, USA.
²² The Institute for Computational Medicine, The Johns Hopkins University, Baltimore, Maryland, USA.
²³ Department of Computer Science, The Johns Hopkins University, Baltimore, Maryland, USA.
²⁴ Department of Chemistry, Massachusetts Institute of Technology, Cambridge, MA, USA.
²⁵ Center for Genomic Medicine, Massachusetts General Hospital, Boston, MA, USA.
²⁶ Department of Pathology, Massachusetts General Hospital, Boston, MA, USA.
²⁷ Department of Pathology, Harvard Medical School, Boston, MA, USA.
²⁸ Department of Pediatrics, University of California, San Diego, La Jolla, CA, USA.
²⁹ Department of Bioengineering, University of California, San Diego, La Jolla, CA, USA.
³⁰ Department of Computer Science & Engineering, University of California, San Diego, La Jolla, CA, USA.
³¹ Center for Microbiome Innovation, University of California, San Diego, La Jolla, CA, USA.
³² Physical and Theoretical Chemistry Laboratory, Department of Chemistry, University of Oxford, Oxford, UK.
³³ MRC Laboratory of Molecular Biology, Cambridge, UK.
³⁴ Institute of Microbiology and Infection, University of Birmingham, Birmingham, UK.
³⁵ Janelia Research Campus, Howard Hughes Medical Institute, Ashburn, VA, USA.
³⁶ Science for Life Laboratory, School of Engineering Sciences in Chemistry, Biotechnology and Health, KTH Royal Institute of Technology, Stockholm, Sweden.
³⁷ Department of Genetics, Stanford University, Stanford, CA, USA.
³⁸ Chan Zuckerberg Biohub, San Francisco, CA, USA.
³⁹ School of Biomedical Engineering, Hainan University, Haikou, China.
⁴⁰ Wuhan National Laboratory for Optoelectronics, Huazhong University of Science and Technology, Wuhan, China.
⁴¹ Laboratory for Cell Function Dynamics, Brain Science Institute, RIKEN, Wako, Japan.
⁴² Biotechnological Optics Research Team, Center for Advanced Photonics, RIKEN, Wako, Japan.
⁴³ Center for Systems Biology Dresden, Dresden, Germany.
⁴⁴ Max Planck Institute of Molecular Cell Biology and Genetics, Dresden, Germany.
⁴⁵ Department of Computer Science, Technical University Dresden, Dresden, Germany.
⁴⁶ Department of Microbiology & Immunology, Stanford University School of Medicine, Stanford, CA, USA.
⁴⁷ Institute of Molecular Systems Biology, Department of Biology, ETH Zurich, Zurich, Switzerland.
⁴⁸ Babraham Institute, Babraham, UK.
⁴⁹ Sanger Institute, Hinxton, UK.
⁵⁰ University of Cambridge, Cambridge, UK.
⁵¹ Department of Biotechnology and Biophysics, Biocenter, University of Würzburg, Würzburg, Germany.
⁵² Institute for Medical Engineering and Science, Massachusetts Institute of Technology, Cambridge, MA, USA.
⁵³ Koch Institute for Integrative Cancer Research, Massachusetts Institute of Technology, Cambridge, MA, USA.
⁵⁴ Broad Institute of MIT and Harvard, Cambridge, MA, USA.
⁵⁵ Ragon Institute of MGH, MIT and Harvard, Cambridge, MA, USA.
⁵⁶ Division of Health Sciences and Technology, Department of Immunology, Harvard Medical School, Boston, MA, USA.
⁵⁷ Department of Immunology, Massachusetts General Hospital, Boston, MA, USA.
⁵⁸ Genome Sciences, University of Washington, Seattle, WA, USA.
⁵⁹ Brotman Baty Institute for Precision Medicine, Seattle, WA, USA.
⁶⁰ Department of Bioengineering, Northeastern University, Boston, MA, USA.
⁶¹ Barnett Institute, Northeastern University, Boston, MA, USA.
⁶² Departments of Computer Science & Applied Mathematics and Biological Regulation, Weizmann Institute of Science, Rehovot, Israel.
⁶³ Department of Computer Science, Lewis-Sigler Institute for Integrative Genomics, Princeton University, Princeton, NJ, USA.
⁶⁴ Department of Genomics, Flatiron Institute, Simons Foundation, New York City, NY, USA.
⁶⁵ Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA, USA.
⁶⁶ School of Life Sciences, Tsinghua University, Beijing, China.
⁶⁷ Peking University, Beijing, China.
⁶⁸ Wyss Institute for Biologically Inspired Engineering, Harvard University, Boston, MA, USA.
⁶⁹ Department of Systems Biology, Harvard Medical School, Boston, MA, USA.
⁷⁰ Division of Biology, California Institute of Technology, Pasadena, CA, USA.
⁷¹ Department of Physiology, Development and Neuroscience, University of Cambridge, Cambridge, UK.
⁷² Departments of Chemistry & Chemical Biology and Physics, Harvard University and Howard Hughes Medical Institute, Cambridge, MA, USA.

PMID: 31562479
PMCID: PMC7075469
DOI: 10.1038/s41592-019-0585-6

Voices in methods development

Polina Anikeeva et al. Nat Methods. 2019 Oct.

. 2019 Oct;16(10):945-951.

doi: 10.1038/s41592-019-0585-6.

Authors

Affiliations

¹ Departments of Materials Science & Engineering and Brain & Cognitive Sciences, Massachusetts Institute of Technology, Cambridge, MA, USA.
² Research Laboratory of Electronics, Massachusetts Institute of Technology, Cambridge, MA, USA.
³ McGovern Institute for Brain Research, Massachusetts Institute of Technology, Cambridge, MA, USA.
⁴ Department of Neurotechnology, Massachusetts Institute of Technology, Cambridge, MA, USA.
⁵ MIT Media Lab, Massachusetts Institute of Technology, Cambridge, MA, USA.
⁶ Department of Chemical and Biological Engineering, Princeton University and Howard Hughes Medical Institute, Princeton, NJ, USA.
⁷ Department of Physics, Massachusetts Institute of Technology, Cambridge, MA, USA.
⁸ West Coast Metabolomics Center, University of California Davis, Davis, CA, USA.
⁹ Biodesign Center for Applied Structural Discovery and School of Molecular Sciences, Arizona State University, Tempe, AZ, USA.
¹⁰ Lunenfeld-Tanenbaum Research Institute, Sinai Health System, Toronto, Ontario, Canada.
¹¹ Department of Systems Pharmacology and Translational Therapeutics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, USA.
¹² Childhood Cancer Data Lab, Alex's Lemonade Stand Foundation, Philadelphia, PA, USA.
¹³ European Molecular Biology Laboratory, Heidelberg, Germany.
¹⁴ Collège de France, Paris, France.
¹⁵ Max Planck Institute for Biophysical Chemistry, Göttingen, Germany.
¹⁶ Max Planck Institute for Medical Research, Heidelberg, Germany.
¹⁷ Departments of Biomedical Engineering and Radiology, Columbia University, New York, NY, USA.
¹⁸ Mortimer B. Zuckerman Mind Brain Behavior Institute, Columbia University, New York, NY, USA.
¹⁹ Departments of Biology and Biophysics, California Institute of Technology and Howard Hughes Medical Institute, Pasadena, CA, USA.
²⁰ Department of Biomedical Engineering, The Johns Hopkins University, Baltimore, Maryland, USA.
²¹ Department of Oncology, Johns Hopkins Medical Institutions, Baltimore, Maryland, USA.
²² The Institute for Computational Medicine, The Johns Hopkins University, Baltimore, Maryland, USA.
²³ Department of Computer Science, The Johns Hopkins University, Baltimore, Maryland, USA.
²⁴ Department of Chemistry, Massachusetts Institute of Technology, Cambridge, MA, USA.
²⁵ Center for Genomic Medicine, Massachusetts General Hospital, Boston, MA, USA.
²⁶ Department of Pathology, Massachusetts General Hospital, Boston, MA, USA.
²⁷ Department of Pathology, Harvard Medical School, Boston, MA, USA.
²⁸ Department of Pediatrics, University of California, San Diego, La Jolla, CA, USA.
²⁹ Department of Bioengineering, University of California, San Diego, La Jolla, CA, USA.
³⁰ Department of Computer Science & Engineering, University of California, San Diego, La Jolla, CA, USA.
³¹ Center for Microbiome Innovation, University of California, San Diego, La Jolla, CA, USA.
³² Physical and Theoretical Chemistry Laboratory, Department of Chemistry, University of Oxford, Oxford, UK.
³³ MRC Laboratory of Molecular Biology, Cambridge, UK.
³⁴ Institute of Microbiology and Infection, University of Birmingham, Birmingham, UK.
³⁵ Janelia Research Campus, Howard Hughes Medical Institute, Ashburn, VA, USA.
³⁶ Science for Life Laboratory, School of Engineering Sciences in Chemistry, Biotechnology and Health, KTH Royal Institute of Technology, Stockholm, Sweden.
³⁷ Department of Genetics, Stanford University, Stanford, CA, USA.
³⁸ Chan Zuckerberg Biohub, San Francisco, CA, USA.
³⁹ School of Biomedical Engineering, Hainan University, Haikou, China.
⁴⁰ Wuhan National Laboratory for Optoelectronics, Huazhong University of Science and Technology, Wuhan, China.
⁴¹ Laboratory for Cell Function Dynamics, Brain Science Institute, RIKEN, Wako, Japan.
⁴² Biotechnological Optics Research Team, Center for Advanced Photonics, RIKEN, Wako, Japan.
⁴³ Center for Systems Biology Dresden, Dresden, Germany.
⁴⁴ Max Planck Institute of Molecular Cell Biology and Genetics, Dresden, Germany.
⁴⁵ Department of Computer Science, Technical University Dresden, Dresden, Germany.
⁴⁶ Department of Microbiology & Immunology, Stanford University School of Medicine, Stanford, CA, USA.
⁴⁷ Institute of Molecular Systems Biology, Department of Biology, ETH Zurich, Zurich, Switzerland.
⁴⁸ Babraham Institute, Babraham, UK.
⁴⁹ Sanger Institute, Hinxton, UK.
⁵⁰ University of Cambridge, Cambridge, UK.
⁵¹ Department of Biotechnology and Biophysics, Biocenter, University of Würzburg, Würzburg, Germany.
⁵² Institute for Medical Engineering and Science, Massachusetts Institute of Technology, Cambridge, MA, USA.
⁵³ Koch Institute for Integrative Cancer Research, Massachusetts Institute of Technology, Cambridge, MA, USA.
⁵⁴ Broad Institute of MIT and Harvard, Cambridge, MA, USA.
⁵⁵ Ragon Institute of MGH, MIT and Harvard, Cambridge, MA, USA.
⁵⁶ Division of Health Sciences and Technology, Department of Immunology, Harvard Medical School, Boston, MA, USA.
⁵⁷ Department of Immunology, Massachusetts General Hospital, Boston, MA, USA.
⁵⁸ Genome Sciences, University of Washington, Seattle, WA, USA.
⁵⁹ Brotman Baty Institute for Precision Medicine, Seattle, WA, USA.
⁶⁰ Department of Bioengineering, Northeastern University, Boston, MA, USA.
⁶¹ Barnett Institute, Northeastern University, Boston, MA, USA.
⁶² Departments of Computer Science & Applied Mathematics and Biological Regulation, Weizmann Institute of Science, Rehovot, Israel.
⁶³ Department of Computer Science, Lewis-Sigler Institute for Integrative Genomics, Princeton University, Princeton, NJ, USA.
⁶⁴ Department of Genomics, Flatiron Institute, Simons Foundation, New York City, NY, USA.
⁶⁵ Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA, USA.
⁶⁶ School of Life Sciences, Tsinghua University, Beijing, China.
⁶⁷ Peking University, Beijing, China.
⁶⁸ Wyss Institute for Biologically Inspired Engineering, Harvard University, Boston, MA, USA.
⁶⁹ Department of Systems Biology, Harvard Medical School, Boston, MA, USA.
⁷⁰ Division of Biology, California Institute of Technology, Pasadena, CA, USA.
⁷¹ Department of Physiology, Development and Neuroscience, University of Cambridge, Cambridge, UK.
⁷² Departments of Chemistry & Chemical Biology and Physics, Harvard University and Howard Hughes Medical Institute, Cambridge, MA, USA.

PMID: 31562479
PMCID: PMC7075469
DOI: 10.1038/s41592-019-0585-6

Abstract

To mark the 15th anniversary of Nature Methods, we asked scientists from across diverse fields of basic biology research for their views on the most exciting and essential methodological challenges that their communities are poised to tackle in the near future.

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