▸ Publications

 

Highlights (Full list further below)

* Corresponding author

friedrich

Polygonal motion and adaptable phototaxis via flagellar beat switching in the microswimmer Euglena gracilis

Tsang A, Lam A, Riedel-Kruse IH*

Nature Physics, Advanced Online (2018). (pdf) (journal)

See also News & Views.

friedrich

A genetically encoded adhesin toolbox for programming multicellular morphologies and patterns

Glass D, Riedel-Kruse IH*

Cell 174 (3), 649-658, (2018). (pdf) (journal)

David then co-authored a perspective in Science on composability accross scales in synthetic biology.

friedrich

Biofilm Lithography enables high-resolution cell patterning via optogenetic adhesin expression

Jin X, Riedel-Kruse IH*

PNAS (2018) 115 (14) 3698-3703. (pdf) (journal)

Selected for the journal cover.

friedrich

Design Guidelines and Empirical Case Study for Scaling Authentic Inquiry-based Science Learning via Open Online Courses and Interactive Biology Cloud Labs

Hossain Z, Bumbacher E, Brauneis A, Diaz M, Saltarelli A, Blikstein P, Riedel-Kruse IH.*

International Journal of Artificial Intelligence in Education, 1-30, (2017). (pdf) (journal)

friedrich

Device and Programming Abstractions for Spatiotemporal Control of Active Micro-Particle swarms

Lam AT, Samuel-Gama KG, Griffin J, Loeun M, Gerber L, Hossain Z, Cira NJ, Lee SA, Riedel-Kruse IH*

Lab on a Chip 17(8), 1441-1451 (2017). (pdf) (journal)

Selected as Top 10% article / HOT article in Lab on a Chip

2d robot

Liquid-handling Lego robots and experiments for STEM education and research

Gerber LC, Calasanz-Kaiser A., Hyman L., Voitiuk K., Patil U., Riedel-Kruse IH.*

PLoS Biology 15(3) (2017). (pdf) (journal)

Build your own Lego pipetting robot (all instructions open source are here) to do your life-science experiments.

friedrich

Interactive and Scalable Biology Cloud Experimentation for Scientific Inquiry and Education

Hossain Z, Bumbacher E, Chung AM, Honesty K, Walter A, Litton C, Pradhan S, Jona K, Blikstein P, Riedel-Kruse IH.*

Nature Biotechnology 34(12) (2016). (pdf) (journal)

Discussed in an earlier News Feature in Nature.

phone_kit

LudusScope: Accessible Interactive Smartphone Microscopy for Life-Science Education

Honesty Kim, Seung Ah Lee, Lukas Gerber, Daniel Chiu, Sherwin Yuyang Xia, Nate Cira, Ingmar H. Riedel-Kruse*
PLoS ONE 11(10): e0162602 (2016). (pdf) (journal).

Build your own microscope (all instructions open source are here), interact with cells in realtime, play games, and explore.

Featured in Nature.

Among top 1% most downloaded PLoS one articles in 2016.

lab_inhibit

Signaling Delays preclude Defects in Lateral Inhibition Patterning
David S. Glass, Xiaofan Jin, Ingmar H. Riedel-Kruse*

Phys. Rev. Lett. 116, 128102 (2016). (pdf) (journal)

Hey mom and dad - it's the same journal that just reported the gravitational waves!

friedrich

Cloud Experimentation for Biology: Systems Architecture and Utility for Online Education and Research

Zahid Hossain, Alice Chung, Nathan Orloff, Sean Choi, Stephen Koo, Cynthia Truong, Paulo Blikstein, and Ingmar H. Riedel-Kruse*

Proceedings of the 33rd Annual ACM Conference on Human Factors in Computing Systems (3681). 2015 (pdf) (journal) (video)

Honorable mention best paper award.

See also earlier News Feature in Nature.

tangible paper

Trap it! : A Playful Human-Biology Interaction for a
Museum Installation

Seung Ah Lee, Engin Bumbacher, Alice M. Chung, Nate Cira, Byron Walker, Ji Young Park, Barry Starr, Paulo Blikstein, and Ingmar H. Riedel-Kruse*
Proceedings of the 33rd Annual ACM Conference on Human Factors in Computing Systems (2593). (2015) (pdf) (journal) (video)

friedrich

A Biotic Game Design Course

Nate Cira, Alice Chung, Aleksandra K. Denisin, Stefano Rensi, Gabriel Sanchez, Stephen Quake, Ingmar H. Riedel-Kruse*
PLoS Biology 2015 (pdf) (journal) (video)

friedrich

Design, Engineering and Utility of Biotic Games

Riedel-Kruse*, I.H., Chung, A.M., Dura, B., Hamilton, A.L., B.C. Lee 
Lab on a Chip (2011). 11, 14-22 (pdf) (journal) (viewpoint) (video)

most viewed video ever on the Lab on a Chip channel

Signficant secondary press in Science, Nature Biotechnology, WIRED, Scientific American, ...

paper icon

Synchrony dynamics during initiation, failure and rescue of the segmentation clock.

Riedel-Kruse*, I.H., Müller, C., A.C.Oates*
Science (2007) 317: 1911. (pdf) (journal) (Editors' choice)

paper log

A self-organized vortex array of hydrodynamically entrained sperm cells.

Riedel*, I.H., Kruse, K., J. Howard*
Science (2005) 309: 300. (pdf) (journal) (Editors' choice)

 

Full publication list (peer reviewed or invited)

* Corresponding author


Sub judice 2018  
friedrich

44 Scientific Discovery Games for Biomedical Research.

Das R*, Washington P, Keep B, Riedel-Kruse IH*

sub judice (2018).


friedrich

43 Pac-Euglena: A living cellular Pac-Man meets virtual ghosts.

Lam A, Griffin J, Loeun M, Cira N, Lee SA, Riedel-Kruse IH*

sub judice (2018).


friedrich

42 Bioty: A cloud-based development toolkit for programming experiments and interactive applications with living cells

Washington P, Samuel-Gama K, Goyal S, Riedel-Kruse IH*

sub judice (2018). (pdf on BioRxiv)


friedrich

41 Chemotaxis of Physarum networks

Cira NJ, Ma EY, Paul ML, Riedel-Kruse IH*

sub judice (2018).

friedrich

40 FLIM-FRET-based Tension Measurements in Zebrafish: Designing and Validating an EpCAM Tension Sensor

Hamilton A, Malinas MM, Wu V, Dunn A, Riedel-Kruse IH*

sub judice (2018).

2018  
friedrich

39 High-resolution Patterned Biofilm Deposition Using pDawn-Ag43

Jin X, Riedel-Kruse IH*

Journal of visualized experiments. Accepted (2018).

friedrich

38 Regulation of epithelial migration by epithelial cell adhesion molecule requires its Claudin-7 interaction domain

Barth A, Kim H, Riedel-Kruse IH*

PLoS one. In Press (2018).

friedrich

37 Polygonal motion and adaptable phototaxis via flagellar beat switching in the microswimmer Euglena gracilis

Tsang A, Lam A, Riedel-Kruse IH*

Nature Physics, Advanced Online (2018). (pdf) (journal)

See also News & Views.

friedrich

36 A genetically encoded adhesin toolbox for programming multicellular morphologies and patterns

Glass D, Riedel-Kruse IH*

Cell 174 (3), 649-658, (2018). (pdf) (journal)

David then co-authored a perspective in Science on composability accross scales in synthetic biology.


friedrich

35 Biofilm Lithography enables high-resolution cell patterning via optogenetic adhesin expression

Jin X, Riedel-Kruse IH*

PNAS (2018) 115 (14) 3698-3703. (pdf) (journal)

Selected for the journal cover.


friedrich

34 Affordances of Digital, Textile and Living Media for Designing and Learning Biology in K-12 Education

Kafai Y, ..., Bumbacher E, Blikstein P, Washington P, & Riedel-Kruse, IH.

Proceedings of the 13th international conference of learning sciences. ISLS. Londn, UK. pp. 1275 - 1282 (2018). (pdf)

friedrich

33 Design Matters: The Impact of Technology Design on Students’ Inquiry Behaviors

Bumbacher E, Hossain Z, Riedel-Kruse IH, Blikstein P.*

Proceedings of the 13th international conference of learning sciences. ISLS. London, UK. pp. 839 - 846 (2018). (pdf)

schematic image cloud lab

32 Life-Science Experiments Online: Technological Frameworks and Educational Use Cases

Hossain Z, Riedel-Kruse IH*

Review in book "Cyber-Physical Laboratories in Engineering and Science Education" (2018). (pdf) (publisher)

2017  
friedrich

31 Design Guidelines and Empirical Case Study for Scaling Authentic Inquiry-based Science Learning via Open Online Courses and Interactive Biology Cloud Labs

Hossain Z, Bumbacher E, Brauneis A, Diaz M, Saltarelli A, Blikstein P, Riedel-Kruse IH.*

International Journal of Artificial Intelligence in Education, 1-30, 2017. (pdf) (journal)

friedrich

30 Stem Cell Scaling during Adult Organ Resizing

Du X, O'Brien L*, Riedel-Kruse IH*
Biophysical Journal 113(1) 174-184 (2017) (pdf) (journal)

friedrich

29 Authentic Science Inquiry Learning at Scale Enabled by an Interactive Biology Cloud Experimentation Lab

Hossain Z, Bumbacher E, Blikstein P, Riedel-Kruse IH*

Proceedings of the Fourth (2017) ACM Conference on Learning@ Scale 237-240 (2017). (pdf) (journal)

friedrich

28 Device and Programming Abstractions for Spatiotemporal Control of Active Micro-Particle swarms

Lam AT, Samuel-Gama KG, Griffin J, Loeun M, Gerber L, Hossain Z, Cira NJ, Lee SA, Riedel-Kruse IH*

Lab on a Chip 17(8), 1441-1451 (2017). (pdf) (journal)

Selected as Top 10% article / HOT article in Lab on a Chip


2d robot

27 Liquid-handling Lego robots and experiments for STEM education and research

Gerber LC, Calasanz-Kaiser A., Hyman L., Voitiuk K., Patil U., Riedel-Kruse IH.*

PLoS Biology 15(3) (2017). (pdf) (journal)

Build your own Lego pipetting robot (all instructions open source are here) to do your life-science experiments.

cloud_lab_transc_Rev

26 Incorporating a Commercial Biology Cloud Lab into Online Education

Riedel-Kruse IH*

14th International Conference on Remote Engineering and Virtual Instrumentation. IEEE. (2017) (pdf)

2016  
friedrich

25 Interactive and Scalable Biology Cloud Experimentation for Scientific Inquiry and Education

Hossain Z, Bumbacher E, Chung AM, Honesty K, Walter A, Litton C, Pradhan S, Jona K, Blikstein P, Riedel-Kruse IH.*

Nature Biotechnology 34(12) (2016). (pdf) (journal)

Discussed in an earlier News Feature in Nature.


phone_kit

24 LudusScope: Accessible Interactive Smartphone Microscopy for Life-Science Education

Honesty Kim, Seung Ah Lee, Lukas Gerber, Daniel Chiu, Sherwin Yuyang Xia, Nate Cira, Ingmar H. Riedel-Kruse*
PLoS ONE 11(10): e0162602 (2016). (pdf) (journal).

Build your own microscope (all instructions open source are here), interact with cells in realtime, play games, and explore.

Featured in Nature.

Among top 1% most downloaded PLoS one articles in 2016.

HBD

23 Interactive Biotechnology: Design Rules for Integrating Living Matter into Digital Games

Lukas Gerber, Honesty Kim, Ingmar H. Riedel-Kruse*
DiGRA/FDG Vol. 13 (2016). (pdf) (journal)

biographr

22 BioGraphr: Science Games on a Biotic Computer
Gerber LC, Doshi M, Kim H, Ingmar H. Riedel-Kruse*

DiGRA/FDG Vol. 13 (2016). (pdf) (journal)

biographr

21 On the General Analytical Solution of the Kinematic Cosserat Equations

Dominik L. Michels*, Dmitry A. Lyakhov, Vladimir P. Gerdt, Zahid Hossain, Ingmar H. Riedel-Kruse, and Andreas G. Weber.

Computer Algebra in Scientific Computing, CASC 2016, LNCS 9890, Springer, (2016). (pdf) (journal)

lab_inhibit

20 Signaling Delays preclude Defects in Lateral Inhibition Patterning
David S. Glass, Xiaofan Jin, Ingmar H. Riedel-Kruse*

Phys. Rev. Lett. 116, 128102 (2016). (pdf) (journal)

2015  
Sticker_MF

19 Microfluidic Assembly Kit based on laser-cut Building Blocks for Education and fast Prototyping
Gerber LC, Kim H, Riedel-Kruse IH*
Biomicrofluidics (2015) (pdf) (journal)

friedrich

18 A Force Balance Can Explain Local and Global Cell Movements during Early Zebrafish Development
Jack Chai, Andrea L. Hamilton, Michael Krieg, Craig D. Buckley, Ingmar H. Riedel-Kruse, Alexander R. Dunn
Biophysical Journal (2015) (pdf) (journal)

friedrich

17 Real-time and turn-based biology online experimentation
Zahid Hossain, Alice M. Chung, Ingmar H. Riedel-Kruse*
12th International Conference on Remote Engineering and Virtual Instrumentation, pp. 86-89. IEEE. (2015). (journal)

tangible paper

16 Trap it! : A Playful Human-Biology Interaction for a
Museum Installation

Seung Ah Lee, Engin Bumbacher, Alice M. Chung, Nate Cira, Byron Walker, Ji Young Park, Barry Starr, Paulo Blikstein, and Ingmar H. Riedel-Kruse*
Proceedings of the 33rd Annual ACM Conference on Human Factors in Computing Systems (2593). 2015 (pdf) (journal) (video)

friedrich

15 Cloud Experimentation for Biology: Systems Architecture and Utility for Online Education and Research

Zahid Hossain, Alice Chung, Nathan Orloff, Sean Choi, Stephen Koo, Cynthia Truong, Paulo Blikstein, and Ingmar H. Riedel-Kruse*

Proceedings of the 33rd Annual ACM Conference on Human Factors in Computing Systems (3681). 2015 (pdf) (journal) (video)

Honorable mention best paper award.

See also earlier News Feature in Nature.

friedrich

14 A Biotic Game Design Course

Nate Cira, Alice Chung, Aleksandra K. Denisin, Stefano Rensi, Gabriel Sanchez, Stephen Quake, Ingmar H. Riedel-Kruse*
PLoS Biology 2015 (pdf) (journal) (video)

friedrich

13 Tangible interactive microbiology for informal science education

Seung Ah Lee, Alice Chung, Nate Cira, Ingmar H. Riedel-Kruse*
TEI'15 (2015) 273. (pdf) (journal) (video)

top downloaded paper

2014  
shape mode paper

12 Shape Mode Analysis Exposes Movement Patterns in Biology: Flagella and Flatworms as Case Studies

Steffen Werner, Jochen C. Rink, Ingmar H. Riedel-Kruse, Benjamin M. Friedrich

PLoS One (2014) 26;9(11):e113083. (pdf) (journal)

row with flow image

11 Row with the flow
Benjamin M. Friedrich, Ingmar H. Riedel-Kruse

eLife (2014);3:e03804. doi: 10.7554/eLife.03804.(pdf) (journal)

friedrich

10 Active Phase and Amplitude Fluctuations of Flagellar Beating

Rui Ma, Gary S. Klindt, Ingmar H. Riedel-Kruse, Frank Julicher, Benjamin M. Friedrich
Phys. Rev. Lett. (2014) 113, 04810. (pdf) (journal)

friedrich

9 Integrated imaging and bioprinting for scalable, networkable desktop experimentation
Nathan D. Orloff, Cynthia Truong, Nathan Cira, Stephen Koo, Andrea Hamilton, Sean Choi, Ingmar H. Riedel-Kruse*
RCS Advances (2014) DOI:10.1039/C4RA05932H (pdf) (journal)

friedrich

8 Innocent fun or microslavery?: Public Responses to and Ethical Analysis of Biotic Games

Hayden Harvey, Molly Havard, David Magnus, Mildred Cho, Ingmar H. Riedel-Kruse
Hasting Center Report (2014); 44(6):38-46. doi: 10.1002/hast.386.

(pdf) (journal)

2011  
friedrich

7 Design, Engineering and Utility of Biotic Games

Riedel-Kruse*, I.H., Chung, A.M., Dura, B., Hamilton, A.L., B.C. Lee 
Lab on a Chip (2011). 11, 14-22 (pdf) (journal) (viewpoint) (video)

most viewed video ever on the Lab on a Chip channel

Signficant secondary press in Science, Nature Biotechnology, WIRED, Scientific American, ...

2001-2010  
friedrich

6 High-precision tracking of sperm swimming fine structure provides strong test of resistive force theory

B. M. Friedrich, I. H. Riedel-Kruse, J. Howard, F. Jülicher* 
Journal of Experimental Biology (2010) 213, 1226. (pdf) (journal)

Du imag

5 Three-dimensional extracellular recording of neuronal activity with multifunctional microelectrode arrays

Du J., Riedel-Kruse, I.H., Nawroth, J.C., Laurent, G.J., Roukes, M.L., S.C. Masmanidis*  
J. Neurophysiol. (2009) 101: 1671. (pdf) (journal)

paper icon

4 Synchrony dynamics during initiation, failure and rescue of the segmentation clock.

Riedel-Kruse*, I.H., Müller, C., A.C.Oates*
Science (2007) 317: 1911. (pdf) (journal) (Editors' choice)

paper icon

3 How molecular motors shape the flagellar beat.

Riedel-Kruse", I.H., Hilfinger", A., Howard*, J., F. Jülicher*

(" equal contribution random order)
HFSP Journal (2007) 1: 192. (pdf) (journal)

paper log

2 A self-organized vortex array of hydrodynamically entrained sperm cells.

Riedel*, I.H., Kruse, K., J. Howard*
Science (2005) 309: 300. (pdf) (journal) (Editors' choice)

paper icon

1 Ab initio calculation of the transmission coefficients from a superlattice electronic structure.

Riedel, I., Zahn, P., I. Mertig*
Phys. Rev. B (2001) 63: 195403. (pdf) (journal)