At the interface of biology and computation

Taylor, Alex; Piterman, Nir; Ishtiaq, Samin; Fisher, Jasmin; Cook, Byron; Cockerton, Caitlin; Bourton, Sam; Benqué, David

doi:10.1145/2470654.2470725

Cited by 6 publications

(3 citation statements)

References 26 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…where E "./ is the critical electrical field at velocity saturation point and L is the length of the transistor. The gate drive voltage of transistor M is proportional to I " , hence I " is limited by I " and is given as Equation (5).…”

Section: Proposed Analog Electronic Models For Hill Processmentioning

confidence: 99%

Analog Electronic Circuits to Model Cooperativity in Hill Process

Waqas

Khurram

Hasan

2020

Mehran Univ. res. j. eng. technol.

View full text Add to dashboard Cite

In the field of computational biology, electronic modeling of bio-cellular processes is in vogue for about a couple of decades. Fast, efficient and scalable electronic mimetics of recurrently found bio-chemical reactions are expected to provide better electronic circuit simulators that can also be used as bio-sensors or implantable biodevices at cellular levels. This paper presents some possible electronic circuit equivalents to model dynamics of one such bio-chemical reaction commonly involved in many bio-cellular processes, specifically pathways in living cells, known as the Hill process. The distinguishing feature of this process is cooperativity which has been modeled in silicon substrate using a pair of transistors, one transistor driving current in the other the same way ligand binding to one receptor site controls the binding affinity of the other receptor sites. Two possible circuits have been proposed and compared to electronically model cooperativity of a Hill reaction. The main idea is to exploit the natural analogies found between structures and processes of a bio-cell and electronic transistor mechanics, to efficiently model fundamental bio-chemical reactions found recurring in bio-processes. These circuits can then be combined and rearranged quickly to form larger, more complex bio-networks, thus mitigating the intricacies involved in modeling of such systems.

show abstract

Section: Proposed Analog Electronic Models For Hill Processmentioning

confidence: 99%

Analog Electronic Circuits to Model Cooperativity in Hill Process

Waqas

Khurram

Hasan

2020

Mehran Univ. res. j. eng. technol.

View full text Add to dashboard Cite

show abstract

“…Kuznetsov et al [29] have envisioned DIYbio platforms in HCI as rich tools for expertise sharing as well as instruments for public engagement with science. Taylor et al [44] explored a computational biology tool from an HCI perspective and suggested that the conceptual problems that exist when using tools that model biology can be seen as opportunities to view design and HCI within an orientation that contests science as a monistic endeavor and supports instead an emergent idea of scientific ways of knowing. Kim et al [26] developed the LudusScope, a smartphone-compatible DIY microscope that enables HBI.…”

Section: Human-computer Interaction In the Life Sciencesmentioning

confidence: 99%

An interactive programming paradigm for realtime experimentation with remote living matter

Washington

Samuel-Gama

Goyal

et al. 2017

Preprint

View full text Add to dashboard Cite

Life-science research is increasingly accelerated through instrumentation advancements -even supporting the real-time interaction with living matter in the cloud. This enables entirely new applications for research, education, and art. The creation of such applications is currently challenging and time consuming, even for experts, as it requires knowledge of biotechnology, hardware design, and software development in addition to continuous access to reliable and responsive biological materials. We therefore developed Bioty, a JavaScript-based web toolkit enabling rapid prototyping of versatile Human-Biology Interaction (HBI) applications utilizing swarms of motile, phototactic cells hosted on a remote cloud lab. We evaluated and demonstrated the utility of Bioty through user studies with both HBI novices and experts, who used Bioty to create applications such as interactive scientific experiments, biotic video games, and biological art. Our findings inform the design of development toolkits for programming the behavior of biological matter.

show abstract

“…Thus, participation in genetics is often motivated by and brings about a host of new concerns, from discovering personal and intimate information about oneself to understanding patterns in human migration and evolution. These issues reflect opportunities and challenges arising from the convergence of biology and computation [27].…”

Section: Introductionmentioning

confidence: 99%

Biological Citizen Publics

Kuznetsov

Kittur

Paulos

2015

Proceedings of the 2015 ACM SIGCHI Conference on Creativity and Cognition

View full text Add to dashboard Cite

Low-cost genetic sequencing, coupled with novel social media platforms and visualization techniques, present a new frontier for scientific participation, whereby people can learn, share, and act on data embedded within their own bodies. Our study of 23andMe, a popular genetic testing service, reveals how users make sense of and contextualize their genetic results, critique and evaluate the underlying research, and reflect on the broader implications of genetic testing. We frame user groups as citizen science publicsgroups that coalesce around scientific issues and work towards resolving shared concerns. Our findings show that personal genetics serves as a site for public engagement with science, whereby communities of biological citizens creatively interpret, debate, and act on professional research. We conclude with design trajectories at the intersection of genetics and creativity support tools: platforms for aggregating hybrid knowledge; tools for creative reflection on professional science; and strategies for supporting collaborations across communities.

show abstract

At the interface of biology and computation

Cited by 6 publications

References 26 publications

Analog Electronic Circuits to Model Cooperativity in Hill Process

Analog Electronic Circuits to Model Cooperativity in Hill Process

An interactive programming paradigm for realtime experimentation with remote living matter

Biological Citizen Publics

Contact Info

Product

Resources

About