Literature DB >> 32359477

Activity-Based Diagnostics: An Emerging Paradigm for Disease Detection and Monitoring.

Ava P Soleimany1, Sangeeta N Bhatia2.   

Abstract

Diagnostics to accurately detect disease and monitor therapeutic response are essential for effective clinical management. Bioengineering, chemical biology, molecular biology, and computer science tools are converging to guide the design of diagnostics that leverage enzymatic activity to measure or produce biomarkers of disease. We review recent advances in the development of these 'activity-based diagnostics' (ABDx) and their application in infectious and noncommunicable diseases. We highlight efforts towards both molecular probes that respond to disease-specific catalytic activity to produce a diagnostic readout, as well as diagnostics that use enzymes as an engineered component of their sense-and-respond cascade. These technologies exemplify how integrating techniques from multiple disciplines with preclinical validation has enabled ABDx that may realize the goals of precision medicine.
Copyright © 2020 Elsevier Ltd. All rights reserved.

Entities:  

Keywords:  CRISPR/Cas; activity-based probes; diagnostics; enzymes; protease activity; synthetic biology; synthetic biomarkers

Mesh:

Substances:

Year:  2020        PMID: 32359477      PMCID: PMC8290463          DOI: 10.1016/j.molmed.2020.01.013

Source DB:  PubMed          Journal:  Trends Mol Med        ISSN: 1471-4914            Impact factor:   11.951


  114 in total

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Authors:  Jin-Sil Choi; Soojin Kim; Dongwon Yoo; Tae-Hyun Shin; Hoyoung Kim; Muller D Gomes; Sun Hee Kim; Alexander Pines; Jinwoo Cheon
Journal:  Nat Mater       Date:  2017-02-06       Impact factor: 43.841

Review 2.  Zymography methods for visualizing hydrolytic enzymes.

Authors:  Jennifer Vandooren; Nathalie Geurts; Erik Martens; Philippe E Van den Steen; Ghislain Opdenakker
Journal:  Nat Methods       Date:  2013-03       Impact factor: 28.547

3.  Synthetic recombinase-based state machines in living cells.

Authors:  Nathaniel Roquet; Ava P Soleimany; Alyssa C Ferris; Scott Aaronson; Timothy K Lu
Journal:  Science       Date:  2016-07-21       Impact factor: 47.728

4.  Reduced lung-cancer mortality with low-dose computed tomographic screening.

Authors:  Denise R Aberle; Amanda M Adams; Christine D Berg; William C Black; Jonathan D Clapp; Richard M Fagerstrom; Ilana F Gareen; Constantine Gatsonis; Pamela M Marcus; JoRean D Sicks
Journal:  N Engl J Med       Date:  2011-06-29       Impact factor: 91.245

5.  Classification of prostate cancer using a protease activity nanosensor library.

Authors:  Jaideep S Dudani; Maria Ibrahim; Jesse Kirkpatrick; Andrew D Warren; Sangeeta N Bhatia
Journal:  Proc Natl Acad Sci U S A       Date:  2018-08-20       Impact factor: 11.205

6.  Granzyme B PET Imaging as a Predictive Biomarker of Immunotherapy Response.

Authors:  Benjamin M Larimer; Eric Wehrenberg-Klee; Frank Dubois; Anila Mehta; Taylor Kalomeris; Keith Flaherty; Genevieve Boland; Umar Mahmood
Journal:  Cancer Res       Date:  2017-05-01       Impact factor: 12.701

7.  Genetic analysis of the beta-lactamases of Mycobacterium tuberculosis and Mycobacterium smegmatis and susceptibility to beta-lactam antibiotics.

Authors:  Anthony R Flores; Linda M Parsons; Martin S Pavelka
Journal:  Microbiology       Date:  2005-02       Impact factor: 2.777

8.  In vivo imaging of tumors with protease-activated near-infrared fluorescent probes.

Authors:  R Weissleder; C H Tung; U Mahmood; A Bogdanov
Journal:  Nat Biotechnol       Date:  1999-04       Impact factor: 54.908

Review 9.  Beyond PSA: the next generation of prostate cancer biomarkers.

Authors:  John R Prensner; Mark A Rubin; John T Wei; Arul M Chinnaiyan
Journal:  Sci Transl Med       Date:  2012-03-28       Impact factor: 17.956

10.  CRISPR-Cas12a target binding unleashes indiscriminate single-stranded DNase activity.

Authors:  Janice S Chen; Enbo Ma; Lucas B Harrington; Maria Da Costa; Xinran Tian; Joel M Palefsky; Jennifer A Doudna
Journal:  Science       Date:  2018-02-15       Impact factor: 47.728

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  11 in total

1.  Advances in Multiplexed Paper-Based Analytical Devices for Cancer Diagnosis: A Review of Technological Developments.

Authors:  Nihan Yonet-Tanyeri; Benjamin Z Ahlmark; Steven R Little
Journal:  Adv Mater Technol       Date:  2021-04-21

2.  Host protease activity classifies pneumonia etiology.

Authors:  Melodi Anahtar; Leslie W Chan; Henry Ko; Aditya Rao; Ava P Soleimany; Purvesh Khatri; Sangeeta N Bhatia
Journal:  Proc Natl Acad Sci U S A       Date:  2022-06-13       Impact factor: 12.779

3.  Protease activity sensors enable real-time treatment response monitoring in lymphangioleiomyomatosis.

Authors:  Jesse D Kirkpatrick; Ava P Soleimany; Jaideep S Dudani; Heng-Jia Liu; Hilaire C Lam; Carmen Priolo; Elizabeth P Henske; Sangeeta N Bhatia
Journal:  Eur Respir J       Date:  2022-04-14       Impact factor: 33.795

4.  Development of a fluorescent probe library enabling efficient screening of tumour-imaging probes based on discovery of biomarker enzymatic activities.

Authors:  Yugo Kuriki; Takafusa Yoshioka; Mako Kamiya; Toru Komatsu; Hiroyuki Takamaru; Kyohhei Fujita; Hirohisa Iwaki; Aika Nanjo; Yuki Akagi; Kohei Takeshita; Haruaki Hino; Rumi Hino; Ryosuke Kojima; Tasuku Ueno; Kenjiro Hanaoka; Seiichiro Abe; Yutaka Saito; Jun Nakajima; Yasuteru Urano
Journal:  Chem Sci       Date:  2022-03-21       Impact factor: 9.969

Review 5.  Synthetic biology in the clinic: engineering vaccines, diagnostics, and therapeutics.

Authors:  Xiao Tan; Justin H Letendre; James J Collins; Wilson W Wong
Journal:  Cell       Date:  2021-02-10       Impact factor: 41.582

6.  Hemodynamic molecular imaging of tumor-associated enzyme activity in the living brain.

Authors:  Mitul Desai; Jitendra Sharma; Adrian L Slusarczyk; Ashley A Chapin; Robert Ohlendorf; Agata Wisniowska; Mriganka Sur; Alan Jasanoff
Journal:  Elife       Date:  2021-12-21       Impact factor: 8.140

7.  Protease Activity Analysis: A Toolkit for Analyzing Enzyme Activity Data.

Authors:  Ava P Soleimany; Carmen Martin-Alonso; Melodi Anahtar; Cathy S Wang; Sangeeta N Bhatia
Journal:  ACS Omega       Date:  2022-07-06

8.  Advances in activity-based diagnostics for infectious disease and microbiome health.

Authors:  Leslie W Chan
Journal:  Curr Opin Biomed Eng       Date:  2021-05-25

Review 9.  Drugging DNA Damage Repair Pathways for Trinucleotide Repeat Expansion Diseases.

Authors:  Caroline L Benn; Karl R Gibson; David S Reynolds
Journal:  J Huntingtons Dis       Date:  2021

10.  Activatable Zymography Probes Enable In Situ Localization of Protease Dysregulation in Cancer.

Authors:  Ava P Soleimany; Jesse D Kirkpatrick; Susan Su; Jaideep S Dudani; Qian Zhong; Ahmet Bekdemir; Sangeeta N Bhatia
Journal:  Cancer Res       Date:  2020-10-26       Impact factor: 12.701

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