Discovery of DNA–Carbon Nanotube Sensors for Serotonin with Machine Learning and Near-infrared Fluorescence Spectroscopy

ACS Nano ◽  
2021 ◽  
Author(s):  
Payam Kelich ◽  
Sanghwa Jeong ◽  
Nicole Navarro ◽  
Jaquesta Adams ◽  
Xiaoqi Sun ◽  
...  
Keyword(s):  
Machine Learning ◽  
Carbon Nanotube ◽  
Fluorescence Spectroscopy ◽  
Near Infrared ◽  
Near Infrared Fluorescence

scholarly journals Machine learning enables discovery of DNA-carbon nanotube sensors for serotonin

2021 ◽  
Author(s):  
Payam Kelich ◽  
Sanghwa Jeong ◽  
Nicole Navarro ◽  
Jaquesta Adams ◽  
Xiaoqi Sun ◽  
...  
Keyword(s):  
Machine Learning ◽  
Carbon Nanotube ◽  
Dna Sequences ◽  
Regression Models ◽  
Near Infrared ◽  
Optical Response ◽  
Support Vector ◽  
Single Walled Carbon Nanotube ◽  
Nir Fluorescence ◽  
Selective Evolution

AbstractDNA-wrapped single walled carbon nanotube (SWNT) conjugates have remarkable optical properties leading to their use in biosensing and imaging applications. A critical limitation in the development of DNA-SWNT sensors is the current inability to predict unique DNA sequences that confer a strong analyte-specific optical response to these sensors. Here, near-infrared (nIR) fluorescence response datasets for ~100 DNA-SWNT conjugates, narrowed down by a selective evolution protocol starting from a pool of ~1010 unique DNA-SWNT candidates, are used to train machine learning (ML) models to predict new unique DNA sequences with strong optical response to neurotransmitter serotonin. First, classifier models based on convolutional neural networks (CNN) are trained on sequence features to classify DNA ligands as either high response or low response to serotonin. Second, support vector machine (SVM) regression models are trained to predict relative optical response values for DNA sequences. Finally, we demonstrate with validation experiments that integrating the predictions of ensembles of the highest quality CNN classifiers and SVM regression models leads to the best predictions of both high and low response sequences. With our ML approaches, we discovered five new DNA-SWNT sensors with higher fluorescence intensity response to serotonin than obtained previously. Overall, the explored ML approaches introduce an important new tool to predict useful DNA sequences, which can be used for discovery of new DNA-based sensors and nanobiotechnologies.

scholarly journals Phenylboronic acid derivative-modified (6,5) single-wall carbon nanotube probes for detecting glucose and hydrogen peroxide

RSC Advances ◽  
2019 ◽  
Vol 9 (4) ◽  
pp. 2258-2267 ◽  
Author(s):  
Yunfan Qiao ◽  
Rushi Zhao ◽  
Min Zhang ◽  
Hongyang Zhang ◽  
Yuerong Wang ◽  
...  
Keyword(s):  
Hydrogen Peroxide ◽  
Carbon Nanotube ◽  
Acid Derivative ◽  
Near Infrared ◽  
Phenylboronic Acid ◽  
New Method ◽  
Fluorescence Probes ◽  
Single Wall Carbon Nanotube ◽  
Near Infrared Fluorescence ◽  
Single Wall Carbon

In this paper, we presented a new method for constructing near-infrared fluorescence probes and their applications in detecting glucose and hydrogen peroxide (H2O2).

Near-infrared fluorescence spectroscopy of single-walled carbon nanotubes and its applications

2011 ◽  
Vol 30 (7) ◽  
pp. 1109-1119 ◽  
Author(s):  
Hongduan Huang ◽  
Mingjian Zou ◽  
Xiao Xu ◽  
Feng Liu ◽  
Na Li ◽  
...  
Keyword(s):  
Carbon Nanotubes ◽  
Fluorescence Spectroscopy ◽  
Near Infrared ◽  
Single Walled Carbon Nanotubes ◽  
Near Infrared Fluorescence ◽  
Single Walled Carbon ◽  
Walled Carbon Nanotubes

Biosensors Based on Single-Walled Carbon Nanotube Near-Infrared Fluorescence

2008 ◽  
Author(s):  
Paul W. Barone ◽  
Esther S. Jeng ◽  
Daniel A. Heller ◽  
Michael S. Strano
Keyword(s):  
Carbon Nanotube ◽  
Near Infrared ◽  
Single Walled Carbon Nanotube ◽  
Near Infrared Fluorescence ◽  
Single Walled Carbon

Near infrared fluorescence and enhanced electrical conductivity of single walled carbon nanotube-lead silicate glass composite

2014 ◽  
Vol 385 ◽  
pp. 129-135 ◽  
Author(s):  
Arnab Ghosh ◽  
Sujan Ghosh ◽  
Sukhen Das ◽  
Probal K. Das ◽  
Jonaki Mukherjee ◽  
...  
Keyword(s):  
Electrical Conductivity ◽  
Carbon Nanotube ◽  
Silicate Glass ◽  
Near Infrared ◽  
Lead Silicate ◽  
Glass Composite ◽  
Single Walled Carbon Nanotube ◽  
Lead Silicate Glass ◽  
Near Infrared Fluorescence ◽  
Single Walled Carbon

Very near Infrared Fluorescence Spectroscopy

NIR news ◽  
1993 ◽  
Vol 4 (3) ◽  
pp. 8-9
Author(s):  
James N. Miller
Keyword(s):  
Fluorescence Spectroscopy ◽  
Near Infrared ◽  
Near Infrared Fluorescence

scholarly journals The rational design of nitric oxide selectivity in single-walled carbon nanotube near-infrared fluorescence sensors for biological detection

2009 ◽  
Vol 1 (6) ◽  
pp. 473-481 ◽  
Author(s):  
Jong-Ho Kim ◽  
Daniel A. Heller ◽  
Hong Jin ◽  
Paul W. Barone ◽  
Changsik Song ◽  
...  
Keyword(s):  
Nitric Oxide ◽  
Carbon Nanotube ◽  
Rational Design ◽  
Near Infrared ◽  
Biological Detection ◽  
Fluorescence Sensors ◽  
Single Walled Carbon Nanotube ◽  
Near Infrared Fluorescence ◽  
Single Walled Carbon

Near-infrared Fluorescence Spectroscopy Detects Alzheimer's Disease In Vitro

1999 ◽  
Vol 70 (2) ◽  
pp. 236-242 ◽  
Author(s):  
Eugene B. Hanlon ◽  
Irving Itzkan ◽  
Ramachandra R. Dasari ◽  
Michael S. Feld ◽  
Robert J. Ferrante ◽  
...  
Keyword(s):  
Alzheimer’S Disease ◽  
Alzheimer's Disease ◽  
Fluorescence Spectroscopy ◽  
Near Infrared ◽  
Near Infrared Fluorescence
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