Publications

Designer peptide-DNA cytoskeletons regulate the function of synthetic cells

Margaret L. Daly, Kengo Nishi, Stephen J. Klawa, Kameryn Y. Hinton, Yuan Gao & Ronit Freeman

Nature Communications

Uncovering supramolecular chirality codes for the design of tunable biomaterials

Stephen J. Klawa, Michelle Lee, Kyle D. Riker, Tengyue Jian, Qunzhao Wang, Yuan Gao, Margaret L. Daly, Shreeya Bhonge, W. Seth Childers, Toluope O. Omosun, Anil K. Mehta, David G. Lynn, Ronit Freeman

Nature Communications

From the lab to the field: Handheld surface enhanced Raman spectroscopy (SERS) detection of viral proteins

Taylor D Payne, Stephen J. Klawa, Tengyue Jian, Qunzhao Wang, Sang Hoon Kim, Ronit Freeman, and Zachary D. Schultz

Sensors and Diagnostics

Modeling Identifies Variability in SARS Co-V-2 Uptake and Eclipse Phase By Intected Cells As Principal Drivers of Extreme Variability in Nasal Viral Load in the 48 Hours Post Infection

Pearson J, Wessler T, Chen A, Boucher RC, Freeman R, Lai SK, Pickles R, and Forest MG. J. Theor. Biol

Science Direct

SARS CoV-2 Evolved Variants Optimize Binding to Cellular Glycocalyx

S Kim, F L Kearns, M A Rosenfeld, L Votapka, L Casalino, M Papanikolas, R E Amaro, R Freeman

Cell Reports Physical Science

Bioactive Fibronectin-III10 DNA Origami Nanofibers Promote Cell Adhesion and Spreading

A Buchberger, K Riker, J Bernal-Chanchavac, RP Narayanan, CR Siammons, NE Fahmi, R Freeman, and N Stephanopoulos

ACS Appl. Bio Mater

Self-Assembling Biomaterials From Proteins, Peptides, and DNA

N Stephanopoulos, R Freeman, and H Yan

ACS Appl. Bio Mater

Mucus and Mucus Flake Composition and Abundance Reflect Inflammtory and Infection Status in Cystic Fibrosis

M R Markovetz, IC Garbarine, CB Morrison, WJ Kissner, I Seim, M. G Forest, M J. Papanikolas, R Freeman, A Ghio, N E Alexis, SM Stick, C Ehre, RC Bouncher, CR Esther, MS Muhlebach, DB Hill

Journal of cystic Fibrosis, 2022

Bioinspired Spindles Using Peptide-DNA Nanotechnology

M L Daly, K Nishi, SJ Klawa, KY Hinton, Y Gao, R Freeman

PREPRINT Research Square, 2022

Modeling Insights into SARS CoV-2 Respiratory Tract Infections Prior to Immune Protections

A Chen, T Wessler, K Daftari, K Hinton, RC Boucher, R Pickles, R Freeman, SK Lai, MG Forest

Biophysical Journal, 2022

Mucus Concentration-Dependent Biophysical Abnormalities Unify Submucosal Gland and Superficial Airway Dysfunction in Cystic Fibrosis

T Kato, G Radicioni, MJ Papanikolas, GV Stoychev, MR Markovetz, K Aoki, M Porterfield, K Okuda, SM B Cardenas, RC Gilmore, CB Morrison, C Ehre, KA Burns, KK White, TA Brennan, HP Goodell, H Thacker, HT Loznev, LJ Forsberg, T Nagase, M Rubinstein, SH Randell, M Tiemeyer, DB Hill, M Kesimer, WK O’Neal, ST Ballard, R Freeman, B Button, RC Bouche

Science Advances, 2022

GlycoGrip: Cell Surface-Inspired Universal Sensor for Betacoronaviruses

SH Kim, FL Kearns, MA Rosenfeld, L Casalino, MJ Papanikolas, C Simmerling, RE Amaro, and R Freeman

ACS Cent. Sci., 2022

Molecular Dynamics Simulations to Explore the Structure and Rheological Properties of Normal and Hyperconcentrated Airway Mucus

Andrew G. Ford, Xue-Zheng Cao, Micah J. Papanikolas, Takafumi Kato,Richard C. Boucher, Matthew R. Markovetz, David B. Hill, Ronit Freeman, Mark Gregory Forest

Studies in Applied Mathematics, 2021

Catching COVID: Engineering Peptide-Modified Surface-Enhanced Raman Spectroscopy Sensors for SARS-CoV-2

TD Payne, SJ Klawa, T Jian, SH Kim, MJ Papanikolas, R Freeman, ZD Schultz

ACS Sens, 2021

Hydrogen Bonding Stiffens Peptide Ampiphile Supramolecular Filaments by Aza-Glycine Residues

JM Godbe, R Freeman, JA Lewis, IR Sasselli, MH Sangji, SI Stupp

Acta Biomaterialia, 2021

Molecular Dynamics Simulations to Explore the Structure and Rheological Properties of Normal and Hyperconcentrated Airway Mucus

AG Ford, XZ Cao, MJ Papanikolas, T Kato, RC Boucher, MR Markovetz, DB Hill, R Freeman, MG Forest

Stud Appl Math, 2021

A Programmable Toolkit to Dynamically Signal Cells Using Peptide Strand Displacement

K Riker, ML Daly, M Papanikolas, T Jian, SJ Klawa, JS Sahin, D Liu, A Singh, AG Miller,  R Freeman

bioRxiv, 2021

New Functions Emerging From Peptide-DNA Materials

ML Daly, SJ Klawa, R Freeman

Peptide-Based Biomaterials, 2020

Multivalent Clustering of Adhesion Ligands in Nanofiber-Nanoparticle Composites

D Dems, R Freeman, KD Riker, T Coradin, SI Stupp*, C Aimé

Acta Biomaterialia, 2020

Transforming Growth Factor β-1 Binding by Peptide Amphiphile Hydrogels

JA Lewis, R Freeman, JK Carrow, TD Clemons, LC Palmer, SI Stupp*

ACS Biomater, 2020

Supramolecular Exchange among Assemblies of Opposite Charge Leads to Hierarchical Structures

JR Wester, JA Lewis, R Freeman, H Sai, LC Palmer, SE Henrich, SI Stupp*

J. Am. Chem. Soc., 2020

Gelator Length Precisely Tunes Supramolecular Hydrogel Stiffness and Neuronal Phenotype in 3D Culture

JM Godbe, R Freeman, LF Burbulla, J Lewis, D Krainc, SI Stupp

ACS Biomater. Sci. Eng, 2020

Hierarchical Assembly of DNA Origami Nanostructures Using Coiled-coil Peptides

A Buchberger, C Simmons, N Fahmi,R Freeman, N Stephanopoulos

J. Am. Chem. Soc., 2019

DNA-Peptide Amphiphile Nanofibers Enhance Aptamer Function

C Serrano, R Freeman, J Godbe, J Lewis, S Stupp

ACS Applied Bio Materials, 2019

Encoding Reversible Hierarchical Structures with Supramolecular Peptide–DNA Materials

M Daly, Y Gao, R Freeman

Bioconjugate Chemistry, 2019

DNA-based materials as self-assembling scaffolds for interfacing with cells

Nicholas Stephanopoulos, Ronit Freeman

Science Direct, 2018

Reversible self-assembly of superstructured networks

R Freeman, M Han, Z Álvarez, JA Lewis, JR Wester, N Stephanopoulos, …

Science, 2018

Instructing cells with programmable peptide DNA hybrids

R Freeman, N Stephanopoulos, Z Alvarez, JA Lewis, S Sur, CM Serrano, …

Nature Communications, 2017

Biopolymers and supramolecular polymers as biomaterials for biomedical applications

R Freeman, J Boekhoven, MB Dickerson, RR Naik, SI Stupp

MRS Bulletin, 2015

Bioactive DNA-peptide nanotubes enhance the differentiation of neural stem cells into neurons

N Stephanopoulos, R Freeman, HA North, S Sur, SJ Jeong, F Tantakitti, …

Nano Letters, 2014

Hemin/G-quadruplex-catalyzed aerobic oxidation of thiols to disulfides: application of the process for the development of sensors and aptasensors and for probing acetylcholine …

E Golub, R Freeman, I Willner

Analytical Chemistry, 2013

Label‐Free Analysis of Thrombin or Hg²⁺ Ions by Nucleic Acid‐Functionalized Graphene Oxide Matrices Assembled on Field‐Effect Transistors

E Sharon, X Liu, R Freeman, O Yehezkeli, I Willner

Electroanalysis, 2013

Nucleic acid/quantum dots (QDs) hybrid systems for optical and photoelectrochemical sensing

R Freeman, J Girsh, I Willner

ACS Applied Materials & Interfaces, 2013

Biomolecule/Nanoparticle Hybrid Systems for Bioanalysis and Nanomedicine

Ronit Freeman, Bilha Willner, Itamar Willner

ACS Publications, 2012

Optical Aptasensors for the Analysis of the Vascular Endothelial Growth Factor (VEGF)

Ronit Freeman, Julia Girsh, Amily Fang-Jou, Ja-an Annie Ho, Thoman Hug, Jens Dernedde, Itamar Willner

ACS Publications, 2012

Sensing and Biosensing with Semiconductor Quantum Dots

Ronit Freeman, Julia Girsh,Bilha Willner, Itamar Willner

IJC, 2012

Functionalized CdSe/ZnS QDs for the detection of nitroaromatic or RDX explosives

R Freeman, T Finder, L Bahshi, R Gill, I Willner

Advanced Materials, 2012

Optical aptasensors for the analysis of the vascular endothelial growth factor (VEGF)

R Freeman, J Girsh, A Fang-ju Jou, JA Ho, T Hug, J Dernedde, I Willner

Analytical Chemistry, 2012

Photoelectrochemical biosensors without external irradiation: Probing enzyme activities and DNA sensing using hemin/G-quadruplex-stimulated chemiluminescence resonance energy …

E Golub, A Niazov, R Freeman, M Zatsepin, I Willner

Journal of Physical Chemistry, 2012

Fluorescence detection of DNA, adenosine-5′-triphosphate (ATP), and telomerase activity by zinc (II)-protoporphyrin IX/G-quadruplex labels

Z Zhang, E Sharon, R Freeman, X Liu, I Willner

Analytical Chemistry, 2012

Multiplexed aptasensors and amplified DNA sensors using functionalized graphene oxide: application for logic gate operations

X Liu, R Aizen, R Freeman, O Yehezkeli, I Willner

ACS Nano, 2012

Amplified Fluorescence Aptamer‐Based Sensors Using Exonuclease III for the Regeneration of the Analyte

X Liu, R Freeman, I WillnerChemistry–A

European Journal, 2012

Optical molecular sensing with semiconductor quantum dots (QDs)

R Freeman, I Willner

Chemical Society Reviews, 2012

A Hemin/G‐Quadruplex Acts as an NADH Oxidase and NADH Peroxidase Mimicking DNAzyme

E Golub, R Freeman, I Willner

Angewandte Chemie, 2011

Following glucose oxidase activity by chemiluminescence and chemiluminescence resonance energy transfer (CRET) processes involving enzyme-DNAzyme conjugates

A Niazov, R Freeman, J Girsh, I Willner

Sensors, 2011

Integrated biomolecule–quantum dot hybrid systems for bioanalytical applications

R Freeman, B Willner, I Willner

The Journal of Physical Chemistry Letters, 2011

Amplified multiplexed analysis of DNA by the exonuclease III-catalyzed regeneration of the target DNA in the presence of functionalized semiconductor quantum dots

R Freeman, X Liu, I Willner

Nano Letters, 2011

Chemiluminescence and chemiluminescence resonance energy transfer (CRET) aptamer sensors using catalytic hemin/G-quadruplexes

X Liu, R Freeman, E Golub, I Willner

Acs Nano, 2011

Electron-transfer quenching of nucleic acid-functionalized CdSe/ZnS quantum dots by doxorubicin: A versatile system for the optical detection of DNA, aptamer–substrate …

S Raichlin, E Sharon, R Freeman, Y Tzfati, I Willner

Biosensors and Bioelectronics, 2011

Electrochemically triggered Au nanoparticles “sponges” for the controlled uptake and release of a photoisomerizable dithienylethene guest substrate

J Zhang, M Riskin, R Freeman, R Tel-Vered, D Balogh, H Tian, I Willner

ACS nano, 2011

Chemiluminescent and chemiluminescence resonance energy transfer (CRET) detection of DNA, metal ions, and aptamer–substrate complexes using hemin/G-quadruplexes and CdSe/ZnS …

R Freeman, X Liu, I Willner

Journal of the American Chemical Society, 2011

Photochemically and electrochemically triggered Au nanoparticles “sponges”

D Balogh, R Tel-Vered, R Freeman, I Willner

Journal of the American Chemical Society, 2011

Hemin/G-quadruplexes as DNAzymes for the fluorescent detection of DNA, aptamer–thrombin complexes, and probing the activity of glucose oxidase

E Golub, R Freeman, A Niazov, I Willner

Analyst, 2011

Semiconductor Quantum Dots for Analytical and Bioanalytical Applications

Ronit Freeman, Jian-Ping Xu, Itamar Willner

Nanoparticles, 2nd, 2010

Cover Picture: DNAzyme‐Like Activity of Hemin–Telomeric G‐Quadruplexes for the Optical Analysis of Telomerase and its Inhibitors (ChemBioChem 17/2010)

R Freeman, E Sharon, C Teller, A Henning, Y Tzfati, I Willner

ChemBioChem, 2010

DNAzyme‐Like Activity of Hemin–Telomeric G‐Quadruplexes for the Optical Analysis of Telomerase and its Inhibitors

R Freeman, E Sharon, C Teller, A Henning, Y Tzfati, I Willner

ChemBioChem, 2010

Optical, electrical and surface plasmon resonance methods for detecting telomerase activity

E Sharon, R Freeman, M Riskin, N Gil, Y Tzfati, I Willner

Analytical Chemistry, 2010

CdSe/ZnS quantum dots-G-quadruplex/hemin hybrids as optical DNA sensors and aptasensors

E Sharon, R Freeman, I Willner

Analytical Chemistry, 2010

Probing protein kinase (CK2) and alkaline phosphatase with CdSe/ZnS quantum dots

R Freeman, T Finder, R Gill, I Willner

Nano Letters, 2010

Control of biocatalytic transformations by programmed DNA assemblies

R Freeman, E Sharon, C Teller, I Willner

Chemistry-A European Journal, 2010

Electrochemical, photoelectrochemical, and surface plasmon resonance detection of cocaine using supramolecular aptamer complexes and metallic or semiconductor nanoparticles

E Golub, G Pelossof, R Freeman, H Zhang, I Willner

Analytical Chemistry, 2009

Multiplexed Analysis of Hg²⁺ and Ag⁺ Ions by Nucleic Acid Functionalized CdSe/ZnS Quantum Dots and Their Use for Logic Gate Operations

R Freeman, T Finder, I Willner

Angewandte Chemie, 2009

Detection of Explosives Using Field‐Effect Transistors

E Sharon, R Freeman, I Willner

Electroanalysis: An International Journal, 2009

Impedimetric or Ion‐Sensitive Field‐Effect Transistor (ISFET) Aptasensors Based on the Self‐Assembly of Au Nanoparticle‐Functionalized Supramolecular Aptamer Nanostructures

E Sharon, R Freeman, R Tel‐Vered, I Willner

Electroanalysis: An International Journal, 2009

β-cyclodextrin-modified CdSe/ZnS quantum dots for sensing and chiroselective analysis

R Freeman, T Finder, LL Bahshi, I Willner

Nano Letters, 2009

Enzyme cascades activated on topologically programmed DNA scaffolds

OI Wilner, Y Weizmann, R Gill, O Lioubashevski, R Freeman, I Willner

Nature nanotechnology, 2009

Supramolecular cocaine− aptamer complexes activate biocatalytic cascades

R Freeman, E Sharon, R Tel-Vered, I Willner

Journal of the American Chemical Society, 2009

Optical detection of glucose by means of metal nanoparticles or semiconductor quantum dots

L Bahshi, R Freeman, R Gill, I Willner

Small, 2009

Biosensing and probing of intracellular metabolic pathways by NADH‐sensitive quantum dots

R Freeman, R Gill, I Shweky, M Kotler, U Banin, I Willner

Angewandte Chemie International Edition, 2009

Switchable motion of DNA on solid supports

J Elbaz, R Tel‐Vered, R Freeman, HB Yildiz, I Willner

Angewandte Chemie, 2009

Competitive analysis of saccharides or dopamine by boronic acid-functionalized CdSe–ZnS quantum dots

R Freeman, L Bahshi, T Finder, R Gill, I Willner

Chemical Communications, 2009

Self-assembly of supramolecular aptamer structures for optical or electrochemical sensing

R Freeman, Y Li, R Tel-Vered, E Sharon, J Elbaz, I Willner

Analyst, 2009

NAD+/NADH-sensitive quantum dots: applications to probe NAD+-dependent enzymes and to sense the RDX explosive

R Freeman, I Willner

Nano letters, 2008

Electrochemical, photoelectrochemical, and piezoelectric analysis of tyrosinase activity by functionalized nanoparticles

HB Yildiz, R Freeman, R Gill, I Willner

Analytical Chemistry, 2008

Optical Detection of Glucose and Acetylcholine Esterase Inhibitors by H₂O₂‐Sensitive CdSe/ZnS Quantum Dots

R Gill, L Bahshi, R Freeman, I Willner

Angewandte Chemie, 2008

Analysis of Dopamine and Tyrosinase Activity on Ion‐Sensitive Field‐Effect Transistor (ISFET) Devices

R Freeman, J Elbaz, R Gill, M Zayats, I Willner

Chemistry-A European Journal, 2007

Following a protein kinase activity using a field-effect transistor device

R Freeman, R Gill, I Willner

Chemical Communications, 2007

Self-assembly of semiconductor quantum-dots on electrodes for photoelectrochemical biosensing

R Freeman, R Gill, M Beissenhirtz, I Willner

Photochemical & Photobiological Sciences, 2007

Probing Biocatalytic Transformations with CdSe− ZnS QDs

R Gill, R Freeman, JP Xu, I Willner, S Winograd, I Shweky, U Banin

Journal of the American Chemical Society, 2006

Probing of enzyme reactions by the biocatalyst-induced association or dissociation of redox labels linked to monolayer-functionalized electrodes

D Li, R Gill, R Freeman, I Willner

Chemical Communications, 2006