Publications

Publications by Year

  1. Pulliam L, Sun B, McCafferty E, Soper SA, Witek MA, Hu M, Ford JM, Song S, Kapogiannis D, Glesby MJ, Merenstein D, Tien PC, Freasier H, French A, McKay H, Diaz MM, Ofotokun I, Lake JE, Margolick JB, Kim EY, Levine SR, Fischl MA, Li W, Martinson J, Tang N. Microfluidic Isolation of Neuronal-Enriched Extracellular Vesicles Shows Distinct and Common Neurological Proteins in Long COVID, HIV Infection and Alzheimer's Disease. Int J Mol Sci. 2024 Mar 29;25(7):3830. doi: 10.3390/ijms25073830. PMID: 38612641; PMCID: PMC11011771.
  2. Rathnayaka C, Chandrosoma IA, Choi J, Childers K, Chibuike M, Akabirov K, Shiri F, Hall AR, Lee M, McKinney C, Verber M, Park S, Soper SA. Detection and identification of single ribonucleotide monophosphates using a dual in-plane nanopore sensor made in a thermoplastic via replication. Lab Chip. 2024 May 14;24(10):2721-2735. doi: 10.1039/d3lc01062g. PMID: 38656267; PMCID: PMC11091956.
  3. Childers K, Freed IM, Hupert ML, Shaw B, Larsen N, Herring P, Norton JH, Shiri F, Vun J, August KJ, Witek MA, Soper SA. Novel thermoplastic microvalves based on an elastomeric cyclic olefin copolymer. Lab Chip. 2024 Sep 10;24(18):4422-4439. doi: 10.1039/d4lc00501e. PMID: 39171671; PMCID: PMC11339931.
  4. Witek MA, Larkey NE, Bartakova A, Hupert ML, Mog S, Cronin JK, Vun J, August KJ, Soper SA. Microfluidic Affinity Selection of B-Lineage Cells from Peripheral Blood for Minimal Residual Disease Monitoring in Pediatric B-Type Acute Lymphoblastic Leukemia Patients. Int J Mol Sci. 2024 Oct 2;25(19):10619. doi: 10.3390/ijms251910619. PMID: 39408948; PMCID: PMC11477226.
  5. Rashid A, Wesson W, Abdallah AO, Snyder J, Venkatesh P, Mushtaq MU, Shune L, Witek MA, McGuirk JP, Soper SA, Cui W, Ahmed N. BCMA-Directed MRD Detection as a Predictor of Relapse after BCMA CAR T in Multiple Myeloma. Clin Lymphoma Myeloma Leuk. 2024 Oct 11:S2152-2650(24)02364-4. doi: 10.1016/j.clml.2024.10.003. Epub ahead of print. PMID: 39516088.
  1. Vaidyanathan S, Wijerathne H, Gamage SST, Shiri F, Zhao Z, Choi J, Park S, Witek MA, McKinney C, Verber M, Hall AR, Childers K, McNickle T, Mog S, Yeh E, Godwin AK, Soper SA. High Sensitivity Extended Nano-Coulter Counter for Detection of Viral Particles and Extracellular Vesicles. Anal Chem. 2023 Jul 4;95(26):9892-9900. 
  2. Shiri F, Choi J, Vietz C, Rathnayaka C, Manoharan A, Shivanka S, Li G, Yu C, Murphy MC, Soper SA, Park S. Nano-injection molding with resin mold inserts for prototyping of nanofluidic devices for single molecular detection. Lab Chip. 2023 Nov 7;23(22):4876-4887. 
  3. Shiri F, Choi J, Vietz C, Rathnayaka C, Manoharan A, Shivanka S, Li G, Yu C, Murphy MC, Soper SA, Park S. Nano-injection molding with resin mold inserts for prototyping of nanofluidic devices for single molecular detection. Lab Chip. 2023 Nov 7;23(22):4876-4887. 
  1. Rathnayaka C, Amarasekara CA, Akabirov K, Murphy MC, Park S, Witek MA, Soper SA. Nanofluidic devices for the separation of biomolecules. J Chromatogr A. 2022 Nov 8;1683:463539. 
  2. Zhao X, Ma C, Park DS, Soper SA, Murphy MC. Air bubble removal: Wettability contrast enabled microfluidic interconnects. Sens Actuators B Chem. 2022 Jun 15;361:131687. 
  3. Gamage SST, Pahattuge TN, Wijerathne H, Childers K, Vaidyanathan S, Athapattu US, Zhang L, Zhao Z, Hupert ML, Muller RM, Muller-Cohn J, Dickerson J, Dufek D, Geisbrecht BV, Pathak H, Pessetto Z, Gan GN, Choi J, Park S, Godwin AK, Witek MA, Soper SA. Microfluidic affinity selection of active SARS-CoV-2 virus particles. Sci Adv. 2022 Sep 30;8(39):eabn9665. 
  4. Vaidyanathan S, Gamage S, Dathathreya K, Kryk R, Manoharan A, Zhao Z, Zhang L, Choi J, Park D, Park S, Soper SA. Fluidic operation of a polymer-based nanosensor chip for analysing single molecules. Flow (Camb). 2022;2:E14. 
  5. Zhao Z, Vaidyanathan S, Bhanja P, Gamage S, Saha S, McKinney C, Choi J, Park S, Pahattuge T, Wijerathne H, Jackson JM, Huppert ML, Witek MA, Soper SA. In-plane Extended Nano-coulter Counter (XnCC) for the Label-free Electrical Detection of Biological Particles. Electroanalysis. 2022 Dec;34(12):1961-1975.

1. Campos CDM, Childers K, Gamage SST, Wijerathne H, Zhao Z, Soper SA. Analytical Technologies for Liquid Biopsy of Subcellular Materials. Annual review of analytical chemistry (Palo Alto, Calif.). 2021 July 27;14(1):207-229. 

2. Zhao X, Murphy MC. A High-adhesion Binding Strategy for Silica Nanoparticle-based Superhydrophobic Coatings. Colloids and surfaces. A, Physicochemical and engineering aspects. 2021 September 20;625.

3.Choi J, Jia Z, Riahipour R, McKinney CJ, Amarasekara CA, Weerakoon-Ratnayake KM, Soper SA, Park S. Label-Free Identification of Single Mononucleotides by Nanoscale Electrophoresis. Small (Weinheim an der Bergstrasse, Germany). 2021 October;17(42):e2102567. 

4. Zhao Z, Wijerathne H, Godwin AK, Soper SA. Isolation and analysis methods of extracellular vesicles (EVs). Extracell Vesicles Circ Nucl Acids. 2021;2:80-103. doi: 10.20517/evcna.2021.07. Epub 2020 Mar 30.

5. Vaidyanathan S, Weerakoon-Ratnayake KM, Uba FI, Hu B, Kaufman D, Choi J, Park S, Soper SA. Thermoplastic nanofluidic devices for identifying abasic sites in single DNA molecules. Lab Chip. 2021.

6. Amarasekara CA, Rathnayaka C, Athapattu US, Zhang L, Choi J, Park S, Nagel AC, Soper SA. Electrokinetic identification of ribonucleotide monophosphates (rNMPs) using thermoplastic nanochannels. J Chromatogr A. 2021 Feb 8;1638:461892. doi: 10.1016/j.chroma.2021.461892. Epub 2021 Jan 8. 

7. Athapattu US, Rathnayaka C, Vaidyanathan S, Gamage SST, Choi J, Riahipour R, Manoharan A, Hall AR, Park S, Soper SA. Tailoring Thermoplastic In-Plane Nanopore Size by Thermal Fusion Bonding for the Analysis of Single Molecules. ACS Sens. 2021 Aug 27;6(8):3133-3143.

8. Zhao X, Park DS, Choi J, Park S, Soper SA, Murphy MC. Flexible-templated imprinting for fluorine-free, omniphobic plastics with re-entrant structures. J Colloid Interface Sci. 2021 Mar;585:668-675. doi: 10.1016/j.jcis.2020.10.046. Epub 2020 Oct 20. PMID: 33127056; PMCID: PMC8483707.

Extracellular Vesicle (EV) Isolation References

  1. Microfluidic Enrichment of Extracellular Vesicles for Diagnosing Ischemic Stroke, H. N. K. Wijerathne, M. W. Witek, J. M. Jackson, A. E. Baird, and S. A. Soper, Nature Communications – Biology (2020, manuscript under review).
  2. Microfluidic Affinity Purification Chip for the Enrichment of Cancer-Associated Exosomes, V. Brown, J.M. Jackson, M.W. Witek, A. K. Godwin, and S.A. Soper, LOC (2020, manuscript under review).

Plastic Fabrication

  1. Open tubular nanoelectrochromatography (OT — NEC): gel — free separation of single stranded DNAs (ssDNAs) in thermoplastic nanochannels, C. A. Amarasekara, U. S. Athapattu, C. Rathnayaka, J. Choi, S. Park, and Steven A. Soper, Electrophoresis 41 (2020) doi.org/10.1002/elps.202000109.
  2. Micro-Coulter Counter for Enumerating Enriched Circulating Tumor Cells, K. Ratnayaka, M.J. Hu, K. Cong, and S. A. Soper, Analyst (2020).

1. Witek MA, Freed IM, Soper SA. Cell Separations and Sorting. Anal Chem. 2020 Jan 7;92(1):105-131. doi: 10.1021/acs.analchem.9b05357. Epub 2019 Dec 20. 

2. Prasad A, Choi J, Jia Z, Park S, Gartia MR. Nanohole array plasmonic biosensors: Emerging point-of-care applications. Biosens Bioelectron. 2019 Apr 1;130:185-203. doi: 10.1016/j.bios.2019.01.037. Epub 2019 Jan 24.

3. Choi J, Lee CC, Park S. Scalable fabrication of sub-10 nm polymer nanopores for DNA analysis. Microsyst Nanoeng. 2019 Apr 8;5:12. doi: 10.1038/s41378-019-0050-9. 

Rare Cell Isolation References

  1. Isolation of Circulating Plasma Cells from Blood of Patients Diagnosed with Clonal Plasma Cell Disorder using Cell Selection Microfluidics, S.A. Soper, J. Kamande, M. Lindell, M. Witek and P. Voorhees, Integr. Biol. 10 (2018) 82 – 91.

Cell Free DNA (cfDNA), genomic DNA and RNA Isolation References

  1. Microfluidic-based Solid Phase Extraction of Cell Free DNA, C. D.M. Campos, S. S. T. Gamage, J. M. Jackson, M. A. Witek, D. S. Park, M. C. Murphy,  A. K. Godwin, and S. A. Soper, Lab on a Chip 18 (2018) 3459-3470.

Rare Cell Isolation References

  1. Materials and Microfluidics: Enabling the Efficient Isolation and Analysis of Circulating Tumour Cells, J.M. Jackson, M. Witek, J. Kamande and S.A. Soper, Chem. Soc. Rev. 46 (2017) 4245-4280.
  2. Discrete Microfluidics for the Isolation of Circulating Tumor Cell Subpopulations Targeting Fibroblast Activation Protein Alpha and Epithelial Cell Adhesion Molecule, M.A. Witek, R.D. Aufforth, H. Wang, J. Kamande, J.M. Jackson, S. Pullagurla, M. Hupert, J. Usary, W. Wysham, D. Hilliard, S. Montgomery, V. Bae-Jump, L. Carey, P. Gehrig, M. Milowsky, C. Perou, J. Soper, Y. Whang. J.J. Yeh, G. Martin and S.A. Soper, npj Precision Oncology 1 (2017) 24.

Plastic Fabrication

  1. Thermoplastic Nanofluidic Devices for Biomedical Applications, K. Weerakoon-Ratnayake, C.E. O’Neil, F.I. Uba and S.A. Soper, Lab on a Chip, 17 (2017) 362-381.
  2. Materials and Microfluidics: Enabling the Efficient Isolation and Analysis of Circulating Tumour Cells, J.M. Jackson, M. Witek, J. Kamande and S.A. Soper, Chem. Soc. Rev. 46 (2017) 4245-4280.

Rare Cell Isolation References

  1. Detection of Minimum Residual Disease in Acute Myeloid Leukemia using Integrated Microfluidic Systems, J.M. Jackson, J. Taylor, S.A. Hunsucker, P.A. Armistead and S.A. Soper, Analyst 141 (2016) 640-651.
  2. Improved Clinical Sensitivity Detection of Circulating Tumor Cell Assays using a Dual Selection Strategy in Women with Epithelial Ovarian Cancer, W. Wysham, M. Witek, S.A. Soper, P. Gehrigh, J. Stine and V. Bae-Jump, Gynecologic Oncology, 141 (2016) 138-139.

Plastic Fabrication

  1. Characterizing Surface Functional Group Density for O2 Plasma and UV/O3 Activated Thermoplastics using Superresolution Microscopy, C.E. O’Neil, J.M. Jackson, S.H. Shim and S.A. Soper, Analytical Chemistry 88 (2016) 3686-3696.
  2. Characterization of Activated Cyclic Olefin Copolymer: Effects of Ethylene/Norbornene Content on the Physiochemical Properties. C.E. O’Neil, S. Taylor, K. Ratnayake, S. Pullagurla, V. Singh and S.A. Soper, Analyst 141 (2016) 6521-6532.

Rare Cell Isolation References

  1. Capture and Enzymatic Release of Circulating Tumor Cells, Soumya Nair, Joshua Jackson, Maggie Witek, V. Bae-Jump, P.A. Gehrig, W.Z. Wysham, P.M. Armistead, P. Voorhees and S.A. Soper, Chemical Communications 51 (2015) 3266-3269.
  2. Rapid Assessment of Minimal Residual Acute Myeloid Leukemia from Peripheral Blood Using a Microfluidic Chip, Jackson, JM , Taylor, J , Witek, M , Hunsucker, SA, Waugh, JP , Fedorw, YD , Shea, TC , Soper, SA , Armistead, PM, Blood 126 (2015) 1389.

Plastic Fabrication

  1. Investigation of surface charge and electroosmostic flow in polymer nanoslits and nanochannels, F.I. Uba, S.R. Pullagurla, N. Sirasunthorn, J. Wu, S. Park, R. Chantiwas, Y. Cho, H. Shin and S.A. Soper, Analyst 140 (2015) 113-126.
  2. Capture and Enzymatic Release of Circulating Tumor Cells, Soumya Nair, Joshua Jackson, Maggie Witek, V. Bae-Jump, P.A. Gehrig, W.Z. Wysham, P.M. Armistead, P. Voorhees and S.A. Soper, Chemical Communications 51 (2015) 3266-3269.