Publications


Please be aware of the copy right policies and these articles should not be disseminated without permission from the publishers. 

 

Wang NY, Cheng JJ, Fan R*, and Lu J*, Capture, Amplification, and Global Profiling of microRNAs from Low Quantities of Whole Cell Lysate, Analyst, in press, doi: 10.1039/C7AN00670E  (2017).

Phillip JM, Wu PH, Gilkes DM, Williams W, McGovern S, Daya J, Lee J. S.H., Chen JJ, Fan R, Walston J, Wirtz D, Biophysical and biomolecular determination of cellular age in humans, Nature Biomedical Engineering, in press, doi:10.1038/s41551-017-0093 (2017).

Gil Del Alcazar, CR, Huh SJ, Ekram MB, Trinh A, Liu LL, Beca F, Zi XY, Kwak M, Bergholtz H, Su Y, Ding L, Russnes HG, Richardson AL, Babski K, EMH Kim, McDonnell C, Wagner J, Rowberry R, Freeman GJ, Dillon D, Sorlie T, Coussens LM, Garber JE, Fan R, Bobolis K, Allred DC, Jeong J, Park SY, Michor F and Polyak K, Immune Escape in Breast Cancer During In Situ to Invasive Carcinoma Transition, Cancer Discovery, in press DOI: 10.1158/2159-8290.CD-17-0222 (2017).

Jayatilaka H, Tyle P, Chen JJ, Kwak M, Ju JA, Kim HJ, Lee J.S.H., Wu PH, Gilkes DM, Fan R*, and Wirtz D*, Synergistic IL-6 and IL-8 paracrine signalling pathway infers new strategy to inhibit tumor cell migration, Nature Communications, 8:15584, (2017).

Han L, Wu HJ, Zhu HY, Kim KY, Riester M, Marjani SL, Euskirchen G, Zi XY, Snyder M, Park IH, Weissman SM, Michor F*, Fan R* and Pan XH*, Bisulfite-independent analysis of CpG island methylation enables genome-scale stratification of single cells, Nucleic Acid Research, 45(10):e7, (2017).

Mao L, Shen L, Chen JH, Zhang XB, Kwak M, Wu Y, Fan R, Zhang L, Pei J, Yuan GY, Song CL, Ge JB & Ding WJ, A promising biodegradable magnesium alloy suitable for clinical vascular stent application, Scientific Reports, 7, 46343 (2017).

Liu J, Guo B, Chen Z, Wang N, Iacovino M, Cheng J, Roden C, Pan W, Chen S, Kyba M, Fan R, Guo S, and Lu J, MicroRNA-125b promotes MLL-AF9-driven murine acute myeloid leukemia involving a VEGFA-mediated non-cell-intrinsic mechanism, Blood, 129(11):1491-1502, (2017).

Chen JJ, Kwak M, and Fan R*. Single cell cytokine profiling to investigate cellular functional diversity in hematopoietic malignancies. Book Chapter: Chromic Myeloid Leukemia, Springer (2016).

Brower K and Fan R*, Cellular Immunophenotyping: Industrial Technologies and Emerging Tools. Book Chapter: Micro- and Nanosystems for Biotechnology. Wiley (2016).

Ching T, Peplowska K, Huang S, Zhu X , Shen Y, Molnar J, Yu H, Tiirikainen M, Fogelgren B, Fan R, and Garmire LX, Pan-cancer analyses reveal long intergenic non-coding RNAs relevant to tumour diagnosis, subtyping and prognosis, EBioMedicine, 7, 7-8 (2016).

Miller-Jensen K* and Fan R*, High-Throughput Secretomic Analysis of Single Cells to Assess Functional Cellular Heterogeneity, Experimental Approaches for the Investigation of Innate Immunity: The Human Innate Immunity Handbook. World Scientific (2016).

Kwak M#, Han L#, Jonathan Chen, and Fan R*, Interfacing Inorganic Nanowire Arrays and Living Cells for Cellular Function Analysis, Small, 11(42), 5600-5 (2015).

2015 Minsuk


Xue Q #, Lu Y #, Eisele MR, Sulistijo E, Fan R *, and Miller-Jensen K *, Analysis of single-cell secretion reveals a role for paracrine signaling in coordinating macrophage response to TLR4 stimulation, Science Signaling, 8(381):ra59 (2015).

Gagliani N, Iseppon A, Vesely CA, Brockmann L, Palm NW, de Zoete MR, Licona-Limon P, Paiva P, Ching T, Weaver C, Zi X, Fan R, Garmire LX, Geginat J, Stockinger B, Esplugues E, Huber S, and Flavell RA, Th17 cells transdifferentiate into regulatory cells during the resolution of inflammatory response, Nature, 523, 221–225 (2015).

Han L#, Zhou J#, Sun YB, Zhang Y, Han J, Fu JP, and Fan R*, Single-crystalline, Nanoporous Gallium Nitride Films with Fine Tuning of Pore Size for Stem Cell Engineering, ASME J. Nanotech. Eng. Med., 5(4), 0410041-410049​ (2014). 

Mao L, Shen L, Chen JH, Wu Y, Kwak M, Lu Y, Xue Q, Pei J, Zhang L, Yuan G*, Fan R*, Ge JB, and Ding WJ, Enhanced Bioactivity of Mg–Nd–Zn–Zr Alloy Achieved with Nanoscale MgF2 Surface for Vascular Stent Application, ACS Appl. Mater. Interfaces, 7 (9), 5320–5330 (2015)..

 

Kleppe M#, Kwak M#, Koppikar P, Riester M, Keller M, Bastian L, Hricik T, Bhagwat N, Abdel-Wahab OI, Marubayashi S, Chen JJ, Romanet V, Fridman JS, Bromberg J, Murakami M, Radimerski T, Michor F, Fan R*, and Levine RL*. JAK-STAT Pathway Activation in Malignant and Non-Malignant Cells Contributes to MPN Pathogenesis and Therapeutic Response, Cancer Discovery, 5(3), 316–31 (2015).

Commentary:
Aberrant Cytokine Production by Nonmalignant Cells in the Pathogenesis of Myeloproliferative Tumors and Response to JAK Inhibitor Therapies. Cancer Discovery, 2015 5:234-236.

Lu Y #, Xue Q #, Eisele MR, Sulistijo E, Brower K, Han L, Amir ED, Pe’er D, Miller-Jensen K *, and Fan R *,  Highly multiplexed profiling of single-cell effector functions reveals deep functional heterogeneity in response to pathogenic ligands, Proc. Natl. Acad. Sci. U.S.A.,112(7), 607-615 (2015).

Notable Coverage:
◦ Proteomics news: Single-Cell, 42-plexed Protein Analysis Achieved with a New Microchip Technology
Yale SEAS news: New Microchip Technology Achieves 42-plexed Single-Cell Protein Analysis


Han L, Zi XY, Garmire LX, Wu Y, Pan XH, Weissman SM, and Fan R, Co-detection and sequencing of genes and transcripts from the same single cells facilitated by a microfluidics platform, Scientific Reports, 4, 6485 (2014).


Elitas M, Brower K, Lu Y, Chen JJ, and Fan R, A microchip platform for interrogating tumor- macrophage paracrine signaling at the single-cell level, Lab Chip, 14, 3582 (2014).


Kwak M, Kim DJ, Han L, Lee MR, Wu Y, Lee SK, and Fan R. Nanowire array chips for molecular typing of rare trafficking leukocytes with application to neurodegenerative pathology, Nanoscale, 6(12), 6537-50 (2014). (cover highlight)

Notable coverage:
RSC Chemistry World: "Rare Cell Analysis Pursues Neurodegenerative Answers". March 28, 2014.



Guo S, Zi XY, Schultz V, Cheng LJ, Zhong M, Koochaki S, Megyola CM, Pan XH, Heydari K, Weissman SM, Gallagher PG, Krause DS, Fan R, and Lu J, Non-stochastic reprogramming from a privileged somatic cell state, Cell, 156, 1-14  (2014).  

 

Lee SK, Kim DJ, Lee GH, Kim GS, Kwak M, and Fan R, Specific rare cell capture using micro-patterned silicon nanowire platform, Biosensor and Bioelectronics, 54c, 181-188 (2014). 


Kim DJ, Kim GS, Seol JK, Hyung JH, Park NW, Lee MR, Lee MK, Fan R, and Lee SK, Filopodial Morphology Correlates to the Capture Efficiency of Primary T-Cells on Nanohole Arrays, Journal of Biomedical Nanotechnology, 10, 1030-1040 (2014). 

Mao L, Shen L, Niu J, Zhang J, Fan R*, and Yuan GY*. Nanophasic biodegradation enhances the durability and biocompatibility of magnesium alloys for the next-generation vascular stents. Nanoscale, 5, 9517-9522 (2013).

Notable coverage:
◦ RSC Chemistry World: "Next-generation vascular stents". August 23, 2013.

 


Wei W, Shin YS, Ma C, Wang J, Elitas M, Fan R, and Heath JR, Microchip platforms for multiplex single-cell functional proteomics with applications to immunology and cancer research, Genome Medicine, 5, 75 (2013)

Jonas S, Zhou E, Deniz E, Huang B, Chandrasekera K, Bhattacharya D, Wu Y, Fan R, Deserno TM, Khokha MK, and Choma MA, A novel approach to quantifying ciliary physiology: microfluidic mixing driven by a ciliated biological surface, Lab Chip, 13, 4160-4163 (2013)

Shomorony A and Fan R*, Immuno-DNA-directed Assembly of Multicellular Systems, Chemistry Letters, 42  (5), 512-514 (2013)




Lu Y, Chen JJ, Mu L, Xue Q, Wu Y, Wu PH, Li J, Vortmeyer AO, Miller-Jensen K, Wirtz D, and Fan R*, High-throughput Secretomic Analysis of Single Cells to Assess Functional Cellular Heterogeneity, Analytical Chemistry , 85 (4), 2548–2556, (2013). 

Notable coverage:
◦ National Cancer Institute (NCI). Research News: "New Single-Cell Measurement Techniques Reveal Significant Functional Heterogeneity". February, 2013.



Chen W, Huang NT, Oh B, Lam RHW, Fan R,  Cornell TT, Shanley TP, Kurabayashi K, and Fu JP, Surface-micromachined microfiltration membranes for efficient isolation and functional immunophenotyping of subpopulations of immune cells, Advanced Healthcare Materials, 2: 921, 2013. 

Ma C*, Fan R* and Elitas M, Single cell functional proteomics for assessing immune response in cancer therapy: technology, methods, and applications, (review article) Frontiers in Oncology, 3:133 (2013)

Kwak M,  Mu L, Lu Y, Chen JJ, Brower K, and Fan R*, Single-cell Protein Secretomic Signatures as Potential Correlates to Tumor Cell Lineage Evolution and Cell-cell Interaction. Frontiers in Oncology, 3:10 (2013).

Wu Y, Garmire LX and Fan R*, Intercellular Signaling Network Reveals a Mechanistic Transition in Tumor Microenvironment, Integrative Biology, 4, 1478-1486, (2012)



Zhou J , Wu Y, Lee SK and Fan R*, High-content single cell analysis on chip using a laser microarray scanner, Lab Chip, 12, 5025-5033 (2012)


Lee SK, Kim GS, Wu Y, Kim DJ, Lu Y, Kwak M, Han L, Hyung JH, Seol JK, Sander C, Gonzalez A, Li J & Fan R*, Nanowire Substrate-based Laser Scanning Cytometry for Quantitation of Circulating Tumor Cells, Nano Letters, 12(6), 2697-2704 (2012) 

Notable coverage:
◦ Yale SEAS New: "Gone Fishing: New System Captures Rare Cancer Cells from Blood Samples" June 2012.


Chen WQ, Villa-Diaz LG, Weng SN, Kim JK, Lam R, Han L, Fan R, Krebsbach PH, and Fu JP, Nanotopography influences adhesion, spreading, and self-renewal of human embryonic stem cells, ACS Nano, 6, 4094-4103 (2012). 

Kim DJ, Seol JK, Wu Y, Ji S, Kim GS, Hyung JH, Lee SY, Im H, Fan R* and Lee SK, Quartz nanopillar hemocytometer for high-yield separation and counting of CD4+ T lymphocytes, Nanoscale, 4, 2500-2507 (2012).  (cover highlight) 

Shi QH, Qin LD, Fan R, Wei W, Guo DL, Shin YS, Hood L, Mischel P, and Heath JR, Single cell proteomic chip for profiling intracellular signaling pathways in single tumor cells, Proc. Natl. Acad. Sci. U.S.A.,109(2), 419-424 (2012). 

Wu Y, Lu Y, Chen WQ, Fu JP, and Fan R*. In silico experimentation of glioma microenvironment development and anti-tumor therapy. PLoS Computational Biology, 8(2), 1002355 (2012). 

Guan WH, Fan R, Reed MA, Field effect reconfigurable nanofluidic diodes, Nature Communication, 2, 506 (2011). 


Ma C#, Fan R #, Ahmad H, Shi Q, Comin-Anduix B, Chodon T, Koya RC, Liu CC, Kwong GA, Radu CG, Ribas A and Heath JR. A clinical microchip for evaluation of single immune cells reveals high functional heterogeneity in phenotypically similar T cells, Nature Medicine, 17, 738-743 (2011). (# equal contribution)

 

Shin YS, Remacle F, Fan R, et al. Protein signaling networks from single cell fluctuations and information theory profiling, Biophysical Journal, 100, 2378-2386 (2011).

 
Before 2010

1.Fan, R., Vermesh, O., et al. Integrated barcode chips for rapid, multiplexed analysis of proteins in microliter quantities of blood. Nature Biotechnology 26, 1373-1378 (2008). (Cover Highlight)

2.Vermesh, U., et al. Fast Nonlinear Ion Transport via Field-induced Hydrodynamic Slip in Sub-20-nm Hydrophilic Nanofluidic Transistors. Nano Letters 9, 1315-1319 (2009).

3.Fan, R., Huh, S., Yan, R., Arnold, J. & Yang, P.D. Gated proton transport in aligned mesoporous silica films. Nature Materials 7, 303-307 (2008).

4.Sirbuly, D.J., Tao, A., Law, M., Fan, R. & Yang, P.D. Multifunctional nanowire evanescent wave optical sensors. Advanced Materials 19, 61-+ (2007).

5.Huang, J.X., Fan, R., Connor, S. & Yang, P.D. One-step patterning of aligned nanowire arrays by programmed dip coating. Angewandte Chemie-International Edition 46, 2414-2417 (2007).

6.Zhang, Y., et al. Characterization of heat transfer along a silicon nanowire using thermoreflectance technique. Ieee Transactions on Nanotechnology 5, 67-74 (2006).

7.Gui, Z., et al. Reply to "Comment on precursor morphology controlled formation of rutile VO2 nanorods and their self-assembled structures". Chemistry of Materials 18, 5630-5630 (2006).

8.Goldberger, J., Hochbaum, A.I., Fan, R. & Yang, P.D. Silicon vertically integrated nanowire field effect transistors. Nano Letters 6, 973-977 (2006).

9.Goldberger, J., Fan, R. & Yang, P.D. Inorganic nanotubes: A novel platform for nanofluidics. Accounts of Chemical Research 39, 239-248 (2006).

10.Karnik, R., et al. Electrostatic control of ions and molecules in nanofluidic transistors. Nano Letters 5, 943-948 (2005).

11. Selected media coverage:
◦MIT Technology Review: "Liquid Transistors" Oct 1, 2005.
◦Science Daily: "Researchers create the fist nanofluidic transistor", July 4, 2005.
◦UC Berkeley Press Release: "Researchers create the first nanofluidic transistor, the basis of future chemical processors". June 28, 2005.

12.Karnik, R., Castelino, K., Fan, R., Yang, P. & Majumdar, A. Effects of biological reactions and modifications on conductance of nanofluidic channels. Nano Letters 5, 1638-1642 (2005).

13.Hochbaum, A.I., Fan, R., He, R.R. & Yang, P.D. Controlled growth of Si nanowire arrays for device integration. Nano Letters5, 457-460 (2005).

14.He, R.R., et al. Si nanowire bridges in microtrenches: Integration of growth into device fabrication. Advanced Materials17, 2098-+ (2005).

15.Fan, R., Yue, M., Karnik, R., Majumdar, A. & Yang, P.D. Inorganic nanotube nanofluidic transistors for single molecule detection. 323-ANYL (2005).

16.Fan, R., Yue, M., Karnik, R., Majumdar, A. & Yang, P.D. Polarity switching and transient responses in single nanotube nanofluidic transistors. Physical Review Letters 95(2005). Notable coverage:
◦Physical Review Focus highlight: "Ions feel the field effect" Aug 2005.
◦Chemical & Engineering News cover story - "Inorganic menagerie" Aug 29, 2005.

17.Fan, R., et al. DNA translocation in inorganic nanotubes. Nano Letters 5, 1633-1637 (2005).
Notable coverage:
◦Materials Today: "Nanofluidic transistor controls flow". June 2005.
◦Chemical & Engineering News cover story - "Inorganic menagerie" Aug 29, 2005.

18.Wu, B.M., et al. Two-bandgap magneto-thermal conductivity of polycrystalline MgB2. Superconductor Science & Technology 17, 1458-1463 (2004).

19.Gui, Z., Fan, R., Chen, X.H., Hu, Y. & Wang, Z.Z. A new colloidal precursor cooperative conversion route to nanocrystalline quaternary copper sulfide. Materials Research Bulletin 39, 237-241 (2004).

20.Yang, D.S., et al. Thermal conductivity of two-energy-gap superconductor MgB2. Acta Physica Sinica 52, 683-686 (2003).

21.Sun, Z., Chen, X.H., Fan, R., Luo, X.G. & Li, L. Structure and magnetic properties of perovskite Sr2CuNbO6-delta,5. Journal of Physics and Chemistry of Solids 64, 59-62 (2003).

22.Li, D.Y., Wu, Y., Fan, R., Yang, P.D. & Majumdar, A. Thermal conductivity of Si/SiGe superlattice nanowires. Applied Physics Letters 83, 3186-3188 (2003).

23.Gui, Z., et al. Synthesis and characterization of reduced transition metal oxides and nanophase metals with hydrazine in aqueous solution. Materials Research Bulletin 38, 169-176 (2003).

24.Fan, R., et al. Fabrication of silica nanotube arrays from vertical silicon nanowire templates. Journal of the American Chemical Society 125, 5254-5255 (2003).

25.Zhang, H.T., Gui, Z., Fan, R. & Chen, X.H. Hydrothermal synthesis and characterization of nanorods "LixV2-delta O4-delta center dot H2O". Inorganic Chemistry Communications 5, 399-402 (2002).

26.Wu, Y.Y., Fan, R. & Yang, P.D. Block-by-block growth of single-crystalline Si/SiGe superlattice nanowires. Nano Letters 2, 83-86 (2002).
Notable coverage: ◦Science: highlight in issue 306, 943 (2004). ◦Lawrence Berkeley National Lab highlight of the year 2002-2003 - "a small, small, smaller world" ◦Most cited article in Nano Letters (>1000).

27.Wang, C.H., et al. Transport properties of new superconductor MgCNi3. Acta Physica Sinica 51, 1816-1820 (2002).

28.Li, S.Y., et al. Thermopower and thermal conductivity of superconducting perovskite MgCNi3. Physical Review B 65(2002).

29.He, R.R., Law, M., Fan, R., Kim, F. & Yang, P.D. Functional bimorph composite nanotapes. Nano Letters 2, 1109-1112 (2002).

30.Gui, Z., et al. Precursor morphology controlled formation of rutile VO2 nanorods and their self-assembled structure. Chemistry of Materials 14, 5053-5056 (2002).

31.Li, Y.P., Fang, Y.E., Fan, R. & Xing, J.Y. Study of plasma-polymerization deposition of C2H2/CO2/H-2 onto ethylene-co-propylene rubber membranes. Radiation Physics and Chemistry60, 637-642 (2001).

32.Li, S.Y., et al. Alkali metal substitution effects in Mg(1-x)A(x)B(2) (A = Li and Na). Physica C 363, 219-223 (2001).

33.Li, S.Y., Liu, L., Fan, R. & Chen, X.H. Synthesis and superconductivity study for (Hg,M)-1222 phase (M = W, Mo, V, Cr, Ti). Physica C: Superconductivity 356, 192-196 (2001).

34.Li, S.Y., Fan, R., et al. Normal state resistivity, upper critical field, and Hall effect in superconducting perovskite MgCNi3. Physical Review B 64(2001).

35.Li, H.L., et al. Study on the resistivity and Hall effect of MgB2 and Mg0.93Li0.07B2. Acta Physica Sinica 50, 2044-2048 (2001).

36.Gui, Z., Fan, R., Chen, X.H. & Wu, Y.C. A new metastable phase of needle-like nanocrystalline VO2 center dot H2O and phase transformation. Journal of Solid State Chemistry 157, 250-254 (2001).

37.Gui, Z., Fan, R., Chen, X.H. & Wu, Y.C. A simple direct preparation of nanocrystalline gamma-Mn2O3 at ambient temperature. Inorganic Chemistry Communications 4, 294-296 (2001).

38.Gui, Z., Fan, R., Chen, X.H., Hu, Y. & Wu, Y.C. Hydrothermal synthesis and magnetic property of NaV2O5 nanorods. Transactions of Nonferrous Metals Society of China 11, 324-327 (2001).

39.Fan, R., Chen, X.H., Gui, Z., Liu, L. & Chen, Z.Y. A new simple hydrothermal preparation of nanocrystalline magnetite Fe3O4. Materials Research Bulletin 36, 497-502 (2001).

40.Fan, R., Chen, X.H., Gui, Z., Li, S.Y. & Chen, Z.Y. Sim-deintercalation synthesis and electronic conduction of hexagonal potassium tungsten bronze. Materials Letters 49, 214-218 (2001).

41.Chen, X.H. & Fan, R. Low-temperature hydrothermal synthesis of transition metal dichalcogenides. Chemistry of Materials 13, 802-805 (2001).

42.Fan, R., et al. Chemical synthesis and electronic conduction properties of sodium and potassium tungsten bronzes. Journal of Physics and Chemistry of Solids 61, 2029-2033 (2000).

43.Fan, R., Chen, X.H. & Chen, Z.Y. A novel route to obtain molybdenum dichalcogenides by hydrothermal reaction. Chemistry Letters, 920-921 (2000).

 

© Rong Fan