Feng Gao

Summary

Affiliation: Tianjin University
Country: China

Publications

  1. ncbi request reprint Three-dimensional scheme for time-domain fluorescence molecular tomography based on Laplace transforms with noise-robust factors
    Limin Zhang
    College of Precision Instrument and Optoeletronics Engineering, Tianjin University, Tianjin 300072, China
    Opt Express 16:7214-23. 2008
  2. pmc Combined hemoglobin and fluorescence diffuse optical tomography for breast tumor diagnosis: a pilot study on time-domain methodology
    Wei Zhang
    College of Precision Instrument and Optoelectronics Engineering, Tianjin University, Tianjin 300072, China
    Biomed Opt Express 4:331-48. 2013
  3. doi request reprint A CT-analogous scheme for time-domain diffuse fluorescence tomography
    Feng Gao
    College of Precision Instrument and Optoelectronics Engineering, Tianjin University, Tianjin, China
    J Xray Sci Technol 20:91-105. 2012
  4. ncbi request reprint Simultaneous fluorescence yield and lifetime tomography from time-resolved transmittances of small-animal-sized phantom
    Feng Gao
    College of Precision Instrument and Optoelectronics Engineering, Tianjin University, Tianjin 300072, China
    Appl Opt 49:3163-72. 2010
  5. ncbi request reprint A linear, featured-data scheme for image reconstruction in time-domain fluorescence molecular tomography
    Feng Gao
    College of Precision Instrument and Optoeletronics Engineering, Tianjin University, Tianjin 300072, China
    Opt Express 14:7109-24. 2006
  6. ncbi request reprint A self-normalized, full time-resolved method for fluorescence diffuse optical tomography
    Feng Gao
    College of Precision Instrument and Optoeletronics Engineering, Tianjin University, Tianjin 300072, China
    Opt Express 16:13104-21. 2008
  7. doi request reprint Time-domain fluorescence-guided diffuse optical tomography based on the third-order simplified harmonics approximation
    Wenjuan Ma
    College of Precision Instruments and Optoelectronics Engineering, Tianjin University, Tianjin, China
    Appl Opt 51:8656-68. 2012
  8. ncbi request reprint DoriC: a database of oriC regions in bacterial genomes
    Feng Gao
    Department of Physics, Tianjin University, Tianjin 300072, China
    Bioinformatics 23:1866-7. 2007
  9. pmc Ori-Finder: a web-based system for finding oriCs in unannotated bacterial genomes
    Feng Gao
    Department of Physics, Tianjin University, Tianjin 300072, China
    BMC Bioinformatics 9:79. 2008
  10. ncbi request reprint DEG 10, an update of the database of essential genes that includes both protein-coding genes and noncoding genomic elements
    Hao Luo
    Department of Physics, Tianjin University, Tianjin 300072, People s Republic of China and Center for Molecular Medicine and Genetics, School of Medicine, Wayne State University, Detroit 48201, USA
    Nucleic Acids Res 42:D574-80. 2014

Collaborators

Detail Information

Publications89

  1. ncbi request reprint Three-dimensional scheme for time-domain fluorescence molecular tomography based on Laplace transforms with noise-robust factors
    Limin Zhang
    College of Precision Instrument and Optoeletronics Engineering, Tianjin University, Tianjin 300072, China
    Opt Express 16:7214-23. 2008
    ....
  2. pmc Combined hemoglobin and fluorescence diffuse optical tomography for breast tumor diagnosis: a pilot study on time-domain methodology
    Wei Zhang
    College of Precision Instrument and Optoelectronics Engineering, Tianjin University, Tianjin 300072, China
    Biomed Opt Express 4:331-48. 2013
    ..The results demonstrate the efficacy of improving the accuracy of hemoglobin-DOT based on a priori fluorescence localization...
  3. doi request reprint A CT-analogous scheme for time-domain diffuse fluorescence tomography
    Feng Gao
    College of Precision Instrument and Optoelectronics Engineering, Tianjin University, Tianjin, China
    J Xray Sci Technol 20:91-105. 2012
    ..A pilot validation of the methodology is performed for two-dimensional scenarios using simulated and experimental data. The results demonstrated the efficacy of the proposed scheme in improving the image quality...
  4. ncbi request reprint Simultaneous fluorescence yield and lifetime tomography from time-resolved transmittances of small-animal-sized phantom
    Feng Gao
    College of Precision Instrument and Optoelectronics Engineering, Tianjin University, Tianjin 300072, China
    Appl Opt 49:3163-72. 2010
    ....
  5. ncbi request reprint A linear, featured-data scheme for image reconstruction in time-domain fluorescence molecular tomography
    Feng Gao
    College of Precision Instrument and Optoeletronics Engineering, Tianjin University, Tianjin 300072, China
    Opt Express 14:7109-24. 2006
    ....
  6. ncbi request reprint A self-normalized, full time-resolved method for fluorescence diffuse optical tomography
    Feng Gao
    College of Precision Instrument and Optoeletronics Engineering, Tianjin University, Tianjin 300072, China
    Opt Express 16:13104-21. 2008
    ....
  7. doi request reprint Time-domain fluorescence-guided diffuse optical tomography based on the third-order simplified harmonics approximation
    Wenjuan Ma
    College of Precision Instruments and Optoelectronics Engineering, Tianjin University, Tianjin, China
    Appl Opt 51:8656-68. 2012
    ....
  8. ncbi request reprint DoriC: a database of oriC regions in bacterial genomes
    Feng Gao
    Department of Physics, Tianjin University, Tianjin 300072, China
    Bioinformatics 23:1866-7. 2007
    ..AVAILABILITY: DoriC can be accessed from http://tubic.tju.edu.cn/doric/. SUPPLEMENTARY INFORMATION: Supplementary data are available at http://tubic.tju.edu.cn/doric/supplementary.htm...
  9. pmc Ori-Finder: a web-based system for finding oriCs in unannotated bacterial genomes
    Feng Gao
    Department of Physics, Tianjin University, Tianjin 300072, China
    BMC Bioinformatics 9:79. 2008
    ..Therefore, the increasing availability of genome sequences calls for improved software to identify oriCs in newly sequenced and unannotated bacterial genomes...
  10. ncbi request reprint DEG 10, an update of the database of essential genes that includes both protein-coding genes and noncoding genomic elements
    Hao Luo
    Department of Physics, Tianjin University, Tianjin 300072, People s Republic of China and Center for Molecular Medicine and Genetics, School of Medicine, Wayne State University, Detroit 48201, USA
    Nucleic Acids Res 42:D574-80. 2014
    ..Therefore, DEG 10 includes essential genomic elements under different conditions in three domains of life, with customizable BLAST tools. ..
  11. doi request reprint Towards pH-sensitive imaging of small animals with photon-counting difference diffuse fluorescence tomography
    Jiao Li
    Tianjin University, College of Precision Instruments and Optoelectronics Engineering, Tianjin 300072, China
    J Biomed Opt 17:96011-1. 2012
    ....
  12. doi request reprint Overlap time-gating approach for improving time-domain diffuse fluorescence tomography based on the IRF-calibrated Born normalization
    Jiao Li
    College of Precision Instruments and Optoelectronics Engineering, Tianjin University, Tianjin 300072, China
    Opt Lett 38:1841-3. 2013
    ..The approach is validated with full TR data from phantom experiments for its better performances in the spatial resolution and reconstruction fidelity compared to the traditional DFT methods...
  13. ncbi request reprint Combined domain-decomposition and matrix-decomposition scheme for large-scale diffuse optical tomography
    Fang Yang
    College of Precision Instrument and Optoelectronics Engineering, Tianjin University, Tianjin 300072, China
    Appl Opt 49:3111-26. 2010
    ..Also, both numerical simulations and phantom experiments show that MD-based linear inversion is superior to the row-fashioned algebraic reconstruction technique...
  14. doi request reprint Time-resolved diffuse optical tomography and its application to in vitro and in vivo imaging
    Huijuan Zhao
    Tianjin University, State Key Laboratory of Precision Measuring Technology and Instruments, Tianjin 3000072, China
    J Biomed Opt 12:062107. 2007
    ..Finally, in vitro and in vivo imaging examples are illustrated for validating the capibility of TR-DOT to provide not only the anatomical but also the physiological information of the objects...
  15. ncbi request reprint An endoscopic diffuse optical tomographic method based on the effective detection range
    Zhuanping Qin
    College of Precision Instrument and Optoelectronics Engineering, Tianjin University, Tianjin, China
    J Xray Sci Technol 21:527-43. 2013
    ..The proposed method will be useful to the development of endoscopic DOT technologies for cancer detection in tubular organs including cervix. ..
  16. pmc Origins of replication in Sorangium cellulosum and Microcystis aeruginosa
    Feng Gao
    Department of Physics, Tianjin University, Tianjin 300072, People s Republic of China
    DNA Res 15:169-71. 2008
    ....
  17. doi request reprint Spatial-frequency-compression scheme for diffuse optical tomography with dense sampling dataset
    Xiaoqing Zhou
    College of Precision Instrument and Optoelectronics Engineering, Tianjin University, Tianjin, China
    Appl Opt 52:1779-92. 2013
    ..It takes less than 20 s for the proposed method to experimentally reconstruct one absorption image from a 256×256-sized dataset, which would take a few hours with the conventional method...
  18. doi request reprint Application of Fourier-wavelet regularized deconvolution for improving image quality of free space propagation x-ray phase contrast imaging
    Zhongxing Zhou
    School of Precision Instrument and Optoelectronics Engineering, Tianjin University, Tianjin, People s Republic of China
    Phys Med Biol 57:7459-79. 2012
    ....
  19. pmc GC-Profile: a web-based tool for visualizing and analyzing the variation of GC content in genomic sequences
    Feng Gao
    Department of Physics, Tianjin University, Tianjin 300072, China
    Nucleic Acids Res 34:W686-91. 2006
    ..GC-Profile is freely available at the website http://tubic.tju.edu.cn/GC-Profile/. In addition, precompiled binaries, together with examples and documentation, can also be freely downloaded for a local execution...
  20. ncbi request reprint Time-resolved diffuse optical tomographic imaging for the provision of both anatomical and functional information about biological tissue
    Huijuan Zhao
    College of Precision Instrument and Optoelectronics Engineering, Tianjin University, Tianjin 300072, China
    Appl Opt 44:1905-16. 2005
    ....
  21. pmc DoriC 5.0: an updated database of oriC regions in both bacterial and archaeal genomes
    Feng Gao
    Department of Physics, Tianjin University, Tianjin 300072, China
    Nucleic Acids Res 41:D90-3. 2013
    ..Consequently, the latest release of DoriC contains oriCs for >1500 bacterial genomes and 81 archaeal genomes, respectively...
  22. doi request reprint Improving visibility of X-ray phase-contrast imaging with Wiener filtering
    Shaorun Gong
    College of Precision Instrument and Optoelectronics Engineering, Tianjin University, Tianjin, China
    J Xray Sci Technol 18:279-92. 2010
    ..9dB. With the trend of the post-filtered experimental contrast to the theoretical one, it could be motivated that higher visibility would be achieved with the introduction of more precise blurring mask and noise spectrum estimation...
  23. pmc Genome sequence of Acinetobacter baumannii MDR-TJ
    Feng Gao
    Department of Physics, Tianjin University, Tianjin 300072, China
    J Bacteriol 193:2365-6. 2011
    ..The genome sequence of Acinetobacter baumannii strain MDR-TJ was determined by using a combination of 454 pyrosequencing and paired-end sequencing performed with the Roche Genome Sequencer FLX system to generate a scaffolded assembly...
  24. pmc RNA-DNA differences are rarer in proto-oncogenes than in tumor suppressor genes
    Feng Gao
    Department of Physics, Tianjin University, Tianjin 300072, China
    Sci Rep 2:245. 2012
    ..e., those cause amino acid changes. A potential mechanism is that, unlike proto-oncogenes, the requirement of tumor suppressor genes to have both alleles affected to cause tumor 'buffers' these genes to tolerate more RDDs...
  25. doi request reprint DeOri: a database of eukaryotic DNA replication origins
    Feng Gao
    Department of Physics, Tianjin University, Tianjin, China
    Bioinformatics 28:1551-2. 2012
    ....
  26. ncbi request reprint Techniques to improve the accuracy of noise power spectrum measurements in digital x-ray imaging based on background trends removal
    Zhongxing Zhou
    School of Precision Instrument and Optoelectronics Engineering, Tianjin University, Tianjin 300072, China
    Med Phys 38:1600-10. 2011
    ..The purpose of this study was to investigate an appropriate background detrending technique to improve the accuracy of NPS estimation for digital x-ray systems...
  27. doi request reprint Near-infrared frequency domain system and fast inverse Monte Carlo algorithm for endoscopic measurement of tubular tissue
    Huijuan Zhao
    College of Precision Instruments and Optoelectronics Engineering, Tianjin University, Tianjin, China
    J Xray Sci Technol 19:57-68. 2011
    ..2%. Endoscopic measurement on two tubular solid phantoms were also carried out to evaluate the system and the inversion scheme. The results demonstrated that less than 20% relative error can be achieved...
  28. ncbi request reprint Isochore structures in the chicken genome
    Feng Gao
    Department of Physics, Tianjin University, China
    FEBS J 273:1637-48. 2006
    ..The cumulative GC profile, equipped with the new segmentation algorithm, would be an appropriate starting point for analyzing the isochore structures of higher eukaryotic genomes...
  29. ncbi request reprint Functionality of essential genes drives gene strand-bias in bacterial genomes
    Yan Lin
    Department of Physics, Tianjin University, Tianjin 300072, China
    Biochem Biophys Res Commun 396:472-6. 2010
    ....
  30. ncbi request reprint Comparison of various algorithms for recognizing short coding sequences of human genes
    Feng Gao
    Department of Physics, Tianjin University, Tianjin 300072, China
    Bioinformatics 20:673-81. 2004
    ..The paper is devoted to assessing various algorithms, including those currently available and the new ones proposed here, in order to find the best algorithm to solve the issue...
  31. doi request reprint Prediction of replication time zones at single nucleotide resolution in the human genome
    Feng Gao
    Department of Physics, Tianjin University, Tianjin 300072, China
    FEBS Lett 582:2441-4. 2008
    ..1, 6p21.32, 17q11.2 and 22q12.1 nearly all coincide with the determined isochore boundaries. The precise boundaries of the 3198 isochores are available via the website: http://tubic.tju.edu.cn/isomap/...
  32. doi request reprint Complete genome sequence of Acinetobacter baumannii MDR-TJ and insights into its mechanism of antibiotic resistance
    He Huang
    Department of Biochemical Engineering, School of Chemical Engineering and Technology, Key Laboratory of Systems Bioengineering, Ministry of Education, Tianjin University, Tianjin 300072, China
    J Antimicrob Chemother 67:2825-32. 2012
    ..To determine the genome sequence of Acinetobacter baumannii strain MDR-TJ and characterize the mechanisms of multidrug resistance in this strain...
  33. ncbi request reprint Segmentation algorithm for DNA sequences
    Chun Ting Zhang
    Department of Physics, Tianjin University, Tianjin 300072, China
    Phys Rev E Stat Nonlin Soft Matter Phys 72:041917. 2005
    ..Particularly, it is much simpler and faster than the entropy-based method. Therefore, the new algorithm is more suitable for analyzing long genome sequences, such as human and other newly sequenced eukaryotic genome sequences...
  34. pmc Comparison of journal self-citation rates between some Chinese and non-Chinese international journals
    Zu Guo Yang
    Library, Tianjin University, Tianjin, China
    PLoS ONE 7:e49001. 2012
    ..This study aimed to evaluate these journals by calculating various journal self-citation rates, which are important parameters influencing a journal impact factor...
  35. doi request reprint Optical refocusing three-dimensional wide-field fluorescence lifetime imaging microscopy
    Qiang Wu
    The MOE Key Laboratory of Weak Light Nonlinear Photonics, TEDA Applied Physics School and School of Physics, Nankai University, Tianjin, China
    Opt Express 20:960-5. 2012
    ..Using a fluorescent microsphere the performance of the system has been tested successfully with respect to three-dimensional fluorescence lifetime microscopy as well as time-resolved fluorescence spectroscopy...
  36. ncbi request reprint Tunable add/drop channel coupler based on an acousto-optic tunable filter and a tapered fiber
    Wending Zhang
    MOE Key Laboratory of Weak Light Nonlinear Photonics, TEDA Applied Physics School and School of Physics, Nankai University, Tianjin, China
    Opt Lett 37:1241-3. 2012
    ..Further possible improvements on the configuration are also discussed...
  37. pmc Enzymes are enriched in bacterial essential genes
    Feng Gao
    Department of Physics, Tianjin University, Tianjin, China
    PLoS ONE 6:e21683. 2011
    ....
  38. ncbi request reprint Coronavirus phylogeny based on a geometric approach
    Wen Xin Zheng
    Department of Physics, Tianjin University, Tianjin 300072, China
    Mol Phylogenet Evol 36:224-32. 2005
    ..Because the phylogenetic relationships are inferred from the whole genome, instead of some individual genes, the present method represents a new direction of phylogeny study in the post-genome era...
  39. ncbi request reprint Imaging of in vitro chicken leg using time-resolved near-infrared optical tomography
    Huijuan Zhao
    National Institute of Advanced Industrial Science and Technology, Tsukuba, Ibaraki, Japan
    Phys Med Biol 47:1979-93. 2002
    ....
  40. ncbi request reprint Optical tomographic mapping of cerebral haemodynamics by means of time-domain detection: methodology and phantom validation
    Feng Gao
    National Institute of Advanced Industrial Science and Technology, 1 2 Namiki, Tsukuba, Ibaraki, 305 8564, Japan
    Phys Med Biol 49:1055-78. 2004
    ..The methodology is also validated by experiments using a solid layered phantom...
  41. ncbi request reprint Combining sequence and time series expression data to learn transcriptional modules
    Anshul Kundaje
    Department of Computer Science, Columbia University, New York 10027, USA
    IEEE/ACM Trans Comput Biol Bioinform 2:194-202. 2005
    ....
  42. ncbi request reprint Total light approach of time-domain fluorescence diffuse optical tomography
    Andhi Marjono
    Department of Mechanical Engineering and Intelligent Systems, University of Electro Communications, Chofu, Tokyo, Japan
    Opt Express 16:15268-85. 2008
    ..The reconstructed images of fluorophore concentration show good quantitativeness and spatial reproducibility. By use of the total light approach, computation is performed much faster than the conventional ones...
  43. doi request reprint Synthesis, GC selective DNA binding and topoisomerase II inhibition activities of ruthenium(II) polypyridyl complex containing 11-aminopteridino[6,7-f][1,10]phenanthrolin-13(12H)-one
    Feng Gao
    MOE Laboratory of Bioinorganic and Synthetic Chemistry, School of Chemistry and Chemical Engineering, Sun Yat Sen University, Guangzhou 510275, PR China
    J Inorg Biochem 102:1050-9. 2008
    ..In addition, the complex shows high inhibition activity against topoisomerase II by interfere the DNA religation...
  44. ncbi request reprint Heterologous expression of vacuolar H(+)-PPase enhances the electrochemical gradient across the vacuolar membrane and improves tobacco cell salt tolerance
    Xiao Guang Duan
    School of Life Science, Shandong University, Jinan, People s Republic of China
    Protoplasma 232:87-95. 2007
    ....
  45. doi request reprint The application of BTEM to UV-vis and UV-vis CD spectroscopies: the reaction of Rh4(CO)12 with chiral and achiral ligands
    Shuying Cheng
    Department of Chemical and Bimolecular Engineering, National University of Singapore, 4 Engineering Drive 4, Singapore 117576, Singapore
    Talanta 74:1132-40. 2008
    ..The present results indicate that UV-vis and UV-vis-CD spectroscopies can be successfully combined with an appropriate chemometric technique in order to monitor reactive organometallic systems having UV and Vis chromophores...
  46. doi request reprint Chemical gene synthesis: strategies, softwares, error corrections, and applications
    Ai Sheng Xiong
    Biotechnology Research Institute, Shanghai Academy of Agricultural Sciences, Shanghai, China
    FEMS Microbiol Rev 32:522-40. 2008
    ..Also, we will briefly discuss some of the major applications of chemical synthesis of DNA sequences in basic research and applied areas...
  47. ncbi request reprint Reconstructing clinical events by interpreting NICU monitoring data
    Feng Gao
    Department of Computing Science, University of Aberdeen
    Stud Health Technol Inform 136:879-80. 2008
    ..In this PhD research I investigate techniques to automatically reconstruct clinical events that are not recorded directly but could be reconstructed from continuous physiological data and other discrete data...
  48. ncbi request reprint Multisite mutations of the PRSS1 gene in a Chinese patient with chronic pancreatitis
    Qi Cai Liu
    Department of Laboratory Medicine, First Affiliated Hospital, Fujian Medical University, Fuzhou 350005, China
    Hepatobiliary Pancreat Dis Int 7:331-2. 2008
    ..This study was to identify the mutation of the PRSS1 gene in a Chinese patient with chronic pancreatitis and to analyze the clinical features of the disease...
  49. ncbi request reprint Determination of enantiomeric excess using the ultraviolet-circular dichroism and the high-performance liquid chromatography-circular dichroism methods
    Li Chen
    Chemical and Process Engineering Centre, 4 Engineering Drive 4, Block E5, Singapore 117576
    Appl Spectrosc 57:797-804. 2003
    ..Compared with the UV-CD method, the results show that excellent results are more readily obtained using the HPLC-CD method. With the systems studied, the latter usually provided outstanding estimations of e.e with low error percentages...
  50. ncbi request reprint Indexing protein structures using suffix trees
    Feng Gao
    Department of Computer Science, Rensselaer Polytechnic Institute, Troy, NY, USA
    Methods Mol Biol 413:147-69. 2008
    ..49 out of 10 proteins from the same superfamily are obtained among the top 10 matches. These results outperform the best previous methods...
  51. ncbi request reprint A semi-rational design strategy of directed evolution combined with chemical synthesis of DNA sequences
    Ai Sheng Xiong
    Biotechnology Research Institute of Shanghai Academy of Agricultural Sciences, 2901 Beidi Road, Shanghai 201106, China
    Biol Chem 388:1291-300. 2007
    ..The purified beta-galactosidase from YH8757 exhibited a lower specific activity at 25 degrees C than those purified from mutated YG6755 and YG8252...
  52. ncbi request reprint Biochemical and biophysical characterization of the transmissible gastroenteritis coronavirus fusion core
    Guangpeng Ma
    Department of Preventive Veterinary, College of Veterinary Medicine, Northeast Agriculture University, 150030 Harbin, PR China
    Biochem Biophys Res Commun 337:1301-7. 2005
    ....
  53. ncbi request reprint Detection of nucleolar organizer and mitochondrial DNA insertion regions based on the isochore map of Arabidopsis thaliana
    Ling Ling Chen
    Laboratory for Computational Biology, Shandong Provincial Research Center for Bioinformatic Engineering and Techniques, Shandong University of Technology, Zibo, China
    FEBS J 272:3328-36. 2005
    ..Moreover, the centromeres are located in GC-rich 'isochore-like regions' in all the five chromosomes. The current method can provide a useful tool for analyzing whole genomic sequences of eukaryotes...
  54. ncbi request reprint MSurvPow: a FORTRAN program to calculate the sample size and power for cluster-randomized clinical trials with survival outcomes
    Feng Gao
    Division of Biostatistics, Washington University School of Medicine, St Louis, MO 63110, USA
    Comput Methods Programs Biomed 78:61-7. 2005
    ..In this paper, a user-friendly FORTRAN 90 program was provided to implement this method and a simple example was used to illustrate the features of the program...
  55. ncbi request reprint Simple strategies for reducing sample loads in in vitro metabolic stability high-throughput screening experiments: a comparison between traditional, two-time-point and pooled sample analyses
    Sabrina X Zhao
    Candidate Enhancement Group, Exploratory Medicinal Sciences, Pfizer Inc, Eastern Point Road MS 8118W 102, Groton, Connecticut 06340, USA
    J Pharm Sci 94:38-45. 2005
    ..98 and 0.97, respectively. Both methods have the potential to: 1. produce data of similar quality to traditional high throughput ADME assays, 2. be easily implemented, 3. shorten analytical run times, and 4. be reproducible and robust...
  56. ncbi request reprint Centralized immunogens as a vaccine strategy to overcome HIV-1 diversity
    Feng Gao
    The Duke Human Vaccine Institute, Department of Medicine, Duke University School of Medicine, Durham, NC 27710, USA
    Expert Rev Vaccines 3:S161-8. 2004
    ..It is biologically functional and preserves antigenicity similar to contemporary Env proteins. Most importantly, the group M consensus Env immunogen can elicit both T- and B-cell responses to wild-type HIV-1 isolates...
  57. ncbi request reprint [Analysis of methylation status of the promoter of mdr1 gene in K562 and K562/DNR cells]
    Feng Gao
    Department of Medical Oncology, The First Affiliated Hospital, China Medical University, Shenyang 110001, China
    Zhonghua Xue Ye Xue Za Zhi 25:293-5. 2004
    ..To analyze the methylation patterns of mdr1 gene promotor in both K562 cell and K562/DNR cells and the relationship between promotor methylation and P-gp expression...
  58. pmc Defining transcriptional networks through integrative modeling of mRNA expression and transcription factor binding data
    Feng Gao
    Department of Biological Sciences, Columbia University, New York, New York 10027, USA
    BMC Bioinformatics 5:31. 2004
    ..The challenge is to extract useful information about the global regulatory network from these data...
  59. ncbi request reprint Prediction of human volume of distribution values for neutral and basic drugs. 2. Extended data set and leave-class-out statistics
    Franco Lombardo
    Molecular Properties Group, Pfizer Global Research and Development, Groton Laboratories, Groton, Connecticut 06340, USA
    J Med Chem 47:1242-50. 2004
    ..The reduction in the use of animals and the overall faster and cheaper accessibility of the parameters used make this method highly attractive for prospectively predicting the VD of new chemical entities in humans...
  60. ncbi request reprint Prediction of proteinase cleavage sites in polyproteins of coronaviruses and its applications in analyzing SARS-CoV genomes
    Feng Gao
    Department of Physics, Tianjin University, 300072, Tianjin, PR China
    FEBS Lett 553:451-6. 2003
    ..Compared with known annotations, the performance of the present method is satisfactory. The software ZCURVE_CoV 2.0 is freely available at http://tubic.tju.edu.cn/sars/...
  61. ncbi request reprint Estimation of the optimal electrophoretic temperature of DNA single-strand conformation polymorphism by DNA base composition
    Wei Li
    Laboratory of Pediatrics, Medical Scientific Research Center, Guangxi Medical University, China
    Electrophoresis 24:2283-9. 2003
    ..T(s) could be estimated by the formula T(s) = [80 x C/(A+1)]/[2.71 + [C/(A+1)]]. T(s) could be increased dramatically by the complementary sequences in both 5'-and 3'-ends of a DNA single-strand...
  62. ncbi request reprint Repression of allo-cell transplant rejection through CIITA ribonuclease P+ hepatocyte
    Rong Guo
    Institute of Hematology, the Union Hospital, Affiliated to Tongji Medical College, Huazhong University of Science and Technology, Wuhan, Hubei Province, China
    World J Gastroenterol 9:1077-81. 2003
    ..This paper studied the effect of Ribonuclease P (RNase P) against CIITA, which was a major regulator of MHCII molecules, on repressing the expression of MHCII molecules on hepatocyte...
  63. ncbi request reprint Semi-three-dimensional algorithm for time-resolved diffuse optical tomography by use of the generalized pulse spectrum technique
    Feng Gao
    Institute for Human Science and Biomedical Engineering, National Institute of Advanced Industrial Science and Technology, 1 2 Namiki, Tsukuba, Ibaraki 305 8564, Japan
    Appl Opt 41:7346-58. 2002
    ..We demonstrate our algorithm by comparing it with the calibrated 2-D reconstruction that is in widespread use as a shortcut to 3-D imaging and proving that the semi-3-D algorithm outperforms the calibrated 2-D algorithm...
  64. ncbi request reprint Analysis of partial pol and env sequences indicates a high prevalence of HIV type 1 recombinant strains circulating in Gabon
    Ivona Pandrea
    Laboratoire de Retroviologie, Centre International de Recherches Medicales, Franceville, Gabon
    AIDS Res Hum Retroviruses 18:1103-16. 2002
    ..The main advantage of this approach is that it also allows for evaluation of genotypic susceptibility to antiretroviral drugs without the need for supplementary analyses...
  65. ncbi request reprint Regulation of cardiac fibroblast cellular function by leukemia inhibitory factor
    Feng Wang
    Winters Center for Heart Failure Research, Baylor College of Medicine, 6565 Fannin Street, Houston, TX 77030, USA
    J Mol Cell Cardiol 34:1309-16. 2002
    ..However, the effects of LIF in cardiac fibroblasts are not known. Given that the cardiac fibroblast is the most abundant cell type in the heart, we sought to examine the functional effects of LIF on cardiac fibroblasts in vitro...
  66. ncbi request reprint Optimizing higher throughput methods to assess drug-drug interactions for CYP1A2, CYP2C9, CYP2C19, CYP2D6, rCYP2D6, and CYP3A4 in vitro using a single point IC(50)
    Feng Gao
    Pfizer Global Research and Development, Groton, CT, USA
    J Biomol Screen 7:373-82. 2002
    ..In addition, the algorithmic approach we propose would obviously be applicable for other in vitro bioactivity and therapeutic target enzyme and receptor screens...
  67. ncbi request reprint Computational method for muscle-path representation in musculoskeletal models
    Feng Gao
    Institute of Mechanical Engineering, Aalborg University, Pontoppidanstraede 101, 9220 Aalborg East, Denmark
    Biol Cybern 87:199-210. 2002
    ..Any level of geometric accuracy can be obtained by increasing the number of cross sections and the number of line segments in each cross section. The algorithm is computationally efficient even for large numbers of cross sections...
  68. ncbi request reprint Application of functionalized CdS nanoparticles as fluorescence probe in the determination of nucleic acids
    Le Yu Wang
    College of Chemistry and Materials Science, Anhui Normal University, Wuhu, China
    Analyst 127:977-80. 2002
    ..2% for 1 microg mL(-1) calf thymus DNA and 2.4% for 1 microg mL(-1) fish sperm DNA. The method is simple, rapid and sensitive. The recovery and relative standard deviation are very satisfactory...
  69. ncbi request reprint Limb-shaking transient ischemic attack induced by middle cerebral artery stenosis
    Wei Jian Jiang
    Neurovascular Angioplasty Team, Department of Neurology and Neuroradiology, Beijing Tiantan Hospital, Capital University of Medical Sciences, Beijing, China
    Cerebrovasc Dis 21:421-2. 2006
  70. ncbi request reprint A hybrid mixture discriminant analysis-random forest computational model for the prediction of volume of distribution of drugs in human
    Franco Lombardo
    Computational Chemistry and Scientific Computing Groups and Groton Non Clinical Statistics, Pfizer Global Research and Development, Groton Laboratories, Groton, Connecticut 06340, USA
    J Med Chem 49:2262-7. 2006
    ..The computational model described can predict human VD(ss) with an accuracy comparable to predictions requiring substantially greater effort and can be applied in place of animal experimentation...
  71. ncbi request reprint Retrospective motion correction protocol for high-resolution anatomical MRI
    Peter Kochunov
    Research Imaging Center, University of Texas Health Science Center at San Antonio, Texas, USA
    Hum Brain Mapp 27:957-62. 2006
    ..RMC was tested on 35 subjects who were considered at high risk for head motion. Our results show that RMC provided better contrast-to-noise ratio and boundary detail when compared to nonmotion-corrected averaged images...
  72. ncbi request reprint Evaluation of on-line bradycardia boundary detectors from neonatal clinical data
    Francois Portet
    Department of Computing Science, University of Aberdeen, King s College, Aberdeen AB24 3UE, UK
    Conf Proc IEEE Eng Med Biol Soc 2007:3288-91. 2007
    ..5 to 8.7s vs. STD=35.3 to 19.9s). These methods will be integrated to the BabyTalk project which aims at summarizing neonatal clinical data as text in order to improve data management in Neonatal ICU...
  73. pmc Class I MHC allochimeric presentation of composite immunogenic and self epitopes induces tolerance to genetically diverse rat strains
    Natalya V Semiletova
    The Dumont UCLA Transplant Center, Division of Liver and Pancreas Transplantation, Department of Surgery, David Geffen School of Medicine at UCLA, 10833 Le Conte Avenue, 77 120 CHS, Los Angeles, CA 90095 7054, USA
    Cell Immunol 248:48-58. 2007
    ....
  74. ncbi request reprint Absence of toll-like receptor 4 (TLR4) signaling in the donor organ reduces ischemia and reperfusion injury in a murine liver transplantation model
    Xiu Da Shen
    Dumont University of California, Los Angeles UCLA Transplant Center, Division of Liver and Pancreas Transplantation, Department of Surgery, David Geffen School of Medicine at University of California, Los Angeles UCLA, Los Angeles, CA 90095, USA
    Liver Transpl 13:1435-43. 2007
    ..These results provide the rationale to locally modify innate TLR4 signaling in the donor organ to more efficiently control the adaptive posttransplantation IRI-dependent responses...
  75. ncbi request reprint A parametric comparison of diagnostic accuracy with three ordinal diagnostic groups
    Chengjie Xiong
    Division of Biostatistics, Washington University in St Louis, St Louis, MO 63110, USA
    Biom J 49:682-93. 2007
    ..Finally, we apply our proposed methodology to a real data set of 118 subjects to compare the diagnostic accuracy of early stage Alzheimer's disease (AD) from multiple neuropsychological tests...
  76. ncbi request reprint Targeting topoisomerase II with the chiral DNA-intercalating ruthenium(II) polypyridyl complexes
    Feng Gao
    Key Laboratory of Bioinorganic and Synthetic Chemistry of Ministry of Education, School of Chemistry and Chemical Engineering, Sun Yat Sen University, Guangzhou 510275, People s Republic of China
    J Biol Inorg Chem 12:1015-27. 2007
    ..Both complexes show antitumor activity towards HELA, hepG2, BEL-7402, and CNE-1 tumor cells...
  77. pmc Mycobacterial nonhomologous end joining mediates mutagenic repair of chromosomal double-strand DNA breaks
    Nicolas C Stephanou
    Immunology Program, Memorial Sloan Kettering Cancer Center, New York, New York 10021, USA
    J Bacteriol 189:5237-46. 2007
    ..These findings demonstrate that prokaryotic NHEJ is specifically required for DSB repair in late stationary phase and can mediate mutagenic repair of homing endonuclease-generated chromosomal DSBs...
  78. ncbi request reprint Creation of DNA overhangs by using modified DNA overhang cloning method
    Wei Li
    Laboratory of Surgery, The First Affiliated Hospital of Guangxi Medical University, Nanning, Guangxi, 530021, People s Republic of China
    Appl Microbiol Biotechnol 75:703-9. 2007
    ..The creation of DNA overhangs by using complementary DNA oligonucleotides, T4 ligase, and RNase H is simpler and cheaper than that by using reverse transcriptase and RNase H...
  79. ncbi request reprint Impact of additive noise on system performance of a digital X-ray imaging system
    Da Zhang
    Center for Bioengineering, School of Electrical and Computer Engineering, University of Oklahoma, Norman, OK 73019, USA
    IEEE Trans Biomed Eng 54:69-73. 2007
    ..For example, at an exposure of 20 s, the DQE(O) is approximately 0.22, dropping to 0.11 at 3 lp/mm and to 0.022 at 8 lp/mm...
  80. ncbi request reprint Comparison of the proteome of isoniazid-resistant and -susceptible strains of Mycobacterium tuberculosis
    Xin Jiang
    State Key Laboratory of Genetic Engineering, Institute of Genetics, School of Life Science, Fudan University, People s Republic of China
    Microb Drug Resist 12:231-8. 2006
    ..These results suggest that the differentially expressed proteins from INH-resistant strains might be used as potential immunodiagnosis antigens and candidate novel drug targets against drug-resistant tuberculosis...
  81. ncbi request reprint Identification of unique genetic markers in Rv0927c among Mycobacterium tuberculosis W-Beijing strains
    Xin Jiang
    State Key Laboratory of Genetic Engineering, Institute of Genetics, School of Life Science, Fudan University, Shanghai 200433, PR China
    Microbes Infect 9:241-6. 2007
    ..Characteristic mutations of Rv0927c that are present in W-Beijing strains can be used as a novel genetic marker for rapid molecular typing of M. tuberculosis W-Beijing strains...
  82. pmc Antigenicity and immunogenicity of HIV-1 consensus subtype B envelope glycoproteins
    Denise L Kothe
    Department of Microbiology, University of Alabama at Birmingham, Birmingham, AL 35294, USA
    Virology 360:218-34. 2007
    ....
  83. pmc Genetic and neutralization properties of subtype C human immunodeficiency virus type 1 molecular env clones from acute and early heterosexually acquired infections in Southern Africa
    Ming Li
    Department of Surgery, Laboratory for AIDS Vaccine Research and Development, Duke University Medical Center, Durham, NC 27710, USA
    J Virol 80:11776-90. 2006
    ..A subset of these gp160 clones are suitable for use as reference reagents to facilitate standardized assessments of vaccine-elicited neutralizing antibody responses...
  84. ncbi request reprint Cloning of an H+-PPase gene from Thellungiella halophila and its heterologous expression to improve tobacco salt tolerance
    Feng Gao
    School of Life Science, Shandong University, Jinan 250100, PR China
    J Exp Bot 57:3259-70. 2006
    ..This result supports the hypothesis that overexpression of H(+)-PPase causes the accumulation of Na(+) in vacuoles instead of in the cytoplasm and avoids the toxicity of excessive Na(+) in plant cells...
  85. ncbi request reprint DNA interactions of a functionalized ruthenium(II) mixed-polypyridyl complex [Ru(bpy)2ppd]2+
    Feng Gao
    Department of Chemistry, State Key Laboratory of Optoelectronic Materials and Technologies, The Key Laboratory of Gene Enginerring of Ministry of Education, Sun Yat Sen University, Guanghou 510275, PR China
    J Inorg Biochem 100:1487-94. 2006
    ..The mechanism studies reveal that singlet oxygen (1O2) and superoxide anion radical (O2*(-))play a significant role in the photocleavage...
  86. ncbi request reprint Hypoxic postconditioning enhances the survival and inhibits apoptosis of cardiomyocytes following reoxygenation: role of peroxynitrite formation
    Hai chang Wang
    Department of Cardiology and Department of Physiology, Xijing Hospital, Fourth Military Medical University, Xi an 710032, China
    Apoptosis 11:1453-60. 2006
    ....
  87. ncbi request reprint Non-parametric estimation for baseline hazards function and covariate effects with time-dependent covariates
    Feng Gao
    Division of Biostatistics, Washington University School of Medicine, Campus Box 8067, 660 S Euclid Ave, St Louis, MO 63110, USA
    Stat Med 26:857-68. 2007
    ..Finally, the performance of the method is evaluated by several simulation studies...
  88. ncbi request reprint Controlled bimolecular collisions allow sub-diffraction limited microscopy of lipid vesicles
    Erwen Mei
    Department of Chemistry, University of Pennsylvania, Philadelphia, PA 19104, USA
    Phys Chem Chem Phys 8:2077-82. 2006
    ..The principle of this method of trajectory time distribution optical microscopy (TTDOM) could be used in a far field optical microscopic system with a resolution of several nanometers...
  89. ncbi request reprint Maps of optical differential pathlength factor of human adult forehead, somatosensory motor and occipital regions at multi-wavelengths in NIR
    Huijuan Zhao
    Institute for Human Science and Biomedical Engineering, National Institute of Advanced Industrial Science and Technology AIST, Tsukuba, Ibaraki, Japan
    Phys Med Biol 47:2075-93. 2002
    ..The DPF data will be useful for quantitative monitoring of the haemodynamic changes occurring in adult heads...