Zhifeng Shao

发表

Ultra-deep sequencing of ribosome-associated poly-adenylated RNA in early Drosophila embryos reveals hundreds of conserved translated sORFs

D. Czajkowsky, Xiaodong Zhao, Hong-mei Li, 2016, DNA research : an international journal for rapid publication of reports on genes and genomes.

Super-resolution Imaging of Individual Human Subchromosomal Regions in Situ Reveals Nanoscopic Building Blocks of Higher-Order Structure.

D. Czajkowsky, Zhifeng Shao, K. Fang, 2018, ACS nano.

Sub-kb resolution Hi-C in D. melanogaster reveals conserved characteristics of TADs between insect and mammalian cells

D. Czajkowsky, Zhifeng Shao, Qi Wang, 2017, bioRxiv.

MALAT1 long ncRNA promotes gastric cancer metastasis by suppressing PCDH10

H. Ooi, Bingya Liu, Xiaodong Zhao, 2016, Oncotarget.

MALAT 1 long ncRNA promotes gastric cancer metastasis by suppressing PCDH 10

Qing, H. Ooi, Bingya Liu, 2016 .

Genome-wide profiling of untranslated regions by paired-end ditag sequencing reveals unexpected transcriptome complexity in yeast

H. Ooi, D. Czajkowsky, Xiaodong Zhao, 2015, Molecular Genetics and Genomics.

Improved clearing of lipid droplet-rich tissues for three-dimensional structural elucidation.

Jun Li, Zhifeng Shao, Xiaowei Li, 2017, Acta biochimica et biophysica Sinica.

High-resolution single-cell 3D-models of chromatin ensembles during Drosophila embryogenesis

Jie Liang, D. Czajkowsky, Zhifeng Shao, 2021, Nature communications.

CHROMATIX: computing the functional landscape of many-body chromatin interactions in transcriptionally active loci from deconvolved single cells

Jie Liang, V. Boeva, Zhifeng Shao, 2020, Genome biology.

Genome-wide analysis of core promoter structures in Schizosaccharomyces pombe with DeepCAGE

P. Tong, J. Hou, Xiaodong Zhao, 2015, RNA biology.

CHROMATIX: computing the functional landscape of many-body chromatin interactions in transcriptionally active loci from deconvolved single cells

Jie Liang, V. Boeva, Zhifeng Shao, 2019, Genome Biology.

Vertical collapse of a cytolysin prepore moves its transmembrane β‐hairpins to the membrane

Zhifeng Shao, D. Czajkowsky, R. Tweten, 2004, The EMBO journal.

Fc-fusion proteins: new developments and future perspectives

Zhifeng Shao, D. Czajkowsky, Zhifeng Shao, 2012, EMBO molecular medicine.

High‐resolution imaging and nano‐manipulation of biological structures on surface

Jielin Sun, Zhifeng Shao, Yi Zhang, 2011, Microscopy research and technique.

Fast immuno-labeling by electrophoretically driven infiltration for intact tissue imaging

Zhifeng Shao, Daniel M. Czajkowsky, Xiaowei Li, 2015, Scientific Reports.

High-resolution single-cell 3D-models of chromatin ensembles during Drosophila embryogenesis

Jie Liang, D. Czajkowsky, Zhifeng Shao, 2019, Nature Communications.

High-Resolution Single-Cell Models of Ensemble Chromatin Structures During Drosophila Embryogenesis from Population HI-C

Jie Liang, D. Czajkowsky, Zhifeng Shao, 2019, Biophysical Journal.

Identification of Biomarkers for Predicting Lymph Node Metastasis of Stomach Cancer Using Clinical DNA Methylation Data

Xiaodong Zhao, Hua Li, Zhifeng Shao, 2017, Disease markers.

Compressive Force Spectroscopy: From Living Cells to Single Proteins

D. Czajkowsky, Zhifeng Shao, Yi Shen, 2018, International journal of molecular sciences.

Synthesis and micellization of redox-responsive dynamic covalent multi-block copolymers

B. Gong, Bingya Liu, Yu-mei Shen, 2016 .

Design and synthesis of redox and oxidative dual responsive block copolymer micelles for intracellular drug delivery

B. Gong, Bingya Liu, Yu-mei Shen, 2016 .

Genome-wide profiling identifies Saccharomyces cerevisiae response in PKC-SLT2 signaling and glycogen metabolic pathways to antifungal compound calcofluor white

Ming Cheng, Chuansheng Hu, Zhifeng Shao, 2014 .

Self-assembled polymeric micelles based on THP and THF linkage for pH-responsive drug delivery

B. Gong, Yuanqing（张元庆） Zhang, Zhifeng Shao, 2014 .

Characterization of DNA Methylation Associated Gene Regulatory Networks During Stomach Cancer Progression

Jielin Sun, Xiaodong Zhao, Hua Li, 2019, Front. Genet..

Chitosan oligosaccharide copolymer micelles with double disulphide linkage in the backbone associated by H-bonding duplexes for targeted intracellular drug delivery

B. Gong, Bingya Liu, Yuhong Xu, 2015 .

Selective translational usage of TSS and core promoters revealed by translatome sequencing

Jielin Sun, Hong-mei Li, L. Bai, 2019, BMC Genomics.

Design and Synthesis of New Acid Cleavable Linkers for DNA Sequencing by Synthesis

B. Gong, Xiaodong Zhao, Yu-mei Shen, 2014, Nucleosides, nucleotides & nucleic acids.

Optimization of Chemical Fungicide Combinations Targeting the Maize Fungal Pathogen, Bipolaris maydis: A Systematic Quantitative Approach

Jie Chen, Xiang Wang, Zongli Lin, 2015, IEEE Transactions on Biomedical Engineering.

IgM, Fcμ-receptors and malarial immune evasion

D. Czajkowsky, Zhifeng Shao, R. Pleass, 2018 .

Synthesis and evaluations of an acid-cleavable, fluorescently labeled nucleotide as a reversible terminator for DNA sequencing.

B. Gong, Yu-mei Shen, Zhifeng Shao, 2016, Chemical communications.

Design and synthesis of fluorescence-labeled nucleotide with a cleavable azo linker for DNA sequencing.

B. Gong, Yu-mei Shen, Zhifeng Shao, 2016, Chemical communications.

Mechanistic insights into HuR inhibitor MS-444 arresting embryonic development revealed by low-input RNA-seq and STORM

Ji Wu, Geng G. Tian, Zhifeng Shao, 2022, Cell biology and toxicology.

Mechanistic Insights Into Small-molecule Inhibitor MS-444 Arresting Embryonic Development Revealed by Low-input RNA-seq and STORM

Ji Wu, Geng G. Tian, Xiaowei Li, 2022 .

2cChIP-seq and 2cMeDIP-seq: The Carrier-Assisted Methods for Epigenomic Profiling of Small Cell Numbers or Single Cells

Ji Wu, Xi Chen, Zhifeng Shao, 2022, International journal of molecular sciences.

Genome-wide profiling of untranslated regions by paired-end ditag sequencing reveals unexpected transcriptome complexity in yeast

H. Ooi, D. Czajkowsky, Xiaodong Zhao, 2015, Molecular Genetics and Genomics.

Temperature sensitive polyMOF hydrogel formed by in situ open-ring polymerization for infected chronic wound treatment

C. Kengla, Xinyi Dai, Zhifeng Shao, 2022, Chemical Engineering Journal.

Self-assembling organic nanotubes with precisely defined, sub-nanometer pores: formation and mass transport characteristics.

B. Gong, Zhifeng Shao, 2013, Accounts of chemical research.

Persistent Organic Nanopores Amenable to Structural and Functional Tuning.

Fayez Y. Al-mkhaizim, Guoqing Zhang, B. Gong, 2016, Journal of the American Chemical Society.

Highly conducting transmembrane pores formed by aromatic oligoamide macrocycles.

B. Gong, G. Szabó, Zhifeng Shao, 2008, Journal of the American Chemical Society.

Enforced Tubular Assembly of Electronically Different Hexakis(m-Phenylene Ethynylene) Macrocycles: Persistent Columnar Stacking Driven by Multiple Hydrogen-Bonding Interactions.

Alan L Connor, B. Gong, Zhifeng Shao, 2017, Journal of the American Chemical Society.

Self-assembling subnanometer pores with unusual mass-transport properties

Hui Li, Frank V. Bright, Bing Gong, 2012, Nature Communications.

Dynamic Covalent Diblock Copolymers: Instructed Coupling, Micellation and Redox Responsiveness

B. Gong, Yuhong Xu, Yuanqing（张元庆） Zhang, 2014 .

Ultrasensitive liposome-based assay for the quantification of fundamental ion channel properties.

D. Czajkowsky, B. Gong, Zhifeng Shao, 2020, Analytica chimica acta.

Heteroepitaxial streptavidin nanocrystals reveal critical role of proton "fingers" and subsurface atoms in determining adsorbed protein orientation.

Jielin Sun, Zhifeng Shao, Jun Hu, 2012, ACS nano.

Redox-responsive micelles self-assembled from dynamic covalent block copolymers for intracellular drug delivery.

Yuhong Xu, Bing Gong, Zhifeng Shao, 2015, Acta biomaterialia.

Developing the IVIG biomimetic, Hexa-Fc, for drug and vaccine applications

D. Czajkowsky, J. Andersen, M. Colonna, 2015, Scientific Reports.

Robust Acquisition of High Resolution Spatial Transcriptomes from Preserved Tissues with Immunofluorescence Based Laser Capture Microdissection

D. Czajkowsky, Ji Wu, Hua Li, 2021, bioRxiv.

The human IgM pentamer is a mushroom-shaped molecule with a flexural bias

D. Czajkowsky, Zhifeng Shao, 2009, Proceedings of the National Academy of Sciences.

The non-coding RNA composition of the mitotic chromosome by 5′-tag sequencing

D. Czajkowsky, L. Bai, Zhifeng Shao, 2016, Nucleic acids research.

Time‐resolved transcriptomics of mouse gastric pit cells during postnatal development reveals features distinct from whole stomach development

D. Czajkowsky, Miaomiao Hu, Zhifeng Shao, 2022, FEBS letters.

Integrative epigenomic analysis reveals unique epigenetic signatures involved in unipotency of mouse female germline stem cells

Chee-Hong Wong, C. Ngan, Jian Wang, 2016, Genome Biology.

High-resolution single-cell 3D-models of chromatin ensembles during Drosophila embryogenesis

Jie Liang, D. Czajkowsky, Zhifeng Shao, 2021, Nature Communications.

Reductive triblock copolymer micelles with a dynamic covalent linkage deliver antimiR-21 for gastric cancer therapy

Bing Gong, Zhifeng Shao, B. Gong, 2016 .

A system level analysis of gastric cancer across tumor stages with RNA-seq data.

Zhifeng Shao, Jun Wu, Zongli Lin, 2015, Molecular bioSystems.

Genome-wide transcriptional profiling analysis reveals annexin A6 as a novel EZH2 target gene involving gastric cellular proliferation.

Xiaodong Zhao, Hua Li, Zhifeng Shao, 2015, Molecular bioSystems.

Wdr47 Controls Neuronal Polarization through the Camsap Family Microtubule Minus-End-Binding Proteins.

Xiumin Yan, Zhifeng Shao, Xiaowei Li, 2020, Cell reports.

Complex clonal mosaicism within microdissected intestinal metaplastic glands without concurrent gastric cancer

D. Czajkowsky, J. Gu, Zhifeng Shao, 2016, Journal of Medical Genetics.

Spatially defined microsatellite analysis reveals extensive genetic mosaicism and clonal complexity in intestinal metaplastic glands

Xiaodong Zhao, Zhenggang Zhu, Zhifeng Shao, 2015, International journal of cancer.

Polymeric human Fc-fusion proteins with modified effector functions

Jianfeng He, Inger Sandlie, Jan Terje Andersen, 2011, Scientific reports.

Epithelial Cells in 2D and 3D Cultures Exhibit Large Differences in Higher-order Genomic Interactions

D. Czajkowsky, Zhifeng Shao, Xuecheng Chen, 2021, Genom. Proteom. Bioinform..

Cell cycle-dependent nucleosome occupancy at cohesin binding sites in yeast chromosomes.

D. Czajkowsky, S. Liang, Zhifeng Shao, 2008, Genomics.

Temporal Analysis Reveals the Transient Differential Expression of Transcription Factors That Underlie the Trans-Differentiation of Human Monocytes to Macrophages

D. Czajkowsky, Ying Tang, Zhifeng Shao, 2022, International journal of molecular sciences.

Microdissection of spatially identified single nuclei in a solid tumor for single cell whole genome sequencing.

D. Czajkowsky, Zhifeng Shao, Juan Zhou, 2012, BioTechniques.

Monocytic THP-1 cells diverge significantly from their primary counterparts: a comparative examination of the chromosomal conformations and transcriptomes

D. Czajkowsky, Hua Li, Zhifeng Shao, 2021, Hereditas.

Massive reorganization of the genome during primary monocyte differentiation into macrophage.

D. Czajkowsky, Hua Li, Zhifeng Shao, 2020, Acta biochimica et biophysica Sinica.

Genome-wide profiling of polyadenylation sites reveals a link between selective polyadenylation and cancer metastasis.

H. Ooi, Xiaodong Zhao, T. Zhu, 2015, Human molecular genetics.

Identification of Serum Biomarkers for Gastric Cancer Diagnosis Using a Human Proteome Microarray*

Heng Zhu, Zhenggang Zhu, Zhifeng Shao, 2015, Molecular & Cellular Proteomics.

DNA combing reveals intrinsic temporal disorder in the replication of yeast chromosome VI.

Zhifeng Shao, D. Czajkowsky, J. Hamlin, 2008, Journal of molecular biology.

Optimizing hybrid assembly of next-generation sequence data from Enterococcus faecium: a microbe with highly divergent genome

Xuan Li, Yajun Wang, Yao Yu, 2012, BMC Systems Biology.

Evidence for heightened genetic instability in precancerous spasmolytic polypeptide expressing gastric glands

D. Czajkowsky, Zhifeng Shao, Chaojie Wang, 2019, Journal of Medical Genetics.

Epigenetic Profiling of H3K4Me3 Reveals Herbal Medicine Jinfukang-Induced Epigenetic Alteration Is Involved in Anti-Lung Cancer Activity

Xiaodong Zhao, Zhifeng Shao, Jun Wu, 2016, Evidence-based complementary and alternative medicine : eCAM.

Robust Acquisition of Spatial Transcriptional Programs in Tissues With Immunofluorescence-Guided Laser Capture Microdissection

D. Czajkowsky, Miaomiao Hu, Zhifeng Shao, 2022, Frontiers in Cell and Developmental Biology.

An effective differential expression analysis of deep-sequencing data based on the Poisson log-normal model

Jun Wu, Zongli Lin, Xiaodong Zhao, 2015, J. Bioinform. Comput. Biol..

Illuminated up close: near-field optical microscopy of cell surfaces.

D. Czajkowsky, Zhifeng Shao, Jielin Sun, 2015, Nanomedicine : nanotechnology, biology, and medicine.

Mercury arc lamp based super-resolution imaging with conventional fluorescence microscopes.

Zhifeng Shao, Xiaowei Li, Jielin Sun, 2014, Micron.

Structural Biology with Cryo-AFMs and Computational Modeling

D. Czajkowsky, Jun Hu, Zhifeng Shao, 2016 .

Selective translational usage of TSS and core promoters revealed by translatome sequencing

Jielin Sun, Hong-mei Li, L. Bai, 2019, BMC Genomics.

Enhanced PCR amplification of GC-rich DNA templates by gold nanoparticles.

Zhifeng Shao, Jielin Sun, Wenchao Yang, 2013, ACS applied materials & interfaces.

Three‐Dimensional Quantitative Imaging of Native Microbiota Distribution in the Gut

D. Czajkowsky, C. Yang, Zhifeng Shao, 2020, Angewandte Chemie.

Three-dimensional Quantitative Imaging of Native Microbiota Distribution in the Gut.

D. Czajkowsky, C. Yang, Wei Wang, 2020, Angewandte Chemie.

Redox-responsive flower-like micelles of poly(l-lactic acid)-b-poly(ethylene glycol)-b-poly(l-lactic acid) for intracellular drug delivery

Bing Gong, Zhifeng Shao, B. Gong, 2016 .

IgM, FcμRs, and Malarial Immune Evasion

D. Czajkowsky, Zhifeng Shao, R. Pleass, 2010, The Journal of Immunology.

EvasionFcµRs, and Malarial Immune

D. Czajkowsky, Zhifeng Shao, R. Pleass, 2010 .

Helicobacter pylori CagA induces tumor suppressor gene hypermethylation by upregulating DNMT1 via AKT-NFκB pathway in gastric cancer development

Wei Zhao, Xiaodong Zhao, Zhifeng Shao, 2016, Oncotarget.

Anomalous Surface Fatigue in a Nano‐Layered Material

D. Czajkowsky, Jun Hu, Zhifeng Shao, 2014, Advanced materials.

Nanomechanical Induction of Autophagy‐Related Fluorescence in Single Cells with Atomic Force Microscopy

Jiye Shi, C. Fan, Lihua Wang, 2021, Advanced science.

Chitosan-based core-shell nanomaterials for pH-triggered release of anticancer drug and near-infrared bioimaging.

Zhifeng Shao, Yu-Mei（沈玉梅） Shen, L. Tan, 2017, Carbohydrate polymers.

Single molecule atomic force microscopy of aerolysin pore complexes reveals unexpected star‐shaped topography

D. Czajkowsky, Jun Hu, Zhifeng Shao, 2016, Journal of molecular recognition : JMR.

Single molecule compression reveals intra-protein forces drive cytotoxin pore formation

D. Czajkowsky, Zhifeng Shao, Yi Shen, 2015, eLife.

Novel experimental strategy for high resolution AFM imaging of membrane-associated bacterial toxins

D. Czajkowsky, Zhifeng Shao, Yi Shen, 2014 .

Novel experimental strategy for high resolution AFM imaging of membrane-associated bacterial toxins

D. Czajkowsky, Zhifeng Shao, Yi Shen, 2014, Journal of Shanghai Jiaotong University (Science).

Monomer-Monomer Interactions Drive the Prepore to Pore Conversion of a β-Barrel-forming Cholesterol-dependent Cytolysin*

D. Czajkowsky, R. Tweten, Zhifeng Shao, 2002, The Journal of Biological Chemistry.

Supported lipid bilayers as effective substrates for atomic force microscopy.

D. Czajkowsky, Zhifeng Shao, 2002, Methods in cell biology.

Development of a low-noise cryogenic atomic force microscope for high resolution imaging of large biological complexes.

D. Czajkowsky, Zhifeng Shao, Jielin Sun, 2016, Acta biochimica et biophysica Sinica.

Enhancing the effectiveness of fungicides by optimizing their combinations

Jie Chen, Zongli Lin, Xiang Wang, 2014, The 26th Chinese Control and Decision Conference (2014 CCDC).

Molecular threading and tunable molecular recognition on DNA origami nanostructures.

Chunhai Fan, Bin Li, Jun Hu, 2013, Journal of the American Chemical Society.

Large scale gene regulatory network inference with a multi-level strategy.

Zongli Lin, Jun Wu, Xiaodong Zhao, 2016, Molecular bioSystems.

abLIM1 constructs non-erythroid cortical actin networks to prevent mechanical tension-induced blebbing

D. Czajkowsky, Zhifeng Shao, Jingli Cao, 2018, Cell Discovery.

Activation of AIFM2 enhances apoptosis of human lung cancer cells undergoing toxicological stress.

M. Cheng, Xiaodong Zhao, Zhifeng Shao, 2016, Toxicology letters.

Localizing Ion Channels with Scanning Probe Microscopes: A Perspective

D. Czajkowsky, Zhifeng Shao, 2001 .

Nanoscopic characterization of the water vapor-salt interfacial layer reveals a unique biphasic adsorption process

D. Czajkowsky, Zhifeng Shao, Xiaowei Li, 2016, Scientific Reports.

Controlling Water Flow through a Synthetic Nanopore with Permeable Cations

D. Czajkowsky, C. Fan, B. Gong, 2021, ACS central science.

Quasi-equilibrium state based quantification of biological macromolecules in single-molecule localization microscopy

D. Czajkowsky, Zhifeng Shao, Xuecheng Chen, 2023, bioRxiv.

Atomic force microscopy-based single-molecule force spectroscopy detects DNA base mismatches.

D. Czajkowsky, Junhong Lü, Jun Hu, 2019, Nanoscale.

Single-Molecule Micromanipulation and Super-Resolution Imaging Resolve Nanodomains Underlying Chromatin Folding in Mitotic Chromosomes.

D. Czajkowsky, Zhifeng Shao, Xuecheng Chen, 2022, ACS nano.

Monocytic THP-1 cells diverge significantly from their primary counterparts: a comparative examination of the chromosomal conformations and transcriptomes

D. Czajkowsky, Hua Li, Zhifeng Shao, 2021, Hereditas.

Sub-kb Hi-C in D. melanogaster reveals conserved characteristics of TADs between insect and mammalian cells

D. Czajkowsky, Zhifeng Shao, Qi Wang, 2018, Nature Communications.

Hi-C in D . melanogaster reveals conserved characteristics of TADs between insect and mammalian cells

D. Czajkowsky, Zhifeng Shao, Qi Wang, 2017 .

Expansion microscopy with carboxylic trifunctional linkers

D. Czajkowsky, Zhifeng Shao, Xuecheng Chen, 2022, Acta Biochimica et Biophysica Sinica.

Sub-kb Hi-C in D. melanogaster reveals conserved characteristics of TADs between insect and mammalian cells

D. Czajkowsky, Zhifeng Shao, Qi Wang, 2018, Nature Communications.

Ratiometric Raman nanotags enable intraoperative detection of metastatic sentinel lymph node.

Jian Ye, Zhifeng Shao, Xiaowei Li, 2021, Biomaterials.

Persistent Organic Nanopores Amenable to Structural and Functional Tuning.

Fayez Y. Al-mkhaizim, Guoqing Zhang, B. Gong, 2016, Journal of the American Chemical Society.

Highly conducting transmembrane pores formed by aromatic oligoamide macrocycles.

B. Gong, G. Szabó, Zhifeng Shao, 2008, Journal of the American Chemical Society.

3D Segmentation of Mice Gland Based on Ensemble Learning

Xiaowei Li, Min Li, Dongming Yang, 2019, 2019 12th International Congress on Image and Signal Processing, BioMedical Engineering and Informatics (CISP-BMEI).

Redox-responsive micelles self-assembled from dynamic covalent block copolymers for intracellular drug delivery.

B. Gong, Yuhong Xu, Yu-mei Shen, 2015, Acta biomaterialia.

Single molecule atomic force microscopy of aerolysin pore complexes reveals unexpected star‐shaped topography

D. Czajkowsky, Jun Hu, Zhifeng Shao, 2016, Journal of molecular recognition : JMR.

Q-Nuc: a bioinformatics pipeline for the quantitative analysis of nucleosomal profiles

Jie Liang, Yuan Wang, Zhifeng Shao, 2019, Interdisciplinary Sciences: Computational Life Sciences.

Identification of Serum Biomarkers for Gastric Cancer Diagnosis Using a Human Proteome Microarray*

Zhenggang Zhu, Zhifeng Shao, Shu-juan Guo, 2015, Molecular & Cellular Proteomics.

STAT3 is required for proliferation and exhibits a cell type-specific binding preference in mouse female germline stem cells.

Jielin Sun, Ji Wu, Xiaodong Zhao, 2018, Molecular omics.

Significant improvement in data quality with simplified SCRB-seq.

D. Czajkowsky, Hua Li, Zhifeng Shao, 2020, Acta biochimica et biophysica Sinica.

Microdissection of spatially identified single nuclei in a solid tumor for single cell whole genome sequencing.

D. Czajkowsky, Zhifeng Shao, Juan Zhou, 2012, BioTechniques.