2019年发表论文

 

Network Clustering Analysis Using Mixture Exponential-Family Random Graph Models and Its Application in Genetic Interaction Data.

Wang, Y.S., et al. .

IEEE-Acm Transactions on Computational Biology and Bioinformatics, 2019. 16(5): p. 1743-1752 . [Html]

 

How calcium ion binding induces the conformational transition of the calmodulin N-terminal domain-an atomic level characterization.

Zhao, L.K., L.H. Lai, and Z.Q. Zhang .

Physical Chemistry Chemical Physics, 2019. 21(36): p. 19795-19804 . [Html]

 

Network Topologies That Can Achieve Dual Function of Adaptation and Noise Attenuation.

Qiao, L., et al. .

Cell Syst, 2019. 9(3): p. 271-285 e7 . [Html]

 

Discrimination of indoor versus outdoor environmental state with machine learning algorithms in myopia observational studies.

Ye, B., et al. .

J Transl Med, 2019. 17(1): p. 314 . [Html]

 

CCDC74A/B are K-fiber crosslinkers required for chromosomal alignment.

Zhou, H., et al. .

BMC Biol, 2019. 17(1): p. 73 . [Html]

 

Defining the influence of Rad51 and Dmc1 lineage-specific amino acids on genetic recombination.

Steinfeld, J.B., et al. .

Genes Dev, 2019. 33(17-18): p. 1191-1207 . [Html]

 

Predicting protein inter-residue contacts using composite likelihood maximization and deep learning.

Zhang, H., et al. .

BMC Bioinformatics, 2019. 20(1): p. 537 . [Html]

 

Cell Cycle Inhibitor Whi5 Records Environmental Information to Coordinate Growth and Division in Yeast.

Qu, Y., et al. .

Cell Rep, 2019. 29(4): p. 987-994 e5 . [Html]

 

Identification of Cancer-associated metabolic vulnerabilities by modeling multi-objective optimality in metabolism.

Dai, Z., et al. .

Cell Commun Signal, 2019. 17(1): p. 124 . [Html]

 

Expectation pooling: An effective and interpretable pooling method for predicting DNA-protein binding.

Luo, X., et al. .

Bioinformatics, 2019. [Html]

 

Optimal compressed sensing strategies for an array of nonlinear olfactory receptor neurons with and without spontaneous activity.

Qin, S., et al. .

Proc Natl Acad Sci U S A, 2019. 116(41): p. 20286-20295 . [Html]

 

DNA Origami as Scaffolds for Self-Assembly of Lipids and Proteins.

Dong, Y. and Y. Mao .

Chembiochem, 2019. 20(19): p. 2422-2431 . [Html]

 

A Mechanism for Synaptic Copy Between Neural Circuits.

Shao, Y., et al. .

Neural Comput, 2019. 31(10): p. 1964-1984 . [Html]

 

The strand-biased mitochondrial DNA methylome and its regulation by DNMT3A.

Dou, X., et al. .

Genome Res, 2019. 29(10): p. 1622-1634 . [Html]

 

CCDC84 Acetylation Oscillation Regulates Centrosome Duplication by Modulating HsSAS-6 Degradation.

Wang, T.N., et al. .

Cell Rep, 2019. 29(7): p. 2078-+ . [Html]

 

Structure and Dynamics of Cinnamycin-Lipid Complexes: Mechanisms of Selectivity for Phosphatidylethanolamine Lipids.

Vestergaard, M., et al. .

Acs Omega, 2019. 4(20): p. 18889-18899 . [Html]

 

Transition pathways between defect patterns in confined nematic liquid crystals.

Han, Y.C., et al. .

Journal of Computational Physics, 2019. 396: p. 1-11 . [Html]

 

A Novel Noninvasive Program for Staging Liver Fibrosis in Untreated Patients With Chronic Hepatitis B.

Chen, Y., et al. .

Clin Transl Gastroenterol, 2019. 10(5): p. 1-12 . [Html]

 

Microfluidics-Based Enrichment and Whole-Genome Amplification Enable Strain-Level Resolution for Airway Metagenomics.

Shi, X., et al. .

mSystems, 2019. 4(4). [Html]

 

Efficient ligand discovery from natural herbs by integrating virtual screening, affinity mass spectrometry and targeted metabolomics.

Wang, Z.H., et al. .

Analyst, 2019. 144(9): p. 2881-2890 . [Html]

 

Lipid Bilayer Composition Influences the Activity of the Antimicrobial Peptide Dermcidin Channel.

Song, C., B.L. de Groot, and M.S.P. Sansom .

Biophys J, 2019. 116(9): p. 1658-1666 . [Html]

 

Transcriptomics data of 11 species of yeast identically grown in rich media and oxidative stress conditions.

Blevins, W.R., L.B. Carey, and M.M. Alba .

BMC Res Notes, 2019. 12(1): p. 250 . [Html]

 

Mechanosensory circuits coordinate two opposing motor actions in Drosophila feeding.

Zhou, Y., et al. .

Sci Adv, 2019. 5(5): p. eaaw5141 . [Html]

 

Expanding the phenotypic and genetic spectrum of Chinese patients with congenital absence of vas deferens bearing CFTR and ADGRG2 alleles.

Yuan, P., et al. .

Andrology, 2019. 7(3): p. 329-340 . [Html]

 

Growth strategy of microbes on mixed carbon sources.

Wang, X., et al. .

Nat Commun, 2019. 10. [Html]


 

Fluctuation correlations as major determinants of structure- and dynamics-driven allosteric effects.

Yu, M., et al. .

Physical Chemistry Chemical Physics, 2019. 21(9): p. 5200-5214 . [Html]

 

ATL3 Is a Tubular ER-Phagy Receptor for GABARAP-Mediated Selective Autophagy.

Chen, Q.Z., et al. .

Current Biology, 2019. 29(5): p. 846-+ . [Html]

 

Protein dynamic analysis of the budding yeast sporulation process at the single-cell level in an air-enriched microfluidic device.

Zhao, X., C.X. Luo, and H.L. Wang .

Integrative Biology, 2019. 11(3): p. 79-86 . [Html]

 

Deep learning for molecular generation.

Xu, Y., et al. .

Future Med Chem, 2019. 11(6): p. 567-597 . [Html]

 

Systematically investigating the key features of the DNase deactivated Cpf1 for tunable transcription regulation in prokaryotic cells.

Miao, C.S., et al. .

Synthetic and Systems Biotechnology, 2019. 4(1): p. 1-9 . [Html]

 

Visualization of Genomic Loci in Living Cells with BiFC-TALE.

Hu, H., X. Yang, and C. Tang .

Curr Protoc Cell Biol, 2019. 82(1): p. e78 . [Html]

 

Legionella effector SetA as a general O-glucosyltransferase for eukaryotic proteins.

Gao, L., et al. .

Nat Chem Biol, 2019. 15(3): p. 213-216 . [Html]

 

Investigating targets for neuropharmacological intervention by molecular dynamics simulations.

Rossetti, G., et al. .

Biochemical Society Transactions, 2019. 47: p. 909-918 . [Html]

 

PPR-Meta: a tool for identifying phages and plasmids from metagenomic fragments using deep learning.

Fang, Z., et al. .

Gigascience, 2019. 8(6). [Html]

 

Computational design and optimization of novel d-peptide TNFalpha inhibitors.

Yang, W., et al. .

FEBS Lett, 2019. 593(12): p. 1292-1302 . [Html]

 

Structural mechanism for NEK7-licensed activation of NLRP3 inflammasome.

Sharif, H., et al. .

Nature, 2019. 570(7761): p. 338-343 . [Html]

 

Sequencing of the MHC region defines HLA-DQA1 as the major genetic risk for seropositive rheumatoid arthritis in Han Chinese population.

Guo, J., et al. .

Ann Rheum Dis, 2019. 78(6): p. 773-780 . [Html]

 

Extensive post-transcriptional buffering of gene expression in the response to severe oxidative stress in baker's yeast.

Blevins, W.R., et al. .

Sci Rep, 2019. 9(1): p. 11005 . [Html]

 

Empirical mean-noise fitness landscapes reveal the fitness impact of gene expression noise.

Schmiedel, J.M., L.B. Carey, and B. Lehner .

Nat Commun, 2019. 10(1): p. 3180 . [Html]

 

DIPK2A promotes STX17-and VAMP7-mediated autophagosome-lysosome fusion by binding to VAMP7B.

Tian, X.Y., et al. .

Autophagy, 2019. [Html]

 

Detecting virus integration sites based on multiple related sequencing data by VirTect.

Xia, Y., et al. .

BMC Med Genomics, 2019. 12(Suppl 1): p. 19 . [Html]

 

Single cell functional genomics reveals the importance of mitochondria in cell-to-cell phenotypic variation.

Dhar, R., et al. .

Elife, 2019. 8. [Html]


 

Constructing network topologies for multiple signal-encoding functions.

Wu, L., H. Wang, and Q. Ouyang .

BMC Syst Biol, 2019. 13(1): p. 6 . [Html]

 

Novel Allosteric Activators for Ferroptosis Regulator Glutathione Peroxidase 4.

Li, C., et al. .

Journal of Medicinal Chemistry, 2019. 62(1): p. 266-275 . [Html]

 

Bi-functional biochemical networks.

Zhang, M.Y. and C. Tang .

Physical Biology, 2019. 16(1). [Html]


 

Targeting intrinsically disordered proteins at the edge of chaos.

Ruan, H., et al. .

Drug Discovery Today, 2019. 24(1): p. 217-227 . [Html]

 

Cryo-EM structures and dynamics of substrate-engaged human 26S proteasome.

Dong, Y., et al. .

Nature, 2019. 565(7737): p. 49-55 . [Html]

 

Development of a New Calcium Ion Model for Simulating Biomolecules.

Zhang, A.H., et al. .

Biophysical Journal, 2019. 116(3): p. 145a-145a . [Html]

 

Computational Study on the Regulation of Fam20C by Fam20A.

Yu, H., et al. .

Biophysical Journal, 2019. 116(3): p. 343a-343a . [Html]

 

Escape band in Escherichia coli chemotaxis in opposing attractant and nutrient gradients.

Zhang, X., et al. .

Proc Natl Acad Sci U S A, 2019. 116(6): p. 2253-2258 . [Html]

 

Clinical characteristic and fecal microbiota responses to probiotic or antidepressant in patients with diarrhea-predominant irritable bowel syndrome with depression comorbidity: a pilot study.

Zhang, L., et al. .

Chin Med J (Engl), 2019. 132(3): p. 346-351 . [Html]

 

Fabrication and application of nanoporous polymer ion-track membranes.

Liu, F., et al. .

Nanotechnology, 2019. 30(5). [Html]


 

How Microbes Shape Their Communities? A Microbial Community Model Based on Functional Genes.

Jiang, X., et al. .

Genomics Proteomics Bioinformatics, 2019. 17(1): p. 91-105 . [Html]

 

A Catalog of GAL4 Drivers for Labeling and Manipulating Circadian Clock Neurons in Drosophila melanogaster.

Sekiguchi, M., et al. .

J Biol Rhythms, 2019: p. 748730419895154 . [Html]

 

Why and how the nematode's early embryogenesis can be precise and robust: a mechanical perspective.

Tian, B., et al. .

Phys Biol, 2019. [Html]

 

Pathways connecting two opposed bilayers with a fusion pore: a molecularly-informed phase field approach.

Han, Y., et al. .

Soft Matter, 2019. [Html]

 

Synchronized replication of genes encoding the same protein complex in fast-proliferating cells.

Chen, Y., et al. .

Genome Res, 2019. 29(12): p. 1929-1938 . [Html]

 

Overdosage of Balanced Protein Complexes Reduces Proliferation Rate in Aneuploid Cells.

Chen, Y., et al. .

Cell Syst, 2019. 9(2): p. 129-+ . [Html]

 

Accurate loop calling for 3D genomic data with cLoops.

Cao, Y., et al. .

Bioinformatics, 2019. [Html]

 

Spatial coordination in a mutually beneficial bacterial community enhances its antibiotic resistance.

Li, L.J., et al. .

Communications Biology, 2019. 2. [Html]


 

A novel numerical model for protein sequences analysis based on spherical coordinates and multiple physicochemical properties of amino acids.

Yu, J.F., et al. .

Biopolymers, 2019. 110(8). [Html]


 

Molecular architecture of lineage allocation and tissue organization in early mouse embryo.

Peng, G., et al. .

Nature, 2019. 572(7770): p. 528-532 . [Html]

 

Characteristic dysbiosis of gut microbiota of Chinese patients with diarrhea-predominant irritable bowel syndrome by an insight into the pan-microbiome.

Wang, Z., et al. .

Chin Med J (Engl), 2019. 132(8): p. 889-904 . [Html]

 

Robustness of signal detection in cryo-electron microscopy via a bi-objective-function approach.

Wang, W.L., et al. .

BMC Bioinformatics, 2019. 20(1): p. 169 . [Html]

 

Mechanism of DNA-Induced Phase Separation for Transcriptional Repressor VRN1.

Zhou, H., et al. .

Angew Chem Int Ed Engl, 2019. 58(15): p. 4858-4862 . [Html]

 

A coarse-graining framework for spiking neuronal networks: from strongly-coupled conductance-based integrate-and-fire neurons to augmented systems of ODEs.

Zhang, J., et al. .

J Comput Neurosci, 2019. 46(2): p. 211-232 . [Html]

 

An experimental assay of the interactions of amino acids from orthologous sequences shaping a complex fitness landscape.

Pokusaeva, V.O., et al. .

PLoS Genet, 2019. 15(4): p. e1008079 . [Html]

 

Associating 197Chinese herbal medicine with drug targets and diseases using the similarity ensemble approach.

Gu, S. and L.-H. Lai .

Acta pharmacologica Sinica, 2019. [Html]

 

Correlation Between Allosteric and Orthosteric Sites.

Zhang, W., J. Xie, and L. Lai .

Adv Exp Med Biol, 2019. 1163: p. 89-105 . [Html]

 

Computational Calibration and Correction for Gigapixel Imaging System.

Zhang, J.Z., et al. .

Proceedings of the International Conference on Sensing and Imaging, 2019. 506: p. 293-302 . [Html]

 

Discovery of novel helix binding sites at protein-protein interfaces.

Yang, W., et al. .

Comput Struct Biotechnol J, 2019. 17: p. 1396-1403 . [Html]

 

Deepprune: Learning Efficient and Interpretable Convolutional Networks Through Weight Pruning for Predicting DNA-Protein Binding.

Luo, X., W. Chi, and M. Deng .

Front Genet, 2019. 10: p. 1145 . [Html]