| Year |
Citation |
Score |
| 2024 |
Ye B, Tian W, Wang B, Liang J. CASTpFold: Computed Atlas of Surface Topography of the universe of protein Folds. Nucleic Acids Research. PMID 38783102 DOI: 10.1093/nar/gkae415 |
0.371 |
|
| 2024 |
Ye B, Tian W, Wang B, Liang J. CASTpFold: Computed Atlas of Surface Topography of the universe of protein Folds. Biorxiv : the Preprint Server For Biology. PMID 38766001 DOI: 10.1101/2024.05.04.592496 |
0.371 |
|
| 2023 |
Tian W, Lin M, Tang K, Barse M, Naveed H, Liang J. 3D-BMPP: 3D Beta-Barrel Membrane Protein Predictor. Methods in Molecular Biology (Clifton, N.J.). 2627: 321-328. PMID 36959455 DOI: 10.1007/978-1-0716-2974-1_17 |
0.673 |
|
| 2021 |
Sun Q, Perez-Rathke A, Czajkowsky DM, Shao Z, Liang J. High-resolution single-cell 3D-models of chromatin ensembles during Drosophila embryogenesis. Nature Communications. 12: 205. PMID 33420075 DOI: 10.1038/s41467-020-20490-9 |
0.489 |
|
| 2021 |
Perez-Rathke A, Fahie MAV, Chisholm CM, Chen M, Liang J. Simulation of pH-Dependent, Loop-Based Membrane Protein Gating Using Pretzel. Methods in Molecular Biology (Clifton, N.J.). 2186: 159-169. PMID 32918736 DOI: 10.1007/978-1-0716-0806-7_12 |
0.388 |
|
| 2020 |
Bausewein T, Naveed H, Liang J, Nussberger S. The structure of the TOM core complex in the mitochondrial outer membrane. Biological Chemistry. PMID 32142473 DOI: 10.1515/Hsz-2020-0104 |
0.708 |
|
| 2020 |
Perez-Rathke A, Sun Q, Wang B, Boeva V, Shao Z, Liang J. CHROMATIX: computing the functional landscape of many-body chromatin interactions in transcriptionally active loci from deconvolved single cells. Genome Biology. 21: 13. PMID 31948478 DOI: 10.1186/S13059-019-1904-Z |
0.532 |
|
| 2020 |
Mali S, Perez-Rathke A, Sun Q, Gürsoy G, Liang J. Chromatin Folding under Different Nuclear Confinement Biophysical Journal. 118. DOI: 10.1016/J.Bpj.2019.11.587 |
0.63 |
|
| 2020 |
Perez-Rathke A, Sun Q, Wang B, Boeva V, Shao Z, Liang J. Landscape of Multivalent Chromatin Interactions in Transcriptionally Active LOCI Biophysical Journal. 118. DOI: 10.1016/J.Bpj.2019.11.3003 |
0.479 |
|
| 2020 |
Wang B, Lei X, Tian W, Perez-Rathke A, Tseng YY, Liang J. Atom Contact Profile by Alpha-Shape Improves Prediction of Effects of Missense Variant Biophysical Journal. 118. DOI: 10.1016/J.Bpj.2019.11.2520 |
0.59 |
|
| 2019 |
Lei X, Wang B, Perez-Rathke A, Tian W, Chou CY, Tseng YY, Liang J. Predicting Oncogenic Missense Mutations. ... Ieee-Embs International Conference On Biomedical and Health Informatics. Ieee-Embs International Conference On Biomedical and Health Informatics. 2019. PMID 35261984 DOI: 10.1109/bhi.2019.8834553 |
0.588 |
|
| 2019 |
Wang Y, Sun Q, Liang J, Li H, Czajkowsky DM, Shao Z. Q-Nuc: a bioinformatics pipeline for the quantitative analysis of nucleosomal profiles. Interdisciplinary Sciences, Computational Life Sciences. PMID 31845186 DOI: 10.1007/S12539-019-00354-7 |
0.526 |
|
| 2019 |
Tian W, Naveed H, Lin M, Liang J. GeTFEP: A general transfer free energy profile of transmembrane proteins. Protein Science : a Publication of the Protein Society. PMID 31658402 DOI: 10.1002/Pro.3763 |
0.694 |
|
| 2019 |
Wang X, Tian W, Banh BT, Statler BM, Liang J, Stone DE. Mating yeast cells use an intrinsic polarity site to assemble a pheromone-gradient tracking machine. The Journal of Cell Biology. PMID 31570500 DOI: 10.1083/Jcb.201901155 |
0.324 |
|
| 2019 |
Sun Q, Perez-Rathke A, Czajkowsky D, Shao Z, Liang J. Uncovering a Novel Folding Landscape of the Drosophila Genome Through Hi-C Normalization via Fractal Monte Carlo Deep Sampling Biophysical Journal. 116: 69a. DOI: 10.1016/J.Bpj.2018.11.415 |
0.483 |
|
| 2019 |
Mali S, Perez-Rathke A, Sun Q, Gursoy G, Liang J. Roles of Nuclear Confinement, Excluded Volume, and Persistence on TAD Formations, Chromosome Territories, and Chromatin-Nuclear Envelope Interactions Biophysical Journal. 116. DOI: 10.1016/J.Bpj.2018.11.3018 |
0.632 |
|
| 2019 |
Wang B, Lei X, Tian W, Perez-Rathke A, Tseng Y, Liang J. Structure-Based Method for Predicting Deleterious Missense SNPs Biophysical Journal. 116. DOI: 10.1016/J.Bpj.2018.11.2280 |
0.622 |
|
| 2019 |
Lei X, Tian W, Perez-Rathke A, Wang B, Chou C, Tseng J, Liang J. Predicting Candidate Onco-Genesis Mutations and Cooperative Units from Computed Protein Surface Pockets Biophysical Journal. 116. DOI: 10.1016/J.Bpj.2018.11.2273 |
0.325 |
|
| 2018 |
Wang B, Perez-Rathke A, Li R, Liang J. A General Method for Predicting Amino Acid Residues Experiencing Hydrogen Exchange. ... Ieee-Embs International Conference On Biomedical and Health Informatics. Ieee-Embs International Conference On Biomedical and Health Informatics. 2018: 341-344. PMID 29780972 DOI: 10.1109/BHI.2018.8333438 |
0.475 |
|
| 2018 |
Yang Y, Guo R, Gaffney K, Kim M, Muhammednazaar S, Tian W, Wang B, Liang J, Hong H. Folding-Degradation Relationship of a Membrane Protein Mediated by the Universally Conserved ATP-dependent Protease FtsH. Journal of the American Chemical Society. PMID 29528632 DOI: 10.1021/Jacs.8B00832 |
0.395 |
|
| 2018 |
Tian W, Lin M, Tang K, Liang J, Naveed H. High-resolution structure prediction of β-barrel membrane proteins. Proceedings of the National Academy of Sciences of the United States of America. PMID 29378944 DOI: 10.1073/Pnas.1716817115 |
0.696 |
|
| 2017 |
Perez-Rathke A, Fahie MAV, Chisholm C, Liang J, Chen M. Mechanism of OmpG pH-dependent gating from loop ensemble and single channel studies. Journal of the American Chemical Society. PMID 29262680 DOI: 10.1021/Jacs.7B11979 |
0.38 |
|
| 2017 |
Tian W, Lei X, Kauffman LH, Liang J. A Knot Polynomial Invariant for Analysis of Topology of RNA Stems and Protein Disulfide Bonds. Molecular Based Mathematical Biology (Online). 5: 21-30. PMID 29201869 DOI: 10.1515/Mlbmb-2017-0002 |
0.301 |
|
| 2017 |
Gürsoy G, Xu Y, Kenter AL, Liang J. Computational construction of 3D chromatin ensembles and prediction of functional interactions of alpha-globin locus from 5C data. Nucleic Acids Research. PMID 28981716 DOI: 10.1093/Nar/Gkx784 |
0.672 |
|
| 2017 |
Gürsoy G, Xu Y, Liang J. Spatial organization of the budding yeast genome in the cell nucleus and identification of specific chromatin interactions from multi-chromosome constrained chromatin model. Plos Computational Biology. 13: e1005658. PMID 28704374 DOI: 10.1371/Journal.Pcbi.1005658 |
0.656 |
|
| 2017 |
Lin M, Zhang G, Fahie M, Morgan LK, Chen M, Keiderling TA, Kenney LJ, Liang J. Engineering a Novel Porin OmpGF via Strand Replacement From Computational Analysis of Sequence Motif. Biochimica Et Biophysica Acta. PMID 28341438 DOI: 10.1016/J.Bbamem.2017.03.012 |
0.36 |
|
| 2017 |
Tian W, Lin M, Naveed H, Liang J. Efficient computation of transfer free energies of amino acids in beta-barrel membrane proteins. Bioinformatics (Oxford, England). PMID 28158457 DOI: 10.1093/Bioinformatics/Btx053 |
0.691 |
|
| 2017 |
Tian W, Naveed H, Liang J. Improving 3D Structure Prediction of Beta-Barrel Membrane Proteins Biophysical Journal. 112: 55a. DOI: 10.1016/J.Bpj.2016.11.333 |
0.708 |
|
| 2016 |
Giirsoy G, Terebus A, Cao Y, Liang J, Gursoy G, Terebus A, Youfang Cao, Jie Liang, Gursoy G, Cao Y, Terebus A, Liang J. Mechanisms of stochastic focusing and defocusing in biological reaction networks: insight from accurate chemical master equation (ACME) solutions. Conference Proceedings : ... Annual International Conference of the Ieee Engineering in Medicine and Biology Society. Ieee Engineering in Medicine and Biology Society. Annual Conference. 2016: 1480-1483. PMID 28226785 DOI: 10.1109/EMBC.2016.7590989 |
0.595 |
|
| 2016 |
Tang K, Zhang J, Liang J. Distance-Guided Forward and Backward Chain-Growth Monte Carlo Method for Conformational Sampling and Structural Prediction of Antibody CDR-H3 Loops. Journal of Chemical Theory and Computation. PMID 27996262 DOI: 10.1021/Acs.Jctc.6B00845 |
0.44 |
|
| 2016 |
Gürsoy G, Liang J. Three-dimensional chromosome structures from energy landscape. Proceedings of the National Academy of Sciences of the United States of America. 113: 11991-11993. PMID 27790979 DOI: 10.1073/Pnas.1614535113 |
0.672 |
|
| 2016 |
Im W, Liang J, Olson A, Zhou HX, Vajda S, Vakser IA. Challenges in structural approaches to cell modeling. Journal of Molecular Biology. PMID 27255863 DOI: 10.1016/J.Jmb.2016.05.024 |
0.385 |
|
| 2016 |
Lin M, Gessmann D, Naveed H, Liang J. Outer membrane protein folding and topology from a computational transfer free energy scale. Journal of the American Chemical Society. PMID 26860422 DOI: 10.1021/Jacs.5B10307 |
0.687 |
|
| 2016 |
Gürsoy G, Xu Y, Liang J. The NC-SAC: Computational Pipeline for Predicting Structures of 3D Chromatin Chains from Experimental Data: Origin of Scaling Properties, Emergence of Chromosome Territories and Discovery of Novel Loci Interactions Associated with Differential Gene Expression Biophysical Journal. 110. DOI: 10.1016/J.Bpj.2015.11.423 |
0.684 |
|
| 2016 |
Perez-Rathke A, Chisholm C, Chen M, Liang J. Computational Models of Interacting Loop Regions in pH-Dependent Gating of OmpG Biophysical Journal. 110. DOI: 10.1016/J.Bpj.2015.11.380 |
0.33 |
|
| 2016 |
Tian W, Liang J, Naveed H. Improved 3D Structure Prediction of Beta-Barrel Membrane Proteins by using Evolutionary Coupling Constraints, Reduced State Space and an Empirical Potential Function Biophysical Journal. 110: 56a. DOI: 10.1016/J.Bpj.2015.11.370 |
0.721 |
|
| 2016 |
Gürsoy G, Terebus A, Cao Y, Liang J. Stochastic Focusing and Defocusing in Biological Reaction Networks: Lessons Learned from Accurate Chemical Master Equation (ACME) Solutions Biophysical Journal. 110. DOI: 10.1016/J.Bpj.2015.11.1695 |
0.626 |
|
| 2015 |
Liang J, Cao Y, Gursoy G, Naveed H, Terebus A, Zhao J. Multiscale Modeling of Cellular Epigenetic States: Stochasticity in Molecular Networks, Chromatin Folding in Cell Nuclei, and Tissue Pattern Formation of Cells. Critical Reviews in Biomedical Engineering. 43: 323-46. PMID 27480462 DOI: 10.1615/Critrevbiomedeng.2016016559 |
0.765 |
|
| 2015 |
Camp SM, Ceco E, Evenoski CL, Danilov SM, Zhou T, Chiang ET, Moreno-Vinasco L, Mapes B, Zhao J, Gursoy G, Brown ME, Adyshev DM, Siddiqui SS, Quijada H, Sammani S, ... ... Liang J, et al. Unique Toll-Like Receptor 4 Activation by NAMPT/PBEF Induces NFκB Signaling and Inflammatory Lung Injury. Scientific Reports. 5: 13135. PMID 26272519 DOI: 10.1038/Srep13135 |
0.635 |
|
| 2015 |
Zhang J, Liu Z, Liang J, Wu J, Cheng F, Wang X. Three genes encoding AOP2, a protein involved in aliphatic glucosinolate biosynthesis, are differentially expressed in Brassica rapa. Journal of Experimental Botany. PMID 26188204 DOI: 10.1093/Jxb/Erv331 |
0.368 |
|
| 2015 |
Wang HL, Fan SS, Pang M, Liu YH, Guo M, Liang JB, Zhang JL, Yu BF, Guo R, Xie J, Zheng GP. The Ankyrin Repeat Domain 49 (ANKRD49) Augments Autophagy of Serum-Starved GC-1 Cells through the NF-κB Pathway. Plos One. 10: e0128551. PMID 26043108 DOI: 10.1371/journal.pone.0128551 |
0.306 |
|
| 2015 |
Kachalo S, Naveed H, Cao Y, Zhao J, Liang J. Mechanical model of geometric cell and topological algorithm for cell dynamics from single-cell to formation of monolayered tissues with pattern. Plos One. 10: e0126484. PMID 25974182 DOI: 10.1371/Journal.Pone.0126484 |
0.628 |
|
| 2015 |
Tang K, Wong SW, Liu JS, Zhang J, Liang J. Conformational sampling and structure prediction of multiple interacting loops in soluble and β-barrel membrane proteins using multi-loop distance-guided chain-growth Monte Carlo method. Bioinformatics (Oxford, England). PMID 25861965 DOI: 10.1093/Bioinformatics/Btv198 |
0.527 |
|
| 2015 |
Estrada Mallarino L, Fan E, Odermatt M, Müller M, Lin M, Liang J, Heinzelmann M, Fritsche F, Apell HJ, Welte W. TtOmp85, a β-barrel assembly protein, functions by barrel augmentation. Biochemistry. 54: 844-52. PMID 25537637 DOI: 10.1021/Bi5011305 |
0.376 |
|
| 2015 |
Gürsoy G, Xu Y, Liang J. Effect of Architecture of Cell Nucleus on the Folding Principles of 3D Genome of Budding Yeast Biophysical Journal. 108: 538. DOI: 10.1016/J.Bpj.2014.11.2953 |
0.664 |
|
| 2014 |
Gürsoy G, Xu Y, Liang J. Computational predictions of structures of multichromosomes of budding yeast. Conference Proceedings : ... Annual International Conference of the Ieee Engineering in Medicine and Biology Society. Ieee Engineering in Medicine and Biology Society. Annual Conference. 2014: 3945-8. PMID 25570855 DOI: 10.1109/EMBC.2014.6944487 |
0.642 |
|
| 2014 |
Xu Y, Hu C, Dai Y, Liang J. On simplified global nonlinear function for fitness landscape: a case study of inverse protein folding. Plos One. 9: e104403. PMID 25110986 DOI: 10.1371/Journal.Pone.0104403 |
0.411 |
|
| 2014 |
Gürsoy G, Xu Y, Kenter AL, Liang J. Spatial confinement is a major determinant of the folding landscape of human chromosomes. Nucleic Acids Research. 42: 8223-30. PMID 24990374 DOI: 10.1093/Nar/Gku462 |
0.654 |
|
| 2014 |
Tang K, Zhang J, Liang J. Fast protein loop sampling and structure prediction using distance-guided sequential chain-growth Monte Carlo method. Plos Computational Biology. 10: e1003539. PMID 24763317 DOI: 10.1371/Journal.Pcbi.1003539 |
0.498 |
|
| 2014 |
Li Y, Naveed H, Kachalo S, Xu LX, Liang J. Mechanisms of regulating tissue elongation in Drosophila wing: impact of oriented cell divisions, oriented mechanical forces, and reduced cell size. Plos One. 9: e86725. PMID 24504016 DOI: 10.1371/Journal.Pone.0086725 |
0.612 |
|
| 2014 |
Jimenez-Morales D, Adamian L, Shi D, Liang J. Lysine carboxylation: unveiling a spontaneous post-translational modification. Acta Crystallographica. Section D, Biological Crystallography. 70: 48-57. PMID 24419378 DOI: 10.1107/S139900471302364X |
0.368 |
|
| 2014 |
Naveed H, Liang J. Weakly stable regions and protein-protein interactions in beta-barrel membrane proteins. Current Pharmaceutical Design. 20: 1268-73. PMID 23713778 DOI: 10.2174/13816128113199990071 |
0.698 |
|
| 2014 |
Gürsoy G, Xu Y, Kenter A, Liang J. Population Properties and Complex Folding Behavior of Chromosome Arise from Spatial Confinement of Self-Avoiding Chromatin Chains Biophysical Journal. 106: 78a. DOI: 10.1016/J.Bpj.2013.11.506 |
0.67 |
|
| 2014 |
Gürsoy G, Xu Y, Kenter A, Liang J. Three-Dimensional Chromatin Model of α-Globin Gene Locus in Differentially Activated States Biophysical Journal. 106: 78a. DOI: 10.1016/J.Bpj.2013.11.505 |
0.678 |
|
| 2014 |
Tang K, Zhang J, Liang J. Conformational Sampling and Structure Prediction of Multi-Loops in Proteins using Distance-Guided Sequential Chain-Growth Monte Carlo Method Biophysical Journal. 106: 53a. DOI: 10.1016/J.Bpj.2013.11.374 |
0.544 |
|
| 2013 |
Cao Y, Naveed H, Liang C, Liang J. Modeling spatial population dynamics of stem cell lineage in wound healing and cancerogenesis. Conference Proceedings : ... Annual International Conference of the Ieee Engineering in Medicine and Biology Society. Ieee Engineering in Medicine and Biology Society. Annual Conference. 2013: 5550-3. PMID 24110994 DOI: 10.1109/EMBC.2013.6610807 |
0.577 |
|
| 2013 |
Zhao J, Naveed H, Kachalo S, Cao Y, Tian W, Liang J. Dynamic mechanical finite element model of biological cells for studying cellular pattern formation. Conference Proceedings : ... Annual International Conference of the Ieee Engineering in Medicine and Biology Society. Ieee Engineering in Medicine and Biology Society. Annual Conference. 2013: 4517-20. PMID 24110738 DOI: 10.1109/EMBC.2013.6610551 |
0.598 |
|
| 2013 |
Gursoy G, Xu Y, Kenter A, Liang J. Population Properties of Self-Avoiding Polymer Chain Models of Chromosomes in a Confined Space of Nucleus Biophysical Journal. 104: 581a. DOI: 10.1016/J.Bpj.2012.11.3229 |
0.66 |
|
| 2013 |
Lin M, Naveed H, Liang J. Statistical Mechanical Model for the Transfer Free Energy of Amino Acids in the Context of Membrane Protein OmpLA Biophysical Journal. 104: 401a. DOI: 10.1016/J.Bpj.2012.11.2236 |
0.679 |
|
| 2012 |
Li Y, Naveed H, Kachalo S, Xu LX, Liang J. Mechanisms of regulating cell topology in proliferating epithelia: impact of division plane, mechanical forces, and cell memory. Plos One. 7: e43108. PMID 22912800 DOI: 10.1371/Journal.Pone.0043108 |
0.618 |
|
| 2012 |
Naveed H, Jimenez-Morales D, Tian J, Pasupuleti V, Kenney LJ, Liang J. Engineered oligomerization state of OmpF protein through computational design decouples oligomer dissociation from unfolding. Journal of Molecular Biology. 419: 89-101. PMID 22391420 DOI: 10.1016/J.Jmb.2012.02.043 |
0.702 |
|
| 2012 |
Naveed H, Xu Y, Jackups R, Liang J. Predicting three-dimensional structures of transmembrane domains of β-barrel membrane proteins. Journal of the American Chemical Society. 134: 1775-81. PMID 22148174 DOI: 10.1021/Ja209895M |
0.804 |
|
| 2012 |
Geula S, Naveed H, Liang J, Shoshan-Barmatz V. Structure-based analysis of VDAC1 protein: defining oligomer contact sites. The Journal of Biological Chemistry. 287: 2179-90. PMID 22117062 DOI: 10.1074/Jbc.M111.268920 |
0.676 |
|
| 2012 |
Liang J, Naveed H, Jimenez-Morales D, Adamian L, Lin M. Computational studies of membrane proteins: models and predictions for biological understanding. Biochimica Et Biophysica Acta. 1818: 927-41. PMID 22051023 DOI: 10.1016/J.Bbamem.2011.09.026 |
0.722 |
|
| 2012 |
Gursoy G, Adamian L, Lu H, Liang J. Predicting Allosteric Pathways for Activation of K+ Channels by Perturbation Based Markovian Transmission Model Biophysical Journal. 102: 686a. DOI: 10.1016/J.Bpj.2011.11.3729 |
0.726 |
|
| 2012 |
Lin M, Naveed H, Liang J. Computational Free Energy Scale of Amino Acid Residues in Membrane Protein from Statistical Mechanics Biophysical Journal. 102: 59a. DOI: 10.1016/J.Bpj.2011.11.349 |
0.68 |
|
| 2012 |
Li Y, Naveed H, Kachalo S, Xu LX, Liang J. On Mechanisms of Regulation of Tissue Elongation in Drosophila Wing Biophysical Journal. 102: 593a. DOI: 10.1016/J.Bpj.2011.11.3234 |
0.611 |
|
| 2012 |
Naveed H, Liang J. TMBB-Explorer: A Webserver to Predict the Structure, Oligomerization State, Ppi Interface, and Thermodynamic Properties of the Transmembrane Domains of Outer Membrane Proteins Biophysical Journal. 102: 469a. DOI: 10.1016/J.Bpj.2011.11.2573 |
0.718 |
|
| 2012 |
Naveed H, Liang J. Engineering Biological Nanopores with Enhanced Properties Biophysical Journal. 102: 188a-189a. DOI: 10.1016/J.Bpj.2011.11.1028 |
0.694 |
|
| 2012 |
Tang K, Zhang J, Liang J. Efficient Protein Loop Generation using Distance-Guided Sequential Monte Carlo Method Biophysical Journal. 102: 185a. DOI: 10.1016/J.Bpj.2011.11.1007 |
0.45 |
|
| 2011 |
Li Y, Naveed H, Kachalo S, Xu LX, Liang J. Mechanical forces mediate localized topological change in epithelia. Conference Proceedings : ... Annual International Conference of the Ieee Engineering in Medicine and Biology Society. Ieee Engineering in Medicine and Biology Society. Annual Conference. 2011: 178-81. PMID 22254279 DOI: 10.1109/IEMBS.2011.6089923 |
0.587 |
|
| 2011 |
Jimenez-Morales D, Liang J. Pattern of Amino Acid Substitutions in Transmembrane Domains of β-Barrel Membrane Proteins for Detecting Remote Homologs in Bacteria and Mitochondria Plos One. 6. PMID 22069449 DOI: 10.1371/Journal.Pone.0026400 |
0.407 |
|
| 2011 |
Gessmann D, Mager F, Naveed H, Arnold T, Weirich S, Linke D, Liang J, Nussberger S. Improving the resistance of a eukaryotic β-barrel protein to thermal and chemical perturbations. Journal of Molecular Biology. 413: 150-61. PMID 21835183 DOI: 10.1016/J.Jmb.2011.07.054 |
0.715 |
|
| 2011 |
Zhao J, Dundas J, Kachalo S, Ouyang Z, Liang J. Accuracy of functional surfaces on comparatively modeled protein structures. Journal of Structural and Functional Genomics. 12: 97-107. PMID 21541664 DOI: 10.1007/S10969-011-9109-Z |
0.758 |
|
| 2011 |
Cui J, Hao J, Ulanovskaya OA, Dundas J, Liang J, Kozmin SA. Creation and manipulation of common functional groups en route to a skeletally diverse chemical library. Proceedings of the National Academy of Sciences of the United States of America. 108: 6763-8. PMID 21383124 DOI: 10.1073/Pnas.1015253108 |
0.675 |
|
| 2011 |
Lin M, Zhang J, Lu HM, Chen R, Liang J. Constrained proper sampling of conformations of transition state ensemble of protein folding. The Journal of Chemical Physics. 134: 075103. PMID 21341875 DOI: 10.1063/1.3519056 |
0.594 |
|
| 2011 |
Adamian L, Naveed H, Liang J. Lipid-binding surfaces of membrane proteins: evidence from evolutionary and structural analysis. Biochimica Et Biophysica Acta. 1808: 1092-102. PMID 21167813 DOI: 10.1016/J.Bbamem.2010.12.008 |
0.688 |
|
| 2011 |
Dundas J, Adamian L, Liang J. Structural signatures of enzyme binding pockets from order-independent surface alignment: a study of metalloendopeptidase and NAD binding proteins. Journal of Molecular Biology. 406: 713-29. PMID 21145898 DOI: 10.1016/J.Jmb.2010.12.005 |
0.729 |
|
| 2011 |
Zhao J, Dundas J, Kachalo S, Ouyang Z, Liang J. Improving Accuracy of Functional Surfaces of Protein Structures Modeled From Sequences Biophysical Journal. 100: 48a. DOI: 10.1016/J.Bpj.2010.12.459 |
0.409 |
|
| 2011 |
Gursoy G, Adamian L, Lu H, Liang J. Effects of Electric Field on Channel Proteins Through Dipole Perturbation and Network of Signal Transmission Biophysical Journal. 100: 567a. DOI: 10.1016/J.Bpj.2010.12.3287 |
0.736 |
|
| 2011 |
Liu LT, Li M, Mowrey D, Lu H, Liang J, Xu Y, Tang P. Anesthetic Modulation of Signal Transduction Pathways in the α4β2 nAchR Revealed by the Perturbation-Based Markovian Transmission Model Biophysical Journal. 100: 548a. DOI: 10.1016/J.Bpj.2010.12.3193 |
0.565 |
|
| 2011 |
Gursoy G, Lu H, Liang J. Predicting Sequence of Events upon Ligand Binding Using PMT Model: A Case Study of Adenylate Kinase Biophysical Journal. 100: 537a. DOI: 10.1016/J.Bpj.2010.12.3134 |
0.753 |
|
| 2011 |
Xu Y, Adamian L, Liang J. Vectorial Network Model (VNM) for Protein Dynamics: An Analytical Tool for Protein Fluctuations Biophysical Journal. 100. DOI: 10.1016/J.Bpj.2010.12.3118 |
0.338 |
|
| 2011 |
Tang K, Zhang J, Liang J. Protein Loop Modeling using Distance-Guided Sequential Monte Carlo Method Biophysical Journal. 100: 215a. DOI: 10.1016/J.Bpj.2010.12.1386 |
0.493 |
|
| 2011 |
Naveed H, Xu Y, Jackups R, Liang J. Intertwined Coil Inspired Modeling of β-Barrel Membrane Protein Structures using Predicted Interstrand Interaction Constraints Biophysical Journal. 100: 206a. DOI: 10.1016/J.Bpj.2010.12.1335 |
0.801 |
|
| 2011 |
Li Y, Naveed H, Kachalo S, Liang J. Topological Properties and Variations of Cells in Proliferating Epithelia: Impact of Mechanical Force and Division Orientation Biophysical Journal. 100: 166a. DOI: 10.1016/J.Bpj.2010.12.1123 |
0.631 |
|
| 2010 |
Naveed H, Li Y, Kachalo S, Liang J. Geometric order in proliferating epithelia: impact of rearrangements and cleavage plane orientation. Conference Proceedings : ... Annual International Conference of the Ieee Engineering in Medicine and Biology Society. Ieee Engineering in Medicine and Biology Society. Annual Conference. 2010: 3808-11. PMID 21097056 DOI: 10.1109/IEMBS.2010.5627601 |
0.599 |
|
| 2010 |
Cao Y, Lu HM, Liang J. Probability landscape of heritable and robust epigenetic state of lysogeny in phage lambda. Proceedings of the National Academy of Sciences of the United States of America. 107: 18445-50. PMID 20937911 DOI: 10.1073/Pnas.1001455107 |
0.553 |
|
| 2010 |
Jackups R, Liang J. Combinatorial analysis for sequence and spatial motif discovery in short sequence fragments. Ieee/Acm Transactions On Computational Biology and Bioinformatics / Ieee, Acm. 7: 524-36. PMID 20671322 DOI: 10.1109/Tcbb.2008.101 |
0.674 |
|
| 2010 |
Zhao J, Kachalo S, Ouyang Z, Liang J. Identification of Functional Surfaces of Proteins from Sequences Biophysical Journal. 98: 760a. DOI: 10.1016/J.Bpj.2009.12.4173 |
0.425 |
|
| 2010 |
Naveed H, Jackups R, Liang J. Accurate Ab Initio Prediction of Three Dimensional Structures of Beta-Barrel Membrane Proteins from Sequences Biophysical Journal. 98: 644a. DOI: 10.1016/J.Bpj.2009.12.3529 |
0.794 |
|
| 2010 |
Xu Y, Hu C, Dai Y, Liang J. Simplified Global Nonlinear Function for Fitness Landscape of Protein Design Biophysical Journal. 98. DOI: 10.1016/J.Bpj.2009.12.3481 |
0.38 |
|
| 2010 |
Adamian LA, Liang J. Evolutionary Conservation of Phospholipid-Binding Sites in Membrane Proteins Biophysical Journal. 98. DOI: 10.1016/J.Bpj.2009.12.284 |
0.428 |
|
| 2010 |
Tang K, Zhang J, Zhang J, Liang J. Accurate Loop Generation of Protein Structures using Distance-Guided Sequential Monte Carlo Sampling Method Biophysical Journal. 98. DOI: 10.1016/J.Bpj.2009.12.2509 |
0.502 |
|
| 2010 |
Lu H, Liang J. Identification of Signal Transmission Pathways in F-Box Proteins Using Perturbation-Based Markovian Transmission (PMT) Model Biophysical Journal. 98: 442a. DOI: 10.1016/J.Bpj.2009.12.2401 |
0.618 |
|
| 2009 |
Zhang J, Dundas J, Lin M, Chen R, Wang W, Liang J. Prediction of geometrically feasible three-dimensional structures of pseudoknotted RNA through free energy estimation. Rna (New York, N.Y.). 15: 2248-63. PMID 19864433 DOI: 10.1261/Rna.1723609 |
0.699 |
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| 2009 |
Lu HM, Liang J. Perturbation-based Markovian transmission model for probing allosteric dynamics of large macromolecular assembling: a study of GroEL-GroES. Plos Computational Biology. 5: e1000526. PMID 19798437 DOI: 10.1371/Journal.Pcbi.1000526 |
0.596 |
|
| 2009 |
Adamian L, Gussin HA, Tseng YY, Muni NJ, Feng F, Qian H, Pepperberg DR, Liang J. Structural model of rho1 GABAC receptor based on evolutionary analysis: Testing of predicted protein-protein interactions involved in receptor assembly and function. Protein Science : a Publication of the Protein Society. 18: 2371-83. PMID 19768800 DOI: 10.1002/Pro.247 |
0.651 |
|
| 2009 |
Naveed H, Jackups R, Liang J. Predicting weakly stable regions, oligomerization state, and protein-protein interfaces in transmembrane domains of outer membrane proteins. Proceedings of the National Academy of Sciences of the United States of America. 106: 12735-40. PMID 19622743 DOI: 10.1073/Pnas.0902169106 |
0.805 |
|
| 2009 |
Ebalunode JO, Dong X, Ouyang Z, Liang J, Eckenhoff RG, Zheng W. Structure-based shape pharmacophore modeling for the discovery of novel anesthetic compounds. Bioorganic & Medicinal Chemistry. 17: 5133-8. PMID 19520579 DOI: 10.1016/J.Bmc.2009.05.060 |
0.348 |
|
| 2009 |
Tseng YY, Dundas J, Liang J. Predicting protein function and binding profile via matching of local evolutionary and geometric surface patterns. Journal of Molecular Biology. 387: 451-64. PMID 19154742 DOI: 10.1016/J.Jmb.2008.12.072 |
0.821 |
|
| 2009 |
Naveed H, Jackups R, Liang J. Predicting Strained Regions for Folding and Protein-Protein Interaction in Bacterial Outer Membranes Biophysical Journal. 96: 339a. DOI: 10.1016/J.Bpj.2008.12.3824 |
0.799 |
|
| 2009 |
Ouyang Z, Liang J, Kachalo S. Inferring Protein-protein Interface From Geometry Of Unbound Structures Biophysical Journal. 96: 598a. DOI: 10.1016/J.Bpj.2008.12.3131 |
0.432 |
|
| 2009 |
Zhang J, Dundas J, Lin M, Chen R, Wang W, Liang J. A New Free Energy Rule Toward Psuedo-knotted RNA Structure Prediction Biophysical Journal. 96: 579a. DOI: 10.1016/J.Bpj.2008.12.3025 |
0.318 |
|
| 2009 |
Lu H, Cao Y, Liang J. A Study of Cro's Role in the Induction of Phage Lambda Switch by Stochastic Probability Landscape Model Biophysical Journal. 96: 306a. DOI: 10.1016/J.Bpj.2008.12.1526 |
0.552 |
|
| 2008 |
Liang J, Tseng YY, Dundas J, Binkowski TA, Joachimiak A, Ouyang Z, Adamian L. Chapter 4. Predicting and characterizing protein functions through matching geometric and evolutionary patterns of binding surfaces. Advances in Protein Chemistry and Structural Biology. 75: 107-41. PMID 20731991 DOI: 10.1016/S0065-3233(07)75004-0 |
0.802 |
|
| 2008 |
Cao Y, Lu HM, Liang J. Stochastic probability landscape model for switching efficiency, robustness, and differential threshold for induction of genetic circuit in phage lambda. Conference Proceedings : ... Annual International Conference of the Ieee Engineering in Medicine and Biology Society. Ieee Engineering in Medicine and Biology Society. Annual Conference. 2008: 611-4. PMID 19162730 DOI: 10.1109/IEMBS.2008.4649227 |
0.49 |
|
| 2008 |
Lin M, Lu HM, Chen R, Liang J. Generating properly weighted ensemble of conformations of proteins from sparse or indirect distance constraints. The Journal of Chemical Physics. 129: 094101. PMID 19044859 DOI: 10.1063/1.2968605 |
0.611 |
|
| 2008 |
Ouyang Z, Liang J. Predicting protein folding rates from geometric contact and amino acid sequence. Protein Science : a Publication of the Protein Society. 17: 1256-63. PMID 18434498 DOI: 10.1110/Ps.034660.108 |
0.406 |
|
| 2008 |
Ebalunode JO, Ouyang Z, Liang J, Zheng W. Novel approach to structure-based pharmacophore search using computational geometry and shape matching techniques. Journal of Chemical Information and Modeling. 48: 889-901. PMID 18396858 DOI: 10.1021/Ci700368P |
0.315 |
|
| 2008 |
Zhang J, Lin M, Chen R, Wang W, Liang J. Discrete state model and accurate estimation of loop entropy of RNA secondary structures. The Journal of Chemical Physics. 128: 125107. PMID 18376982 DOI: 10.1063/1.2895050 |
0.313 |
|
| 2008 |
Lin M, Chen R, Liang J. Statistical geometry of lattice chain polymers with voids of defined shapes: sampling with strong constraints. The Journal of Chemical Physics. 128: 084903. PMID 18315083 DOI: 10.1063/1.2831905 |
0.405 |
|
| 2008 |
Lu HM, Liang J. A model study of protein nascent chain and cotranslational folding using hydrophobic-polar residues. Proteins. 70: 442-9. PMID 17680696 DOI: 10.1002/Prot.21575 |
0.626 |
|
| 2007 |
Lu HM, Liang J. Perturbation-based Markovian Transmission Model for macromolecular machinery in cell. Conference Proceedings : ... Annual International Conference of the Ieee Engineering in Medicine and Biology Society. Ieee Engineering in Medicine and Biology Society. Annual Conference. 2007: 5029-34. PMID 18003136 DOI: 10.1109/IEMBS.2007.4353470 |
0.535 |
|
| 2007 |
Dundas J, Binkowski TA, DasGupta B, Liang J. Topology independent protein structural alignment. Bmc Bioinformatics. 8: 388. PMID 17937816 DOI: 10.1186/1471-2105-8-388 |
0.815 |
|
| 2007 |
Tseng YY, Liang J. Predicting enzyme functional surfaces and locating key residues automatically from structures. Annals of Biomedical Engineering. 35: 1037-42. PMID 17294116 DOI: 10.1007/S10439-006-9241-2 |
0.674 |
|
| 2007 |
Zhang J, Lin M, Chen R, Liang J, Liu JS. Monte Carlo sampling of near-native structures of proteins with applications. Proteins. 66: 61-8. PMID 17039507 DOI: 10.1002/Prot.21203 |
0.535 |
|
| 2007 |
Saidel GM, Liang J. ABME Special Issue: Systems Biology, Bioinformatics, and Computational Biology Annals of Biomedical Engineering. 35: 861-862. DOI: 10.1007/S10439-007-9325-7 |
0.374 |
|
| 2006 |
Tseng YY, Liang J. Automated method for predicting enzyme functional surfaces and locating key residues with accuracy and specificity. Conference Proceedings : ... Annual International Conference of the Ieee Engineering in Medicine and Biology Society. Ieee Engineering in Medicine and Biology Society. Annual Conference. 1: 4552-5. PMID 17947099 DOI: 10.1109/IEMBS.2006.259540 |
0.644 |
|
| 2006 |
Jackups R, Liang J. Combinatorial model for sequence and spatial motif discovery in short sequence fragments: examples from beta-barrel membrane proteins. Conference Proceedings : ... Annual International Conference of the Ieee Engineering in Medicine and Biology Society. Ieee Engineering in Medicine and Biology Society. Annual Conference. 1: 3470-3. PMID 17947032 DOI: 10.1109/IEMBS.2006.259727 |
0.657 |
|
| 2006 |
Jackups R, Cheng S, Liang J. Sequence motifs and antimotifs in beta-barrel membrane proteins from a genome-wide analysis: the Ala-Tyr dichotomy and chaperone binding motifs. Journal of Molecular Biology. 363: 611-23. PMID 16973175 DOI: 10.1016/J.Jmb.2006.07.095 |
0.691 |
|
| 2006 |
Adamian L, Ouyang Z, Tseng YY, Liang J. Evolutionary patterns of retinal-binding pockets of type I rhodopsins and their functions. Photochemistry and Photobiology. 82: 1426-35. PMID 16922602 DOI: 10.1562/2006-02-14-Ra-802 |
0.647 |
|
| 2006 |
Dundas J, Ouyang Z, Tseng J, Binkowski A, Turpaz Y, Liang J. CASTp: computed atlas of surface topography of proteins with structural and topographical mapping of functionally annotated residues. Nucleic Acids Research. 34: W116-8. PMID 16844972 DOI: 10.1093/Nar/Gkl282 |
0.758 |
|
| 2006 |
Adamian L, Liang J. Prediction of transmembrane helix orientation in polytopic membrane proteins. Bmc Structural Biology. 6: 13-13. PMID 16792816 DOI: 10.1186/1472-6807-6-13 |
0.423 |
|
| 2006 |
Kachalo S, Lu HM, Liang J. Protein folding dynamics via quantification of kinematic energy landscape. Physical Review Letters. 96: 058106. PMID 16487000 DOI: 10.1103/Physrevlett.96.058106 |
0.594 |
|
| 2006 |
Zhang J, Chen R, Liang J. Empirical potential function for simplified protein models: combining contact and local sequence-structure descriptors. Proteins. 63: 949-60. PMID 16477624 DOI: 10.1002/Prot.20809 |
0.521 |
|
| 2006 |
Adamian L, Liang J. Prediction of buried helices in multispan alpha helical membrane proteins Proteins. 63: 1-5. PMID 16419070 DOI: 10.1002/Prot.20874 |
0.419 |
|
| 2006 |
Tseng YY, Liang J. Estimation of amino acid residue substitution rates at local spatial regions and application in protein function inference: a Bayesian Monte Carlo approach. Molecular Biology and Evolution. 23: 421-36. PMID 16251508 DOI: 10.1093/Molbev/Msj048 |
0.683 |
|
| 2005 |
Kachalo S, Lu HM, Liang J. Protein folding dynamics in lattice model with physical movement. Conference Proceedings : ... Annual International Conference of the Ieee Engineering in Medicine and Biology Society. Ieee Engineering in Medicine and Biology Society. Annual Conference. 4: 4449-52. PMID 17281224 DOI: 10.1109/IEMBS.2005.1615454 |
0.577 |
|
| 2005 |
Binkowski TA, Joachimiak A, Liang J. Protein surface analysis for function annotation in high-throughput structural genomics pipeline. Protein Science : a Publication of the Protein Society. 14: 2972-81. PMID 16322579 DOI: 10.1110/Ps.051759005 |
0.781 |
|
| 2005 |
Jackups R, Liang J. Interstrand pairing patterns in beta-barrel membrane proteins: the positive-outside rule, aromatic rescue, and strand registration prediction. Journal of Molecular Biology. 354: 979-93. PMID 16277990 DOI: 10.1016/J.Jmb.2005.09.094 |
0.679 |
|
| 2005 |
Liang J, Adamian L, Jackups R. The membrane-water interface region of membrane proteins: structural bias and the anti-snorkeling effect. Trends in Biochemical Sciences. 30: 355-7. PMID 15935679 DOI: 10.1016/J.Tibs.2005.05.003 |
0.689 |
|
| 2005 |
Li X, Liang J. Geometric cooperativity and anticooperativity of three-body interactions in native proteins. Proteins. 60: 46-65. PMID 15849756 DOI: 10.1002/Prot.20438 |
0.39 |
|
| 2005 |
Adamian L, Nanda V, DeGrado WF, Liang J. Empirical lipid propensities of amino acid residues in multispan alpha helical membrane proteins. Proteins. 59: 496-509. PMID 15789404 DOI: 10.1002/Prot.20456 |
0.366 |
|
| 2005 |
Li X, Keskin O, Ma B, Nussinov R, Liang J. Protein-protein interactions: hot spots and structurally conserved residues often locate in complemented pockets that pre-organized in the unbound states: implications for docking. Journal of Molecular Biology. 344: 781-95. PMID 15533445 DOI: 10.1016/J.Jmb.2004.09.051 |
0.433 |
|
| 2004 |
Zhang J, Chen R, Liang J. Potential function of simplified protein models for discriminating native proteins from decoys: combining contact interaction and local sequence-dependent geometry. Conference Proceedings : ... Annual International Conference of the Ieee Engineering in Medicine and Biology Society. Ieee Engineering in Medicine and Biology Society. Annual Conference. 4: 2976-9. PMID 17270903 DOI: 10.1109/IEMBS.2004.1403844 |
0.45 |
|
| 2004 |
Binkowski TA, DasGupta B, Liang J. Order independent structural alignment of circularly permuted proteins. Conference Proceedings : ... Annual International Conference of the Ieee Engineering in Medicine and Biology Society. Ieee Engineering in Medicine and Biology Society. Annual Conference. 4: 2781-4. PMID 17270854 DOI: 10.1109/IEMBS.2004.1403795 |
0.752 |
|
| 2004 |
Song MJ, Hwang S, Wong W, Round J, Martinez-Guzman D, Turpaz Y, Liang J, Wong B, Johnson RC, Carey M, Sun R. The DNA architectural protein HMGB1 facilitates RTA-mediated viral gene expression in gamma-2 herpesviruses. Journal of Virology. 78: 12940-50. PMID 15542646 DOI: 10.1128/Jvi.78.23.12940-12950.2004 |
0.302 |
|
| 2004 |
Zhang J, Chen Y, Chen R, Liang J. Importance of chirality and reduced flexibility of protein side chains: a study with square and tetrahedral lattice models. The Journal of Chemical Physics. 121: 592-603. PMID 15260581 DOI: 10.1063/1.1756573 |
0.439 |
|
| 2004 |
Hu C, Li X, Liang J. Developing optimal non-linear scoring function for protein design Bioinformatics. 20: 3080-3098. PMID 15217818 DOI: 10.1093/Bioinformatics/Bth369 |
0.382 |
|
| 2004 |
Binkowski TA, Freeman P, Liang J. pvSOAR: detecting similar surface patterns of pocket and void surfaces of amino acid residues on proteins. Nucleic Acids Research. 32: W555-8. PMID 15215448 DOI: 10.1093/Nar/Gkh390 |
0.777 |
|
| 2004 |
Tseng YY, Liang J. Are residues in a protein folding nucleus evolutionarily conserved? Journal of Molecular Biology. 335: 869-80. PMID 14698285 DOI: 10.1016/J.Jmb.2003.11.007 |
0.669 |
|
| 2004 |
Stitziel NO, Binkowski TA, Tseng YY, Kasif S, Liang J. topoSNP: a topographic database of non-synonymous single nucleotide polymorphisms with and without known disease association. Nucleic Acids Research. 32: D520-2. PMID 14681472 DOI: 10.1093/Nar/Gkh104 |
0.802 |
|
| 2003 |
Li X, Hu C, Liang J. Simplicial edge representation of protein structures and alpha contact potential with confidence measure. Proteins. 53: 792-805. PMID 14635122 DOI: 10.1002/Prot.10442 |
0.363 |
|
| 2003 |
Binkowski TA, Adamian L, Liang J. Inferring functional relationships of proteins from local sequence and spatial surface patterns. Journal of Molecular Biology. 332: 505-26. PMID 12948498 DOI: 10.1016/S0022-2836(03)00882-9 |
0.774 |
|
| 2003 |
Binkowski TA, Naghibzadeh S, Liang J. CASTp: Computed Atlas of Surface Topography of proteins. Nucleic Acids Research. 31: 3352-5. PMID 12824325 DOI: 10.1093/Nar/Gkg512 |
0.747 |
|
| 2003 |
Lear JD, Gratkowski H, Adamian L, Liang J, DeGrado WF. Position-dependence of stabilizing polar interactions of asparagine in transmembrane helical bundles. Biochemistry. 42: 6400-7. PMID 12767221 DOI: 10.1021/Bi020573J |
0.389 |
|
| 2003 |
Stitziel NO, Tseng YY, Pervouchine D, Goddeau D, Kasif S, Liang J. Structural location of disease-associated single-nucleotide polymorphisms. Journal of Molecular Biology. 327: 1021-30. PMID 12662927 DOI: 10.1016/S0022-2836(03)00240-7 |
0.661 |
|
| 2003 |
Adamian L, Jackups R, Binkowski TA, Liang J. Higher-order interhelical spatial interactions in membrane proteins. Journal of Molecular Biology. 327: 251-72. PMID 12614623 DOI: 10.1016/S0022-2836(03)00041-X |
0.817 |
|
| 2003 |
Zhang J, Chen R, Tang C, Liang J. Origin of scaling behavior of protein packing density: A sequential Monte Carlo study of compact long chain polymers Journal of Chemical Physics. 118: 6102-6109. DOI: 10.1063/1.1554395 |
0.388 |
|
| 2002 |
Adamian L, Liang J. Interhelical hydrogen bonds and spatial motifs in membrane proteins: Polar clamps and serine zippers Proteins. 47: 209-218. PMID 11933067 DOI: 10.1002/Prot.10071 |
0.33 |
|
| 2002 |
McGee MP, Liang J, Luba J. Hydration effects of heparin on antithrombin probed by osmotic stress. Biophysical Journal. 82: 1040-9. PMID 11806943 DOI: 10.1016/S0006-3495(02)75463-5 |
0.302 |
|
| 2002 |
Liang J, Zhang J, Chen R. Statistical geometry of packing defects of lattice chain polymer from enumeration and sequential Monte Carlo method The Journal of Chemical Physics. 117: 3511-3521. DOI: 10.1063/1.1493772 |
0.428 |
|
| 2001 |
McGee MP, Liang J. Regulation of glycosaminoglycan function by osmotic potentials. Measurement of water transfer during antithrombin activation by heparin. The Journal of Biological Chemistry. 276: 49275-82. PMID 11677228 DOI: 10.1074/Jbc.M104413200 |
0.306 |
|
| 2001 |
Adamian L, Liang J. Helix-helix packing and interfacial pairwise interactions of residues in membrane proteins. Journal of Molecular Biology. 311: 891-907. PMID 11518538 DOI: 10.1006/Jmbi.2001.4908 |
0.412 |
|
| 2001 |
Liang J, Dill KA. Are proteins well-packed? Biophysical Journal. 81: 751-66. PMID 11463623 DOI: 10.1016/S0006-3495(01)75739-6 |
0.366 |
|
| 1999 |
Yuan C, Kuwata O, Liang J, Misra S, Balashov SP, Ebrey TG. Chloride binding regulates the schiff base pK in gecko P521 cone-type visual pigment Biochemistry. 38: 4649-4654. PMID 10194387 DOI: 10.1021/Bi9828977 |
0.696 |
|
| 1999 |
McGee MP, Teuschler H, Liang J. Electrostatic interactions during activation of coagulation factor IX via the tissue factor pathway: effect of univalent salts. Biochimica Et Biophysica Acta. 1453: 239-53. PMID 10036322 DOI: 10.1016/S0925-4439(98)00108-2 |
0.306 |
|
| 1998 |
Liang J, Edelsbrunner H, Woodward C. Anatomy of protein pockets and cavities: measurement of binding site geometry and implications for ligand design. Protein Science : a Publication of the Protein Society. 7: 1884-97. PMID 9761470 DOI: 10.1002/Pro.5560070905 |
0.733 |
|
| 1998 |
Liang J, Edelsbrunner H, Fu P, Sudhakar PV, Subramaniam S. Analytical shape computation of macromolecules: II. Inaccessible cavities in proteins. Proteins. 33: 18-29. PMID 9741841 DOI: 10.1002/(Sici)1097-0134(19981001)33:1<18::Aid-Prot2>3.0.Co;2-H |
0.656 |
|
| 1998 |
Liang J, Edelsbrunner H, Fu P, Sudhakar PV, Subramaniam S. Analytical shape computation of macromolecules: I. Molecular area and volume through alpha shape. Proteins. 33: 1-17. PMID 9741840 DOI: 10.1002/(Sici)1097-0134(19981001)33:1<1::Aid-Prot1>3.0.Co;2-O |
0.56 |
|
| 1998 |
Liang J, McGee MP. Hydration structure of antithrombin conformers and water transfer during reactive loop insertion. Biophysical Journal. 75: 573-82. PMID 9675160 DOI: 10.1016/S0006-3495(98)77548-4 |
0.306 |
|
| 1998 |
McGee MP, Teuschler H, Liang J. Effective electrostatic charge of coagulation factor X in solution and on phospholipid membranes: implications for activation mechanisms and structure-function relationships of the Gla domain. The Biochemical Journal. 330: 533-9. PMID 9461553 DOI: 10.1042/Bj3300533 |
0.328 |
|
| 1998 |
Edelsbrunner H, Facello M, Liang J. On the definition and the construction of pockets in macromolecules Discrete Applied Mathematics. 88: 83-102. DOI: 10.1016/S0166-218X(98)00067-5 |
0.592 |
|
| 1997 |
Lewis JW, Liang J, Ebrey TG, Sheves M, Livnah N, Kuwata O, Jäger S, Kliger DS. Early photolysis intermediates of gecko and bovine artificial visual pigments. Biochemistry. 36: 14593-600. PMID 9398178 DOI: 10.1021/Bi9712908 |
0.514 |
|
| 1995 |
Lewis JW, Liang J, Ebrey TG, Sheves M, Kliger DS. Chloride effect on the early photolysis intermediates of a gecko cone-type visual pigment. Biochemistry. 34: 5817-23. PMID 7727442 DOI: 10.1021/Bi00017A013 |
0.509 |
|
| 1994 |
Liang J, Steinberg G, Livnah N, Sheves M, Ebrey TG, Tsuda M. The pK(a) of the protonated Schiff bases of gecko cone and octopus visual pigments Biophysical Journal. 67: 848-854. PMID 7948697 DOI: 10.1016/S0006-3495(94)80544-2 |
0.52 |
|
| 1993 |
Liang J, Govindjee R, Ebrey TG. Metarhodopsin intermediates of the Gecko cone pigment P521 Biochemistry. 32: 14187-14193. PMID 8260505 DOI: 10.1021/Bi00214A018 |
0.51 |
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