Songjie Zhang, Ph.D. - Related publications

2010 Rensselaer Polytechnic Institute, Troy, NY, United States 
Protein Folding/Misfolding
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50 most relevant papers in past 60 days:
Year Citation  Score
2020 Stollar EJ, Smith DP. Uncovering protein structure. Essays in Biochemistry. PMID 32975287 DOI: 10.1042/EBC20190042   
2020 Agostino M. Comprehensive analysis of carbohydrate-protein recognition in the Protein Data Bank. Carbohydrate Research. 498: 108180. PMID 33096507 DOI: 10.1016/j.carres.2020.108180   
2020 Lv M, Cui C, Chen P, Li Z. Identification of osteoporosis markers through bioinformatic functional analysis of serum proteome. Medicine. 99: e22172. PMID 32991410 DOI: 10.1097/MD.0000000000022172   
2020 Lv M, Cui C, Chen P, Li Z. Identification of osteoporosis markers through bioinformatic functional analysis of serum proteome. Medicine. 99: e22172. PMID 32991410 DOI: 10.1097/MD.0000000000022172   
2020 Sun JL, Li JY, Wang MJ, Song ZT, Liu JX. Protein Quality Control in Plant Organelles: Current Progress and Future Perspectives. Molecular Plant. PMID 33137518 DOI: 10.1016/j.molp.2020.10.011   
2020 Miyamae Y, Chen LC, Utsugi Y, Farrants H, Wandless TJ. A Method for Conditional Regulation of Protein Stability in Native or Near-Native Form. Cell Chemical Biology. PMID 33007216 DOI: 10.1016/j.chembiol.2020.09.004   
2020 Fleissner F, Kumar S, Klein N, Wirth D, Dhiman R, Schneider D, Bonn M, Parekh SH. Tension Causes Unfolding of Intracellular Vimentin Intermediate Filaments. Advanced Biosystems. e2000111. PMID 33135378 DOI: 10.1002/adbi.202000111   
2020 Nash MA. Single-molecule and Single-cell Approaches in Molecular Bioengineering. Chimia. 74: 704-709. PMID 32958108 DOI: 10.2533/chimia.2020.704   
2020 Badal VD, Kundrotas PJ, Vakser IA. Text mining for modeling of protein complexes enhanced by machine learning. Bioinformatics (Oxford, England). PMID 32960948 DOI: 10.1093/bioinformatics/btaa823   
2020 Määttä TA, Rettel M, Sridharan S, Helm D, Kurzawa N, Stein F, Savitski MM. Aggregation and disaggregation features of the human proteome. Molecular Systems Biology. 16: e9500. PMID 33022891 DOI: 10.15252/msb.20209500   
2020 Eason MG, Pandelieva AT, Mayer MM, Khan ST, Garcia HG, Chica RA. Genetically Encoded Fluorescent Biosensor for Rapid Detection of Protein Expression. Acs Synthetic Biology. PMID 33044070 DOI: 10.1021/acssynbio.0c00407   
2020 Jha K, Saha S. Amalgamation of 3D structure and sequence information for protein-protein interaction prediction. Scientific Reports. 10: 19171. PMID 33154416 DOI: 10.1038/s41598-020-75467-x   
2020 Mebratu YA, Negasi ZH, Dutta S, Rojas-Quintero J, Tesfaigzi Y. Adaptation of Proteasomes and Lysosomes to Cellular Environments. Cells. 9. PMID 33019542 DOI: 10.3390/cells9102221   
2020 Wegner LH, Hao Z. A quantitative approach relating emergent features of complex traits to protein expression. Progress in Biophysics and Molecular Biology. PMID 33035591 DOI: 10.1016/j.pbiomolbio.2020.10.002   
2020 Samoudi M, Kuo CC, Robinson CM, Shams-Ud-Doha K, Schinn SM, Kol S, Weiss L, Petersen Bjorn S, Voldborg BG, Rosa Campos A, Lewis NE. In situ detection of protein interactions for recombinant therapeutic enzymes. Biotechnology and Bioengineering. PMID 33169829 DOI: 10.1002/bit.27621   
2020 Ferdous N, Reza MN, Emon MTH, Islam MS, Mohiuddin AKM, Hossain MU. Molecular characterization and functional annotation of a hypothetical protein (SCO0618) of Streptomyces coelicolor A3(2). Genomics & Informatics. 18: e28. PMID 33017872 DOI: 10.5808/GI.2020.18.3.e28   
2020 Ferdous N, Reza MN, Emon MTH, Islam MS, Mohiuddin AKM, Hossain MU. Molecular characterization and functional annotation of a hypothetical protein (SCO0618) of Streptomyces coelicolor A3(2). Genomics & Informatics. 18: e28. PMID 33017872 DOI: 10.5808/GI.2020.18.3.e28   
2020 Kraus A, Weskamp M, Zierles J, Balzer M, Busch R, Eisfeld J, Lambertz J, Nowaczyk MM, Narberhaus F. Arginine-Rich Small Proteins with a Domain of Unknown Function, DUF1127, Play a Role in Phosphate and Carbon Metabolism of Agrobacterium tumefaciens. Journal of Bacteriology. 202. PMID 33093235 DOI: 10.1128/JB.00309-20   
2020 Walker SP, Yallapragada VVB, Tangney M. Arming Yourself for The In Silico Protein Design Revolution. Trends in Biotechnology. PMID 33139074 DOI: 10.1016/j.tibtech.2020.10.003   
2020 Umstead A, Soliman AS, Lamp J, Vega IE. Validation of recombinant human protein purified from bacteria: an important step to increase scientific rigor. Analytical Biochemistry. 113999. PMID 33098768 DOI: 10.1016/j.ab.2020.113999   
2020 Gaynor AS, Chen W. Conditional Protein Rescue by Binding-Induced Protective Shielding. Acs Synthetic Biology. PMID 33025786 DOI: 10.1021/acssynbio.0c00367   
2020 Elahi A, Babamir SM. Identification of Protein Complexes Based on Core-Attachment Structure and Combination of Centrality Measures and Biological Properties in PPI Weighted Networks. The Protein Journal. PMID 33040223 DOI: 10.1007/s10930-020-09922-z   
2020 Hegazy M, Cohen-Barak E, Koetsier JL, Najor NA, Arvanitis C, Sprecher E, Green KJ, Godsel LM. Proximity Ligation Assay for Detecting Protein-Protein Interactions and Protein Modifications in Cells and Tissues in Situ. Current Protocols in Cell Biology. 89: e115. PMID 33044803 DOI: 10.1002/cpcb.115   
2020 Elayan H, Eckford AW, Adve R. Information Rates of Controlled Protein Interactions Using Terahertz Communication. Ieee Transactions On Nanobioscience. PMID 32886612 DOI: 10.1109/TNB.2020.3021825   
2020 Izutsu KI, Usui A, Yamamoto E, Abe Y, Yoshida H, Goda Y. Effect of Complex Coacervation with Hyaluronic Acid on Protein Transition in a Subcutaneous Injection Site Model System. Chemical & Pharmaceutical Bulletin. 68: 1109-1112. PMID 33132379 DOI: 10.1248/cpb.c20-00585   
2020 Mirela-Bota P, Aguirre-Plans J, Meseguer A, Galletti C, Segura J, Planas-Iglesias J, Garcia-Garcia J, Guney E, Oliva B, Fernandez-Fuentes N. Galaxy InteractoMIX: An Integrated Computational Platform for the Study of Protein-Protein Interaction Data. Journal of Molecular Biology. PMID 32976910 DOI: 10.1016/j.jmb.2020.09.015   
2020 Wang L, Xu X, Jiang Z, You Q. Modulation of protein fate decision by small molecules: targeting molecular chaperone machinery. Acta Pharmaceutica Sinica. B. 10: 1904-1925. PMID 33163343 DOI: 10.1016/j.apsb.2020.01.018   
2020 Naidu KT, Rao DK, Prabhu NP. Cryo vs Thermo: Duality of Ethylene Glycol on the Stability of Proteins. The Journal of Physical Chemistry. B. PMID 33143422 DOI: 10.1021/acs.jpcb.0c06247   
2020 Kocyła A, Tran JB, Krężel A. Galvanization of Protein-Protein Interactions in a Dynamic Zinc Interactome. Trends in Biochemical Sciences. PMID 32958327 DOI: 10.1016/j.tibs.2020.08.011   
2020 Liu XR, Rempel DL, Gross ML. Protein higher-order-structure determination by fast photochemical oxidation of proteins and mass spectrometry analysis. Nature Protocols. PMID 33169002 DOI: 10.1038/s41596-020-0396-3   
2020 Kumar A, Dubey R, Singhai S, Konar AD, Basu A. Structural Characterization with Light Scattering: A Tool for Rationally designing Protein Formulations. Analytical Biochemistry. 113979. PMID 33035463 DOI: 10.1016/j.ab.2020.113979   
2020 Bosch JA, Chen CL, Perrimon N. Proximity-dependent labeling methods for proteomic profiling in living cells: An update. Wiley Interdisciplinary Reviews. Developmental Biology. e392. PMID 32909689 DOI: 10.1002/wdev.392   
2020 Cho KF, Branon TC, Udeshi ND, Myers SA, Carr SA, Ting AY. Proximity labeling in mammalian cells with TurboID and split-TurboID. Nature Protocols. PMID 33139955 DOI: 10.1038/s41596-020-0399-0   
2020 Y. Zhang, X. Chen, C. Wang, G. M. Roozbahani, H.-C. Chang, and X. Guan. Chemically functionalized conical PET nanopore for protein detection at the single-molecule level Biosensors and Bioelectronics. 165: 112289. PMID 32729470 DOI: 10.1016/j.bios.2020.112289   
2020 Haberl Meglič S, Janež N, Peterka M, Flisar K, Kotnik T, Miklavčič D. Evaluation and Optimization of Protein Extraction From by Electroporation. Frontiers in Bioengineering and Biotechnology. 8: 543187. PMID 33015013 DOI: 10.3389/fbioe.2020.543187   
2020 Veith PD, Gorasia DG, Reynolds EC. Towards defining the outer membrane proteome of Porphyromonas gingivalis. Molecular Oral Microbiology. PMID 33124778 DOI: 10.1111/omi.12320   
2020 Kim TK, Lee MH, Yong HI, Jung S, Paik HD, Jang HW, Choi YS. Effect of Interaction between Mealworm Protein and Myofibrillar Protein on the Rheological Properties and Thermal Stability of the Prepared Emulsion Systems. Foods (Basel, Switzerland). 9. PMID 33053732 DOI: 10.3390/foods9101443   
2020 Pritišanac I, Zarin T, Forman-Kay JD, Moses AM. Whence Blobs? Phylogenetics of functional protein condensates. Biochemical Society Transactions. PMID 32985656 DOI: 10.1042/BST20200355   
2020 Liu SY, Yuan D, Sun RJ, Zhu JJ, Shan NN. Significant reductions in apoptosis-related proteins (HSPA6, HSPA8, ITGB3, YWHAH, and PRDX6) are involved in immune thrombocytopenia. Journal of Thrombosis and Thrombolysis. PMID 33047245 DOI: 10.1007/s11239-020-02310-5   
2020 Zou X, He J, Zhao D, Zhang M, Xie Y, Dai C, Wang C, Li C. Structural Changes and Evolution of Peptides During Chill Storage of Pork. Frontiers in Nutrition. 7: 151. PMID 33072793 DOI: 10.3389/fnut.2020.00151   
2020 Zhang J, Lv L, Lu D, Kong D, Al-Alashaari MAA, Zhao X. Variable selection from a feature representing protein sequences: a case of classification on bacterial type IV secreted effectors. Bmc Bioinformatics. 21: 480. PMID 33109082 DOI: 10.1186/s12859-020-03826-6   
2020 Prakash V, Ranbhor R, Ramakrishnan V. Designed Heterochiral Blue Fluorescent Protein. Acs Omega. 5: 26382-26388. PMID 33110966 DOI: 10.1021/acsomega.0c02574   
2020 Su Z, Dhusia K, Wu Y. Understand the Functions of Scaffold Proteins in Cell Signaling by a Mesoscopic Simulation Method. Biophysical Journal. PMID 33113350 DOI: 10.1016/j.bpj.2020.10.002   
2020 Tan F, Sun N, Zhang L, Wu J, Xiao S, Tan Q, Uversky VN, Liu Y. Functional characterization of an unknown soybean intrinsically disordered protein in vitro and in Escherichia coli. International Journal of Biological Macromolecules. PMID 33137381 DOI: 10.1016/j.ijbiomac.2020.10.211   
2020 Liu YS, Matabaro E, Gao XD, Fujita M. Selecting cells expressing high levels of recombinant proteins using the GPI-anchored protein with selenocysteine system. Journal of Bioscience and Bioengineering. PMID 33158753 DOI: 10.1016/j.jbiosc.2020.10.004   
2020 Fedorova SA, Dorogova NV. Protein trap: a new Swiss army knife for geneticists? Molecular Biology Reports. 47: 1445-1458. PMID 31728729 DOI: 10.1007/s11033-019-05181-z   
2020 Michaud SA, Pětrošová H, Jackson AM, McGuire JC, Sinclair NJ, Ganguly M, Flenniken AM, Nutter LMJ, McKerlie C, Schibli D, Smith D, Borchers CH. Process and Workflow for Preparation of Disparate Mouse Tissues for Proteomic Analysis. Journal of Proteome Research. PMID 33151080 DOI: 10.1021/acs.jproteome.0c00399   
2020 Garcia-Marcos M, Parag-Sharma K, Marivin A, Maziarz M, Luebbers A, Nguyen LT. Optogenetic activation of heterotrimeric G-proteins by LOV2GIVe, a rationally engineered modular protein. Elife. 9. PMID 32936073 DOI: 10.7554/eLife.60155   
2020 Trueba-Santiso A, Wasmund K, Soder-Walz JM, Marco-Urrea E, Adrian L. Genome Sequence, Proteome Profile, and Identification of a Multiprotein Reductive Dehalogenase Complex in Strain BRE15M. Journal of Proteome Research. PMID 32975419 DOI: 10.1021/acs.jproteome.0c00569   
2020 Johnston HE, Samant RS. Alternative systems for misfolded protein clearance: life beyond the proteasome. The Febs Journal. PMID 33135311 DOI: 10.1111/febs.15617