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Qifang Xu, Ph.D. - Publications

Affiliations: 
2008 Computer and Information Science Temple University, Philadelphia, PA, United States 
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25 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2023 Schweke H, Xu Q, Tauriello G, Pantolini L, Schwede T, Cazals F, Lhéritier A, Fernandez-Recio J, Rodríguez-Lumbreras LA, Schueler-Furman O, Varga JK, Jiménez-García B, Réau MF, Bonvin AMJJ, Savojardo C, et al. Discriminating physiological from non-physiological interfaces in structures of protein complexes: A community-wide study. Proteomics. e2200323. PMID 37365936 DOI: 10.1002/pmic.202200323  0.578
2023 Wasserman JS, Faezov B, Patel KR, Kurimchak AN, Palacio SM, Fowle H, McEwan BC, Xu Q, Zhao Z, Cressey L, Johnson N, Duncan JS, Kettenbach AN, Dunbrack RL, Graña X. FAM122A ensures cell cycle interphase progression and checkpoint control as a SLiM-dependent substrate-competitive inhibitor to the B55⍺/PP2A phosphatase. Biorxiv : the Preprint Server For Biology. PMID 36945596 DOI: 10.1101/2023.03.06.531310  0.537
2022 Xu Q, Dunbrack RL. The protein common assembly database (ProtCAD)-a comprehensive structural resource of protein complexes. Nucleic Acids Research. PMID 36300618 DOI: 10.1093/nar/gkac937  0.604
2021 Fowle H, Zhao Z, Xu Q, Wasserman JS, Wang X, Adeyemi M, Feiser F, Kurimchak AN, Atar D, McEwan BC, Kettenbach AN, Page R, Peti W, Dunbrack RL, Graña X. PP2A/B55α substrate recruitment as defined by the retinoblastoma-related protein p107. Elife. 10. PMID 34661528 DOI: 10.7554/eLife.63181  0.54
2020 Xu Q, Dunbrack RL. ProtCID: a data resource for structural information on protein interactions. Nature Communications. 11: 711. PMID 32024829 DOI: 10.1038/S41467-020-14301-4  0.626
2019 Clark WT, Kasak L, Bakolitsa C, Hu Z, Andreoletti G, Babbi G, Bromberg Y, Casadio R, Dunbrack R, Folkman L, Ford CT, Jones D, Katsonis P, Kundu K, Lichtarge O, ... ... Xu Q, et al. Assessment of predicted enzymatic activity of alpha-N-acetylglucosaminidase (NAGLU) variants of unknown significance for CAGI 2016. Human Mutation. PMID 31342580 DOI: 10.1002/Humu.23875  0.663
2019 Kueppers F, Andrake MD, Xu Q, Dunbrack RL, Kim J, Sanders CL. Protein modeling to assess the pathogenicity of rare variants of SERPINA1 in patients suspected of having Alpha 1 Antitrypsin Deficiency. Bmc Medical Genetics. 20: 125. PMID 31307431 DOI: 10.1186/S12881-019-0852-5  0.537
2019 Xu Q, Dunbrack RL. Principles and characteristics of biological assemblies in experimentally determined protein structures. Current Opinion in Structural Biology. 55: 34-49. PMID 30965224 DOI: 10.1016/J.Sbi.2019.03.006  0.614
2017 Deihimi S, Lev A, Slifker M, Shagisultanova E, Xu Q, Jung K, Vijayvergia N, Ross EA, Xiu J, Swensen J, Gatalica Z, Andrake M, Dunbrack RL, El-Deiry WS. BRCA2, EGFR, and NTRK mutations in mismatch repair-deficient colorectal cancers with MSH2 or MLH1 mutations. Oncotarget. PMID 28591715 DOI: 10.18632/Oncotarget.18098  0.538
2017 Carraro M, Minervini G, Giollo M, Bromberg Y, Capriotti E, Casadio R, Dunbrack R, Elefanti L, Fariselli P, Ferrari C, Gough J, Katsonis P, Leonardi E, Lichtarge O, Menin C, ... ... Xu Q, et al. Performance of in silico tools for the evaluation of p16INK4a (CDKN2A) variants in CAGI. Human Mutation. PMID 28440912 DOI: 10.1002/Humu.23235  0.571
2017 Xu Q, Tang Q, Katsonis P, Lichtarge O, Jones D, Bovo S, Babbi G, Martelli PL, Casadio R, Lee GR, Seok C, Fenton AW, Dunbrack RL. Benchmarking predictions of allostery in liver pyruvate kinase in CAGI4. Human Mutation. PMID 28370845 DOI: 10.1002/Humu.23222  0.569
2016 Huwe PJ, Xu Q, Shapovalov MV, Modi V, Andrake MD, Dunbrack RL. Biological function derived from predicted structures in CASP11. Proteins. PMID 27181425 DOI: 10.1002/Prot.24997  0.579
2016 Modi V, Xu Q, Adhikari S, Dunbrack RL. Assessment of template-based modeling of protein structure in CASP11. Proteins. PMID 27081927 DOI: 10.1002/Prot.25049  0.575
2016 Deihimi S, Lev A, Shagisultanova E, Xiu J, Slifker M, Xu Q, Dicker DT, Ross EA, Dunbrack R, El-Deiry WS. Abstract 2751: Frequent BRCA2 somatic mutations in colorectal cancer patients with microsatellite instability (MSI) Cancer Research. 76: 2751-2751. DOI: 10.1158/1538-7445.Am2016-2751  0.532
2015 Xu Q, Malecka KL, Fink L, Jordan EJ, Duffy E, Kolander S, Peterson JR, Dunbrack RL. Identifying three-dimensional structures of autophosphorylation complexes in crystals of protein kinases. Science Signaling. 8: rs13. PMID 26628682 DOI: 10.1126/Scisignal.Aaa6711  0.594
2015 Yang L, Xu Q, Xie H, Gu G, Jiang J. Expression of serum miR-218 in hepatocellular carcinoma and its prognostic significance. Clinical & Translational Oncology : Official Publication of the Federation of Spanish Oncology Societies and of the National Cancer Institute of Mexico. PMID 26586116 DOI: 10.1007/s12094-015-1447-z  0.321
2015 Adolf-Bryfogle J, Xu Q, North B, Lehmann A, Dunbrack RL. PyIgClassify: a database of antibody CDR structural classifications. Nucleic Acids Research. 43: D432-8. PMID 25392411 DOI: 10.1093/Nar/Gku1106  0.708
2015 Xu Q, Malecka K, Peterson J, Dunbrack RL. Abstract LB-034: Identification of novel autophosphorylation structures in crystals of protein kinases Cancer Research. 75. DOI: 10.1158/1538-7445.Am2015-Lb-034  0.379
2014 Shapovalov MV, Wang Q, Xu Q, Andrake M, Dunbrack RL. BioAssemblyModeler (BAM): user-friendly homology modeling of protein homo- and heterooligomers. Plos One. 9: e98309. PMID 24922057 DOI: 10.1371/Journal.Pone.0098309  0.606
2013 Wei Q, Xu Q, Dunbrack RL. Prediction of phenotypes of missense mutations in human proteins from biological assemblies. Proteins. 81: 199-213. PMID 22965855 DOI: 10.1002/Prot.24176  0.632
2012 Xu Q, Dunbrack RL. Assignment of protein sequences to existing domain and family classification systems: Pfam and the PDB. Bioinformatics (Oxford, England). 28: 2763-72. PMID 22942020 DOI: 10.1093/Bioinformatics/Bts533  0.575
2011 Xu Q, Dunbrack RL. The protein common interface database (ProtCID)--a comprehensive database of interactions of homologous proteins in multiple crystal forms. Nucleic Acids Research. 39: D761-70. PMID 21036862 DOI: 10.1093/Nar/Gkq1059  0.629
2009 Weitzner B, Meehan T, Xu Q, Dunbrack RL. An unusually small dimer interface is observed in all available crystal structures of cytosolic sulfotransferases. Proteins. 75: 289-95. PMID 19173308 DOI: 10.1002/Prot.22347  0.728
2008 Xu Q, Canutescu AA, Wang G, Shapovalov M, Obradovic Z, Dunbrack RL. Statistical analysis of interface similarity in crystals of homologous proteins. Journal of Molecular Biology. 381: 487-507. PMID 18599072 DOI: 10.1016/J.Jmb.2008.06.002  0.699
2006 Xu Q, Canutescu A, Obradovic Z, Dunbrack RL. ProtBuD: a database of biological unit structures of protein families and superfamilies. Bioinformatics (Oxford, England). 22: 2876-82. PMID 17018535 DOI: 10.1093/Bioinformatics/Btl490  0.692
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