Phil Bourne

Berman, H. M., Westbrook, J., Feng, Z., Gilliland, G., Bhat, T. N., Weissig, H., … Bourne, P. E. (2000). The Protein Data Bank. Nucleic Acids Research, 28(1), 235–242. doi:10.1093/nar/28.1.235

Wilkinson, M. D., Dumontier, M., Aalbersberg, I. J., Appleton, G., Axton, M., Baak, A., … Mons, B. (2016). The FAIR Guiding Principles for scientific data management and stewardship. Scientific Data, 3(1), 160018. doi:10.1038/sdata.2016.18

Shindyalov, I. N., & Bourne, P. E. (1998). Protein structure alignment by incremental combinatorial extension (CE) of the optimal path. Protein Engineering, 11(9), 739–747. doi:10.1093/protein/11.9.739

Ponomarenko, J., Bui, H.-H., Li, W., Fusseder, N., Bourne, P. E., Sette, A., & Peters, B. (2008). ElliPro: a new structure-based tool for the prediction of antibody epitopes. BMC Bioinformatics, 9(1), 514. doi:10.1186/1471-2105-9-514

Rose, P. W., Beran, B., Bi, C., Bluhm, W. F., Dimitropoulos, D., Goodsell, D. S., … Bourne, P. E. (2011). The RCSB Protein Data Bank: redesigned web site and web services. Nucleic Acids Research, 39(Database issue), D392-401. doi:10.1093/nar/gkq1021

Günther, S., Kuhn, M., Dunkel, M., Campillos, M., Senger, C., Petsalaki, E., … Preissner, R. (2008). SuperTarget and Matador: resources for exploring drug-target relationships. Nucleic Acids Research, 36(Database issue), D919-22. doi:10.1093/nar/gkm862

Bourne, Philip E., & Weissig, H. (2003). Structural Bioinformatics (Philip E. Bourne & H. Weissig, Reds). doi:10.1002/0471721204

Rose, P. W., Prlić, A., Bi, C., Bluhm, W. F., Christie, C. H., Dutta, S., … Burley, S. K. (2015). The RCSB Protein Data Bank: views of structural biology for basic and applied research and education. Nucleic Acids Research, 43(Database issue), D345-56. doi:10.1093/nar/gku1214

Rose, P. W., Bi, C., Bluhm, W. F., Christie, C. H., Dimitropoulos, D., Dutta, S., … Bourne, P. E. (2013). The RCSB Protein Data Bank: new resources for research and education. Nucleic Acids Research, 41(Database issue), D475-82. doi:10.1093/nar/gks1200

Deshpande, N., Addess, K. J., Bluhm, W. F., Merino-Ott, J. C., Townsend-Merino, W., Zhang, Q., … Bourne, P. E. (2005). The RCSB Protein Data Bank: a redesigned query system and relational database based on the mmCIF schema. Nucleic Acids Research, 33(Database issue), D233-7. doi:10.1093/nar/gki057

Kim, Y., Ponomarenko, J., Zhu, Z., Tamang, D., Wang, P., Greenbaum, J., … Peters, B. (2012). Immune epitope database analysis resource. Nucleic Acids Research, 40(Web Server issue), W525-30. doi:10.1093/nar/gks438

Moreland, J. L., Gramada, A., Buzko, O. V., Zhang, Q., & Bourne, P. E. (2005). The Molecular Biology Toolkit (MBT): a modular platform for developing molecular visualization applications. BMC Bioinformatics, 6, 21. doi:10.1186/1471-2105-6-21

Kinnings, S. L., Liu, N., Buchmeier, N., Tonge, P. J., Xie, L., & Bourne, P. E. (2009). Drug discovery using chemical systems biology: repositioning the safe medicine Comtan to treat multi-drug and extensively drug resistant tuberculosis. PLoS Computational Biology, 5(7), e1000423. doi:10.1371/journal.pcbi.1000423

Kouranov, A., Xie, L., de la Cruz, J., Chen, L., Westbrook, J., Bourne, P. E., & Berman, H. M. (2006). The RCSB PDB information portal for structural genomics. Nucleic Acids Research, 34(Database issue), D302-5. doi:10.1093/nar/gkj120

Westbrook, J., Feng, Z., Jain, S., Bhat, T. N., Thanki, N., Ravichandran, V., … Berman, H. M. (2002). The Protein Data Bank: unifying the archive. Nucleic Acids Research, 30(1), 245–248. doi:10.1093/nar/30.1.245

Scheeff, E. D., & Bourne, P. E. (2005). Structural evolution of the protein kinase-like superfamily. PLoS Computational Biology, 1(5), e49. doi:10.1371/journal.pcbi.0010049

Zhang, Q., Wang, P., Kim, Y., Haste-Andersen, P., Beaver, J., Bourne, P. E., … Peters, B. (2008). Immune epitope database analysis resource (IEDB-AR). Nucleic Acids Research, 36(Web Server issue), W513-8. doi:10.1093/nar/gkn254

Xie, Li, Li, J., Xie, L., & Bourne, P. E. (2009). Drug discovery using chemical systems biology: identification of the protein-ligand binding network to explain the side effects of CETP inhibitors. PLoS Computational Biology, 5(5), e1000387. doi:10.1371/journal.pcbi.1000387

Dupont, C. L., Butcher, A., Valas, R. E., Bourne, P. E., & Caetano-Anollés, G. (2010). History of biological metal utilization inferred through phylogenomic analysis of protein structures. Proceedings of the National Academy of Sciences of the United States of America, 107(23), 10567–10572. doi:10.1073/pnas.0912491107

Xie, Lei, & Bourne, P. E. (2008). Detecting evolutionary relationships across existing fold space, using sequence order-independent profile-profile alignments. Proceedings of the National Academy of Sciences of the United States of America, 105(14), 5441–5446. doi:10.1073/pnas.0704422105

Ponomarenko, J. V., & Bourne, P. E. (2007). Antibody-protein interactions: benchmark datasets and prediction tools evaluation. BMC Structural Biology, 7(1), 64. doi:10.1186/1472-6807-7-64

Yang, S., Doolittle, R. F., & Bourne, P. E. (2005). Phylogeny determined by protein domain content. Proceedings of the National Academy of Sciences of the United States of America, 102(2), 373–378. doi:10.1073/pnas.0408810102

Bourne, P. E., Berman, H. M., McMahon, B., Watenpaugh, K. D., Westbrook, J. D., & Fitzgerald, P. M. (1997). Macromolecular crystallographic information file. Methods in Enzymology, 277, 571–590. doi:10.1016/s0076-6879(97)77032-0

Dupont, C. L., Yang, S., Palenik, B., & Bourne, P. E. (2006). Modern proteomes contain putative imprints of ancient shifts in trace metal geochemistry. Proceedings of the National Academy of Sciences of the United States of America, 103(47), 17822–17827. doi:10.1073/pnas.0605798103

Costello, M. J., Michener, W. K., Gahegan, M., Zhang, Z.-Q., & Bourne, P. E. (2013). Biodiversity data should be published, cited, and peer reviewed. Trends in Ecology & Evolution, 28(8), 454–461. doi:10.1016/j.tree.2013.05.002

von Eichborn, J., Murgueitio, M. S., Dunkel, M., Koerner, S., Bourne, P. E., & Preissner, R. (2011). PROMISCUOUS: a database for network-based drug-repositioning. Nucleic Acids Research, 39(Database issue), D1060-6. doi:10.1093/nar/gkq1037

Chang, R. L., Xie, L., Xie, L., Bourne, P. E., & Palsson, B. Ø. (2010). Drug off-target effects predicted using structural analysis in the context of a metabolic network model. PLoS Computational Biology, 6(9), e1000938. doi:10.1371/journal.pcbi.1000938

Prlić, A., Yates, A., Bliven, S. E., Rose, P. W., Jacobsen, J., Troshin, P. V., … Willis, S. (2012). BioJava: an open-source framework for bioinformatics in 2012. Bioinformatics (Oxford, England), 28(20), 2693–2695. doi:10.1093/bioinformatics/bts494

Prlic, A., Bliven, S., Rose, P. W., Bluhm, W. F., Bizon, C., Godzik, A., & Bourne, P. E. (2010). Pre-calculated protein structure alignments at the RCSB PDB website. Bioinformatics (Oxford, England), 26(23), 2983–2985. doi:10.1093/bioinformatics/btq572

Xie, Lei, Xie, L., Kinnings, S. L., & Bourne, P. E. (2012). Novel computational approaches to polypharmacology as a means to define responses to individual drugs. Annual Review of Pharmacology and Toxicology, 52(1), 361–379. doi:10.1146/annurev-pharmtox-010611-134630

Hecker, N., Ahmed, J., von Eichborn, J., Dunkel, M., Macha, K., Eckert, A., … Preissner, R. (2012). SuperTarget goes quantitative: update on drug-target interactions. Nucleic Acids Research, 40(Database issue), D1113-7. doi:10.1093/nar/gkr912

Xie, Li, Evangelidis, T., Xie, L., & Bourne, P. E. (2011). Drug discovery using chemical systems biology: weak inhibition of multiple kinases may contribute to the anti-cancer effect of nelfinavir. PLoS Computational Biology, 7(4), e1002037. doi:10.1371/journal.pcbi.1002037

Kinnings, S. L., Liu, N., Tonge, P. J., Jackson, R. M., Xie, L., & Bourne, P. E. (2011). A machine learning-based method to improve docking scoring functions and its application to drug repurposing. Journal of Chemical Information and Modeling, 51(2), 408–419. doi:10.1021/ci100369f

Xie, Lei, & Bourne, P. E. (2007). A robust and efficient algorithm for the shape description of protein structures and its application in predicting ligand binding sites. BMC Bioinformatics, 8 Suppl 4(S4), S9. doi:10.1186/1471-2105-8-S4-S9

Reference Genome Group of the Gene Ontology Consortium. (2009). The Gene Ontology’s Reference Genome Project: a unified framework for functional annotation across species. PLoS Computational Biology, 5(7), e1000431. doi:10.1371/journal.pcbi.1000431

Bourne, Philip E., Addess, K. J., Bluhm, W. F., Chen, L., Deshpande, N., Feng, Z., … Berman, H. M. (2004). The distribution and query systems of the RCSB Protein Data Bank. Nucleic Acids Research, 32(Database issue), D223-5. doi:10.1093/nar/gkh096

Xie, Lei, Xie, L., & Bourne, P. E. (2011). Structure-based systems biology for analyzing off-target binding. Current Opinion in Structural Biology, 21(2), 189–199. doi:10.1016/j.sbi.2011.01.004

Guda, Chittibabu, Lu, S., Scheeff, E. D., Bourne, P. E., & Shindyalov, I. N. (2004). CE-MC: a multiple protein structure alignment server. Nucleic Acids Research, 32(Web Server issue), W100-3. doi:10.1093/nar/gkh464

Zhang, P., Schon, E. A., Fischer, S. G., Cayanis, E., Weiss, J., Kistler, S., & Bourne, P. E. (1994). An algorithm based on graph theory for the assembly of contigs in physical mapping of DNA. Computer Applications in the Biosciences : CABIOS, 10(3), 309–317. doi:10.1093/bioinformatics/10.3.309

Bourne, Philip. (2005). Will a biological database be different from a biological journal? PLoS Computational Biology, 1(3), 179–181. doi:10.1371/journal.pcbi.0010034

Bhat, T. N., Bourne, P., Feng, Z., Gilliland, G., Jain, S., Ravichandran, V., … Berman, H. M. (2001). The PDB data uniformity project. Nucleic Acids Research, 29(1), 214–218. doi:10.1093/nar/29.1.214

Berg, J. M., Bhalla, N., Bourne, P. E., Chalfie, M., Drubin, D. G., Fraser, J. S., … Wolberger, C. (2016). Preprints for the life sciences. Science (New York, N.Y.), 352(6288), 899–901. doi:10.1126/science.aaf9133

Ullmann, G. Matthias, Hauswald, M., Jensen, A., & Knapp, E.-W. (2000). Structural alignment of ferredoxin and flavodoxin based on electrostatic potentials: Implications for their interactions with photosystem I and ferredoxin‐NADP reductase. Proteins, 38(3), 301–309. doi:10.1002/(sici)1097-0134(20000215)38:3<301::aid-prot6>3.3.co;2-p

Pandya, M. J., Sessions, R. B., Williams, P. B., Dempsey, C. E., Tatham, A. S., Shewry, P. R., & Clarke, A. R. (2000). Structural characterization of a methionine-rich, emulsifying protein from sunflower seed. Proteins, 38(3), 341–349. doi:10.1002/(sici)1097-0134(20000215)38:3<341::aid-prot9>3.0.co;2-d

Pandya, Maya J., Sessions, R. B., Williams, P. B., Dempsey, C. E., Tatham, A. S., Shewry, P. R., & Clarke, A. R. (2000). Structural characterization of a methionine‐rich, emulsifying protein from sunflower seed. Proteins, 38(3), 341–349. doi:10.1002/(sici)1097-0134(20000215)38:3<341::aid-prot9>3.3.co;2-4

Ullmann, G. M., Hauswald, M., Jensen, A., & Knapp, E. W. (2000). Structural alignment of ferredoxin and flavodoxin based on electrostatic potentials: implications for their interactions with photosystem I and ferredoxin-NADP reductase. Proteins, 38(3), 301–309. doi:10.1002/(sici)1097-0134(20000215)38:3<301::aid-prot6>3.0.co;2-y

García, Angel E., & Hummer, G. (2000). Water penetration and escape in proteins. Proteins, 38(3), 261–272. doi:10.1002/(sici)1097-0134(20000215)38:3<261::aid-prot3>3.3.co;2-h

Parchment, Oswald G., & Essex, J. W. (2000). Molecular dynamics of mouse and Syrian hamster PrP: Implications for activity. Proteins, 38(3), 327–340. doi:10.1002/(sici)1097-0134(20000215)38:3<327::aid-prot8>3.3.co;2-7

Shindyalov, I. N., & Bourne, P. E. (2000). An alternative view of protein fold space. Proteins, 38(3), 247–260. doi:10.1002/(sici)1097-0134(20000215)38:3<247::aid-prot2>3.0.co;2-t

Shindyalov, Ilya N., & Bourne, P. E. (2000). An alternative view of protein fold space. Proteins, 38(3), 247–260. doi:10.1002/(sici)1097-0134(20000215)38:3<247::aid-prot2>3.3.co;2-k

García, A. E., & Hummer, G. (2000). Water penetration and escape in proteins. Proteins, 38(3), 261–272. doi:10.1002/(sici)1097-0134(20000215)38:3<261::aid-prot3>3.0.co;2-q

Glick, M., & Goldblum, A. (2000). A novel energy-based stochastic method for positioning polar protons in protein structures from X-rays. Proteins, 38(3), 273–287. doi:10.1002/(sici)1097-0134(20000215)38:3<273::aid-prot4>3.0.co;2-i

Samanta, Uttamkumar, Pal, D., & Chakrabarti, P. (2000). Environment of tryptophan side chains in proteins. Proteins, 38(3), 288–300. doi:10.1002/(sici)1097-0134(20000215)38:3<288::aid-prot5>3.3.co;2-z

Denessiouk, Konstantin A., & Johnson, M. S. (2000). When fold is not important: A common structural framework for adenine and AMP binding in 12 unrelated protein families. Proteins, 38(3), 310–326. doi:10.1002/(sici)1097-0134(20000215)38:3<310::aid-prot7>3.3.co;2-k

Parchment, O. G., & Essex, J. W. (2000). Molecular dynamics of mouse and Syrian hamster PrP: implications for activity. Proteins, 38(3), 327–340. doi:10.1002/(sici)1097-0134(20000215)38:3<327::aid-prot8>3.0.co;2-g

Denessiouk, K. A., & Johnson, M. S. (2000). When fold is not important: a common structural framework for adenine and AMP binding in 12 unrelated protein families. Proteins, 38(3), 310–326. doi:10.1002/(sici)1097-0134(20000215)38:3<310::aid-prot7>3.0.co;2-t

Gatto, G. J., Jr, Geisbrecht, B. V., Gould, S. J., & Berg, J. M. (2000). A proposed model for the PEX5-peroxisomal targeting signal-1 recognition complex. Proteins, 38(3), 241–246. doi:10.1002/(sici)1097-0134(20000215)38:3<241::aid-prot1>3.0.co;2-1

Glick, Meir, & Goldblum, A. (2000). A novel energy‐based stochastic method for positioning polar protons in protein structures from X‐rays. Proteins, 38(3), 273–287. doi:10.1002/(sici)1097-0134(20000215)38:3<273::aid-prot4>3.3.co;2-9

Samanta, U., Pal, D., & Chakrabarti, P. (2000). Environment of tryptophan side chains in proteins. Proteins, 38(3), 288–300. doi:10.1002/(sici)1097-0134(20000215)38:3<288::aid-prot5>3.0.co;2-7

Meng, G. U. O., 天津工业大学 生命科学学院，天津 300387, School of Life Sciences, Tianjin Polytechnic University, Tianjin 300387, China, Xinming, D., Guang, H. A. N., Huiquan, W., … ECHOEY Technology (Tianjin) Co., Ltd., Tianjin 300308, China. (2021). Research on accurate detection method of egg embryo activity based on convolutional neural network. Yingyong Guangxue (Journal of Applied Optics), 42(2), 268–275. doi:10.5768/jao202142.0202003

Yiqing, C. A. O., 莆田学院 机电工程学院，福建 莆田 351100, School of Mechanical and Electrical Engineering, Putian University, Putian 351100, 福建省激光精密加工工程技术研究中心，福建 莆田 351100, & Fujian Laser Precision Machining Engineering Technology Research Center, Putian 351100, China. (2021). Design of catadioptric panoramic optical imaging system with ultra-large field of view. Yingyong Guangxue (Journal of Applied Optics), 42(4), 608–613. doi:10.5768/jao202142.0401006

Quidu, M. (2023). Hadjeras, Stéphane (2021). Georges Carpentier : l’incroyable destin d’un boxeur devenu star. Préface de Georges Vigarello. Paris, Nouveau Monde, 344 p. Staps, Prépublication(0), I41-8. doi:10.3917/sta.pr1.0041

Philippe, M. (2023). Laurence Munoz, Yves Morales et Yohann Fortune (dir.), L’implication sociale du mouvement sportif associatif : la FSCF entre permanence et mutations. Lille : Septentrion, 2021, 300 p. Staps, Prépublication(0), I46-3. doi:10.3917/sta.pr1.0046

Desfontaine, P. (2023). Ludovic Tenèze, VAR ? Le miroir aux alouettes. Préface de Clément Turpin. Paris : Les Éditions du Panthéon, 2021, 306 p. Staps, Prépublication(0), I42-4. doi:10.3917/sta.pr1.0042

Árpádffy-Lovas, T., Naveed, M., Mohammed, A. S. A., Virág, L., Baczkó, I., & Varró, A. (2022). Species dependent cardiac electrophysiological effects elicited by various potassium channel blocking drugs. The Journal of General Physiology, 154(9). doi:10.1085/jgp.2021ecc2

Falcón, D., Mayoral, I., Ordóñez, A., & Smani, T. (2022). Implication of CREB in the calcium regulation by ischemia/reperfusion in cardiomyocytes. The Journal of General Physiology, 154(9). doi:10.1085/jgp.2021ecc7

Harraz, O. F., Klug, N. R., Senatore, A., Koide, M., & Nelson, M. T. (2022). Piezo1 is a mechanosensor channel in CNS capillaries. The Journal of General Physiology, 154(9). doi:10.1085/jgp.2021ecc12

Idoux, R., Berthier, C., Jacquemond, V., & Allard, B. (2022). Recordings of action potentials, charge movements, and sarcoplasmic reticulum Ca2+ release in isolated adult zebrafish fast skeletal muscle fibers reveals very fast kinetics of excitation-contraction coupling. The Journal of General Physiology, 154(9). doi:10.1085/jgp.2021ecc14

Ma, R., Haji-Ghassemi, O., Ma, D., Jiang, H., Lin, L., Xu, T., … Yuchi, Z. (2022). Structural basis for diamide modulation of ryanodine receptor. The Journal of General Physiology, 154(9). doi:10.1085/jgp.2021ecc17

LG Wiesbaden, Urt. v. 11.7.2019 – 2 O 247/18. (2021). Verstoß gegen die ärztliche Schweigepflicht: Versendung einer Rechnung über Behandlung mit Botox-Spritzen über Arbeitgeber der Behandelten. Medizinrecht: MedR, 39(5), 474–477. doi:10.1007/s00350-021-5888-9

Jamali, M. M., School of Agricultural Sciences, Glocal University, Saharanpur 247121, Uttar Pradesh, India, Zeya, S. B., & Department of Zoology, Aligarh Muslim University, Aligarh 202 002, Uttar Pradesh, India. (2021). First record of the genus Zaommomentedon Girault, 1915 (Hymenoptera: Eulophidae) from India, with description of a new species. Far Eastern entomologist, 428, 1–7. doi:10.25221/fee.428.1

Soni, Y. P., Electrical Engineering Department, Indian Institute of Technology Roorkee, Roorkee, 247667, India., & Fernandez, E. (2021). DC Motor Load performance in DC system with reconfiguration of PV Array. Indian journal of science and technology, 14(11), 964–970. doi:10.17485/ijst/v14i11.2197

Majeed, M., Jamali, M. M., Jabbar Mir, S., School of Agricultural Sciences, Glocal University, Saharanpur 247 121, Uttar Pradesh, India., School of Agricultural Sciences, Glocal University, Saharanpur 247 121, Uttar Pradesh, India., & School of Agricultural Sciences, Glocal University, Saharanpur 247 121, Uttar Pradesh, India. (2021). Taxonomic study of Indian species of the genus Entedon Dalman (Hymenoptera: Chalcidoidea: Eulophidae), with description of two new species. Journal of Insect Biodiversity and Systematics, 7(1), 75–93. doi:10.52547/jibs.7.1.75

Khatri, D. R., Senior ENT & Head Neck Oncologist, YPV Trainer & Healer 247, Vikram Tower Sapna Sangeeta Rd, Indore(M.P.), India.-452007, Bembalkar, M. S., Nanduri, D. V. S., Technical officer(B) ICMR National AIDS Research Institute, Pune, India., & Research & Publications, Yoga Prana Vidya ashram, Sri Ramana Trust, Thally PIN 635118, Tamilnadu, India. (2021). A Pilot Study of the effects of Yoga Prana Vidya (YPV) protocols on social behaviour, cognitive abilities and IQ of mentally challenged children. Pediatric Review International Journal of Pediatric Research, 8(1), 7–15. doi:10.17511/ijpr.2021.i01.02

Raghuvanshi, S., Department of Paper Technology, Indian Institute of Technology, Roorkee, 247667, Uttarakhand, India, Khan, H., Saroha, V., Kadam, A., Dutt, D., … Department of Paper Technology, Indian Institute of Technology, Roorkee, 247667, Uttarakhand, India. (2021). Chemical and structural changes in poplar wood upon steam treatment at constant temperature and pressure conditions for different time intervals. Cellulose Chemistry and Technology, 55(9–10), 961–969. doi:10.35812/cellulosechemtechnol.2021.55.82

Ailing, B. A. N., 池州学院 大数据与人工智能学院， 安徽 池州 247000, School of Big Data and Artificial Intelligence, Chizhou University, ChiZhou, Anhui 247000, P.R.China, & Kai, Z. (2021). Kolmogorov entropy of random attractors for stochastic lattice systems with white noise. 应用数学和力学, 42(7), 735–740. doi:10.21656/1000-0887.410360

Mandal, B., ,CARAMBA, INRIA Nancy-Grand Est., 54600, France, Kar Gangopadhyay, A., & ,Department of Mathematics, Indian Institute of Technology Roorkee, 247667, India. (2021). A note on generalization of bent boolean functions. Advances in Mathematics of Communications, 15(2), 329–346. doi:10.3934/amc.2020069

Gangopadhyay, S., ,Department of Computer Science and Engineering, Indian Institute of Technology Roorkee, Roorkee 247667, India, Riera, C., Stănică, P., ,Department of Computer Science, Electrical Engineering and Mathematical Sciences, Western Norway University of Applied Sciences, 5020 Bergen, Norway, & ,Department of Applied Mathematics, Naval Postgraduate School, Monterey, CA 93943, USA. (2021). Gowers U_2 norm as a measure of nonlinearity for Boolean functions and their generalizations. Advances in Mathematics of Communications, 15(2), 241–256. doi:10.3934/amc.2020056

Zhang, Y., School of Big Data and Artificial Intelligence, Chizhou University, Chizhou, Anhui 247000, China, Bao, X., Liu, L.-B., Liang, Z., & School of Mathematics and Statistics, Nanning Normal University, Nanning 530029, China. (2021). Analysis of a finite difference scheme for a nonlinear Caputo fractional differential equation on an adaptive grid. AIMS mathematics, 6(8), 8611–8624. doi:10.3934/math.2021500

Kumar, C., & ,Department of Mathematics, Indian Institute of Technology Roorkee, Roorkee, Uttarakhand, India, 247 667. (2021). On Milstein-type scheme for SDE driven by Lévy noise with super-linear coefficients. Discrete and Continuous Dynamical Systems. Series B, 26(3), 1405–1446. doi:10.3934/dcdsb.2020167

Zikouli, A., School of Forestry and Natural Environment, Aristotle University of Thessaloniki, Box 247, 54124 Thessaloniki, Greece, Andreopoulou, Z., & School of Forestry and Natural Environment, Aristotle University of Thessaloniki, Box 247, 54124 Thessaloniki, Greece; (2020). Environmental policy and legislation in national parks the case of parnassos, Greece. International Journal of Ecosystems and Ecology Science (IJEES), 10(3), 463–468. doi:10.31407/ijees10.305

Pankaj, N., 1Deptt. of Plant Physiology, College of Basic Sciences and Humanities.G.B. Pant University of Agriculture & Technology, Pantnagar, U.S. Nagar. 263145, Uttarakhand, India, Bharti, K., Bains, G., 2Deptt. of Botany, KanhaiyaLal DAV PG College, Roorkee, Haridwar, 247667,Uttarakhand, India, & 1Deptt. of Plant Physiology, College of Basic Sciences and Humanities.G.B. Pant University of Agriculture & Technology, Pantnagar, U.S. Nagar. 263145, Uttarakhand, India. (2020). Elucidating the effect of super oxide dismutase and photosynthetic rate of rice crop variety Pant Dhan 4. International Journal of Agricultural and Applied Sciences, 1(1), 42–45. doi:10.52804/ijaas2020.119

Kumar, K. H., Department of Mathematics, Indian Institute of Technology Roorkee, Roorkee - 247667, India, Jiwari, R., & Department of Mathematics, Indian Institute of Technology Roorkee, Roorkee - 247667, India. (2020). Legendre wavelet based solution to burgers’ and coupled burgers’ equation. Journal of combinatorics, information & system sciences, 44(1–4), 135–150. doi:10.32381/jciss.2019.44.1-4.8

Feng, X., & Department Of Neurology, The Second Hospital, Cheeloo College Of Medicine, Shandong University, 247 North Park Avenue, Jinan 250033, China. (2020). NLRP3 Inflammasome and Alzheimer’s Disease. Alzheimer’s & Neurodegenerative Diseases, 6(3), 1–6. doi:10.24966/and-9608/100045

K. Jarallah, H., Department of Civil Engineering, College of Engineering, Mustansiriyah University, Baghdad, Iraq, K. Paul, D., Singh, Y., Department of Earthquake Engineering ,Indian Institute of Technology Roorkee, Roorkee 247 667, Roorkee , India, & Department of Earthquake Engineering ,Indian Institute of Technology Roorkee, Roorkee 247 667,Roorkee , India. (2020). Seismic evaluation and retrofit on an existing hospital building. Journal of engineering and sustainable development, 24(06), 1–21. doi:10.31272/jeasd.24.6.1

T. Mohan, M., & ,Department of Mathematics, Indian Institute of Technology Roorkee-IIT Roorkee, Haridwar Highway, Roorkee, Uttarakhand 247667, INDIA. (2020). On the three dimensional Kelvin-Voigt fluids: global solvability, exponential stability and exact controllability of Galerkin approximations. Evolution Equations and Control Theory, 9(2), 301–339. doi:10.3934/eect.2020007

T. Mohan, M., & ,Department of Mathematics, Indian Institute of Technology Roorkee-IIT Roorkee, Haridwar Highway, Roorkee, Uttarakhand 247667, India. (2020). Global and exponential attractors for the 3D Kelvin-Voigt-Brinkman-Forchheimer equations. Discrete and Continuous Dynamical Systems. Series B, 25(9), 3393–3436. doi:10.3934/dcdsb.2020067

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S. N. Zhumashov, M.D, Professor Professor of the Department of human morphology and physiology of the Khoja Ahmet Yasawi Kazakh-Turkish University, Turkestan, Kazakhstan, K. R. Tukhtaev, B. S. Shumashov, saidulla51@mail.ru, https://orcid.org/0000-0002-7478-6347, … Ph.D., Acting Associate Professor, Department of Surgical Diseases, Shymkent Medical Institute, Kazakhstan. (2019). Immunological indicators in patients with chronic phosphorus intoxication after immunotherapy. SERIES OF BIOLOGICAL AND MEDICAL, 2(332), 28–30. doi:10.32014/2019.2519-1629.17

Mega, J. L., Braunwald, E., Wiviott, S. D., Bassand, J.-P., Bhatt, D. L., Bode, C., … ATLAS ACS 2-TIMI 51 Investigators. (2012). Rivaroxaban in patients with a recent acute coronary syndrome. The New England Journal of Medicine, 366(1), 9–19. doi:10.1056/NEJMoa1112277

Sajjad, M., Sałabun, W., Faizi, S., Ismail, M., & Wątróbski, J. (2022). Statistical and analytical approach of multi-criteria group decision-making based on the correlation coefficient under intuitionistic 2-tuple fuzzy linguistic environment. Expert Systems with Applications, 193(116341), 116341. doi:10.1016/j.eswa.2021.116341

Mizuno, Y. (2022). Arc diagrams and 2-term simple-minded collections of preprojective algebras of type A. Journal of Algebra, 595, 444–478. doi:10.1016/j.jalgebra.2021.12.029

Fedichkina, A. D., Koshelev, D. S., Vashchenko, A. A., Tcelykh, L. O., Goloveshkin, A. S., Gontcharenko, V. E., … Utochnikova, V. V. (2022). Ytterbium complexes with 2-tosylamino-4-bromobenzylidene-halogenbenzoyhydrazones for highly NIR emitting solution-processed OLEDs. Journal of Luminescence, 244(118702), 118702. doi:10.1016/j.jlumin.2021.118702

Yüksel, S., & Dinçer, H. (2022). Identifying the strategic priorities of nuclear energy investments using hesitant 2-tuple interval-valued Pythagorean fuzzy DEMATEL. Progress in Nuclear Energy, 145(104103), 104103. doi:10.1016/j.pnucene.2021.104103

Khaki, Z. G., & Qazi, G. (2022). Intrinsic signal processed non-linearity tolerant novel 2-Tier star constellation. Optical and Quantum Electronics, 54(2). doi:10.1007/s11082-021-03476-9

Wang, W., Ding, L., Liu, X., & Liu, S. (2022). An interval 2-Tuple linguistic Fine-Kinney model for risk analysis based on extended ORESTE method with cumulative prospect theory. An International Journal on Information Fusion, 78, 40–56. doi:10.1016/j.inffus.2021.09.008

Zhao, Z., & Bourne, P. E. (2018). Progress with covalent small-molecule kinase inhibitors. Drug Discovery Today, 23(3), 727–735. doi:10.1016/j.drudis.2018.01.035

Chung, J.-L., Wang, W., & Bourne, P. E. (2006). Exploiting sequence and structure homologs to identify protein-protein binding sites. Proteins, 62(3), 630–640. doi:10.1002/prot.20741

Smith, C. M., Shindyalov, I. N., Veretnik, S., Gribskov, M., Taylor, S. S., Ten Eyck, L. F., & Bourne, P. E. (1997). The protein kinase resource. Trends in Biochemical Sciences, 22(11), 444–446. doi:10.1016/s0968-0004(97)01131-6

Koleck, T. A., Dreisbach, C., Bourne, P. E., & Bakken, S. (2019). Natural language processing of symptoms documented in free-text narratives of electronic health records: a systematic review. Journal of the American Medical Informatics Association: JAMIA, 26(4), 364–379. doi:10.1093/jamia/ocy173

Shindyalov, I. N., & Bourne, P. E. (2001). A database and tools for 3-D protein structure comparison and alignment using the Combinatorial Extension (CE) algorithm. Nucleic Acids Research, 29(1), 228–229. doi:10.1093/nar/29.1.228

Garijo, D., Kinnings, S., Xie, L., Xie, L., Zhang, Y., Bourne, P. E., & Gil, Y. (2013). Quantifying reproducibility in computational biology: The case of the tuberculosis drugome. PloS One, 8(11), e80278. doi:10.1371/journal.pone.0080278

Holland, T. A., Veretnik, S., Shindyalov, I. N., & Bourne, P. E. (2006). Partitioning protein structures into domains: why is it so difficult? Journal of Molecular Biology, 361(3), 562–590. doi:10.1016/j.jmb.2006.05.060

Westbrook, J. D., & Bourne, P. E. (2000). STAR/mmCIF: an ontology for macromolecular structure. Bioinformatics (Oxford, England), 16(2), 159–168. doi:10.1093/bioinformatics/16.2.159

Kinnings, S. L., Xie, L., Fung, K. H., Jackson, R. M., Xie, L., & Bourne, P. E. (2010). The Mycobacterium tuberculosis drugome and its polypharmacological implications. PLoS Computational Biology, 6(11), e1000976. doi:10.1371/journal.pcbi.1000976

Xie, Lei, Xie, L., & Bourne, P. E. (2009). A unified statistical model to support local sequence order independent similarity searching for ligand-binding sites and its application to genome-based drug discovery. Bioinformatics (Oxford, England), 25(12), i305-12. doi:10.1093/bioinformatics/btp220

Bourne, Philip E., Lorsch, J. R., & Green, E. D. (2015). Perspective: Sustaining the big-data ecosystem. Nature, 527(7576), S16-7. doi:10.1038/527S16a

Xie, Lei, Wang, J., & Bourne, P. E. (2007). In silico elucidation of the molecular mechanism defining the adverse effect of selective estrogen receptor modulators. PLoS Computational Biology, 3(11), e217. doi:10.1371/journal.pcbi.0030217

Durrant, J. D., Amaro, R. E., Xie, L., Urbaniak, M. D., Ferguson, M. A. J., Haapalainen, A., … McCammon, J. A. (2010). A multidimensional strategy to detect polypharmacological targets in the absence of structural and sequence homology. PLoS Computational Biology, 6(1), e1000648. doi:10.1371/journal.pcbi.1000648

Yang, S., & Bourne, P. E. (2009). The evolutionary history of protein domains viewed by species phylogeny. PloS One, 4(12), e8378. doi:10.1371/journal.pone.0008378

Zhang, X., Pérez-Stable, E. J., Bourne, P. E., Peprah, E., Duru, O. K., Breen, N., … Denny, J. (2017). Big Data science: Opportunities and challenges to address minority health and health disparities in the 21st century. Ethnicity & Disease, 27(2), 95–106. doi:10.18865/ed.27.2.95

Veretnik, S., Bourne, P. E., Alexandrov, N. N., & Shindyalov, I. N. (2004). Toward consistent assignment of structural domains in proteins. Journal of Molecular Biology, 339(3), 647–678. doi:10.1016/j.jmb.2004.03.053

Dreisbach, C., Koleck, T. A., Bourne, P. E., & Bakken, S. (2019). A systematic review of natural language processing and text mining of symptoms from electronic patient-authored text data. International Journal of Medical Informatics, 125, 37–46. doi:10.1016/j.ijmedinf.2019.02.008

Guda, C., Scheeff, E. D., Bourne, P. E., & Shindyalov, I. N. (2001). A new algorithm for the alignment of multiple protein structures using Monte Carlo optimization. Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing, 275–286. doi:10.1142/9789814447362_0028

Ho Sui, S. J., Lo, R., Fernandes, A. R., Caulfield, M. D. G., Lerman, J. A., Xie, L., … Brinkman, F. S. L. (2012). Raloxifene attenuates Pseudomonas aeruginosa pyocyanin production and virulence. International Journal of Antimicrobial Agents, 40(3), 246–251. doi:10.1016/j.ijantimicag.2012.05.009

Xie, Lei, & Bourne, P. E. (2005). Functional coverage of the human genome by existing structures, structural genomics targets, and homology models. PLoS Computational Biology, 1(3), e31. doi:10.1371/journal.pcbi.0010031

Tsigelny, I., Shindyalov, I. N., Bourne, P. E., Südhof, T. C., & Taylor, P. (2000). Common EF-hand motifs in cholinesterases and neuroligins suggest a role for Ca2+ binding in cell surface associations. Protein Science: A Publication of the Protein Society, 9(1), 180–185. doi:10.1110/ps.9.1.180

Zhao, Z., Liu, Q., Bliven, S., Xie, L., & Bourne, P. E. (2017). Determining cysteines available for covalent inhibition across the human kinome. Journal of Medicinal Chemistry, 60(7), 2879–2889. doi:10.1021/acs.jmedchem.6b01815

Navale, V., & Bourne, P. E. (2018). Cloud computing applications for biomedical science: A perspective. PLoS Computational Biology, 14(6), e1006144. doi:10.1371/journal.pcbi.1006144

Ren, J., Xie, L., Li, W. W., & Bourne, P. E. (2010). SMAP-WS: a parallel web service for structural proteome-wide ligand-binding site comparison. Nucleic Acids Research, 38(Web Server issue), W441-4. doi:10.1093/nar/gkq400

Bourne, P. E., Sato, A., Corfield, P. W., Rosen, L. S., Birken, S., & Low, B. W. (1985). Erabutoxin b. Initial protein refinement and sequence analysis at 0.140-nm resolution. European Journal of Biochemistry, 153(3), 521–527. doi:10.1111/j.1432-1033.1985.tb09333.x

Ponomarenko, J., Papangelopoulos, N., Zajonc, D. M., Peters, B., Sette, A., & Bourne, P. E. (2011). IEDB-3D: structural data within the immune epitope database. Nucleic Acids Research, 39(Database issue), D1164-70. doi:10.1093/nar/gkq888

Berman, Helen M., Burley, S. K., Chiu, W., Sali, A., Adzhubei, A., Bourne, P. E., … Westbrook, J. D. (2006). Outcome of a workshop on archiving structural models of biological macromolecules. Structure (London, England: 1993), 14(8), 1211–1217. doi:10.1016/j.str.2006.06.005

Clegg, G. A., Stansfield, R. F., Bourne, P. E., & Harrison, P. M. (1980). Helix packing and subunit conformation in horse spleen apoferritin. Nature, 288(5788), 298–300. doi:10.1038/288298a0

Xie, Lei, Ge, X., Tan, H., Xie, L., Zhang, Y., Hart, T., … Bourne, P. E. (2014). Towards structural systems pharmacology to study complex diseases and personalized medicine. PLoS Computational Biology, 10(5), e1003554. doi:10.1371/journal.pcbi.1003554

Caporaso, J. G., Deshpande, N., Fink, J. L., Bourne, P. E., Cohen, K. B., & Hunter, L. (2007, Desember). Intrinsic evaluation of text mining tools may not predict performance on realistic tasks. Biocomputing 2008. Presented at the Proceedings of the Pacific Symposium, Kohala Coast, Hawaii, USA. doi:10.1142/9789812776136_0061

Xie, Lei, Draizen, E. J., & Bourne, P. E. (2017). Harnessing big data for systems pharmacology. Annual Review of Pharmacology and Toxicology, 57(1), 245–262. doi:10.1146/annurev-pharmtox-010716-104659

Horvath, Monica M., & Grishin, N. V. (2001). The C‐terminal domain of HPII catalase is a member of the type I glutamine amidotransferase superfamily. Proteins, 42(2), 230–236. doi:10.1002/1097-0134(20010201)42:2<230::aid-prot100>3.3.co;2-a

Palliser, C. C., & Parry, D. A. D. (2001). Quantitative comparison of the ability of hydropathy scales to recognize surface ?-strands in proteins. Proteins, 42(2), 243–255. doi:10.1002/1097-0134(20010201)42:2<243::aid-prot120>3.0.co;2-b

Perduca, M., Mancia, F., Del Giorgio, R., & Monaco, H. L. (2001). Crystal structure of a truncated form of porcine odorant-binding protein. Proteins, 42(2), 201–209. doi:10.1002/1097-0134(20010201)42:2<201::aid-prot70>3.0.co;2-7

Horvath, M. M., & Grishin, N. V. (2001). The C-terminal domain of HPII catalase is a member of the type I glutamine amidotransferase superfamily. Proteins, 42(2), 230–236. doi:10.1002/1097-0134(20010201)42:2<230::aid-prot100>3.0.co;2-j

Gilis, D., & Rooman, M. (2001). Identification and ab initio simulations of early folding units in proteins. Proteins, 42(2), 164–176. doi:10.1002/1097-0134(20010201)42:2<164::aid-prot30>3.0.co;2-#

Adman, E. T., Le Trong, I., Stenkamp, R. E., Nieslanik, B. S., Dietze, E. C., Tai, G., … Atkins, W. M. (2001). Localization of the C-terminus of rat glutathione S-transferase A1-1: crystal structure of mutants W21F and W21F/F220Y. Proteins, 42(2), 192–200. doi:10.1002/1097-0134(20010201)42:2<192::aid-prot60>3.0.co;2-#

Reddy, B. V., Li, W. W., Shindyalov, I. N., & Bourne, P. E. (2001). Conserved key amino acid positions (CKAAPs) derived from the analysis of common substructures in proteins. Proteins, 42(2), 148–163. doi:10.1002/1097-0134(20010201)42:2<148::aid-prot20>3.0.co;2-

Bartolucci, C., Perola, E., Pilger, C., Fels, G., & Lamba, D. (2001). Three-dimensional structure of a complex of galanthamine (Nivalin) with acetylcholinesterase from Torpedo californica: implications for the design of new anti-Alzheimer drugs. Proteins, 42(2), 182–191. doi:10.1002/1097-0134(20010201)42:2<182::aid-prot50>3.0.co;2-1

Pei, J., & Grishin, N. V. (2001). GGDEF domain is homologous to adenylyl cyclase. Proteins, 42(2), 210–216. doi:10.1002/1097-0134(20010201)42:2<210::aid-prot80>3.0.co;2-8

Massi, F., & Straub, J. E. (2001). Energy landscape theory for Alzheimer’s amyloid beta-peptide fibril elongation. Proteins, 42(2), 217–229. doi:10.1002/1097-0134(20010201)42:2<217::aid-prot90>3.0.co;2-n

Demarest, S. J., Horng, J.-C., & Raleigh, D. P. (2001a). A protein dissection study demonstrates that two specific hydrophobic clusters play a key role in stabilizing the core structure of the molten globule state of human α‐lactalbumin. Proteins, 42(2), 237–242. doi:10.1002/1097-0134(20010201)42:2<237::aid-prot110>3.3.co;2-2

Webb, T. I., & Morris, G. E. (2001). Structure of an intermediate in the unfolding of creatine kinase. Proteins, 42(2), 269–278. doi:10.1002/1097-0134(20010201)42:2<269::aid-prot140>3.0.co;2-y

Webb, Timothy I., & Morris, G. E. (2001). Structure of an intermediate in the unfolding of creatine kinase. Proteins, 42(2), 269–278. doi:10.1002/1097-0134(20010201)42:2<269::aid-prot140>3.3.co;2-p

Su, A. I., Lorber, D. M., Weston, G. S., Baase, W. A., Matthews, B. W., & Shoichet, B. K. (2001). Docking molecules by families to increase the diversity of hits in database screens: computational strategy and experimental evaluation. Proteins, 42(2), 279–293. doi:10.1002/1097-0134(20010201)42:2<279::aid-prot150>3.0.co;2-u

Wehrle, J. P., & Barrick, D. (2001). Review of the fifth annual Johns Hopkins Protein Folding Meeting. Proteins, 42(2), 141–147. doi:10.1002/1097-0134(20010201)42:2<141::aid-prot10>3.0.co;2-c

Ghosh, M., & Schleif, R. F. (2001). Stabilizing C-terminal tails on AraC. Proteins, 42(2), 177–181. doi:10.1002/1097-0134(20010201)42:2<177::aid-prot40>3.0.co;2-p

Perduca, Massimiliano, Mancia, F., Del Giorgio, R., & Monaco, H. L. (2001). Crystal structure of a truncated form of porcine odorant‐binding protein. Proteins, 42(2), 201–209. doi:10.1002/1097-0134(20010201)42:2<201::aid-prot70>3.3.co;2-z

Demarest, S. J., Horng, J.-C., & Raleigh, D. P. (2001b). A protein dissection study demonstrates that two specific hydrophobic clusters play a key role in stabilizing the core structure of the molten globule state of human ?-lactalbumin. Proteins, 42(2), 237–242. doi:10.1002/1097-0134(20010201)42:2<237::aid-prot110>3.0.co;2-b

Zhang, T., & Deng, C. (2024). Technical repair method of Poyang bodiless lacquerware based on scale-invariant feature transform algorithm for healthcare vision. Journal of Testing and Evaluation, 52(1), 20210460. doi:10.1520/jte20210460

Zhao, N. (2024). Improvement of cloud computing medical data protection technology based on symmetric encryption algorithm. Journal of Testing and Evaluation, 52(1), 20210456. doi:10.1520/jte20210456

Wang, G., & He, D. (2024). An algorithm of layered defogging for remote sensing image based on meteorological load factor. Journal of Testing and Evaluation, 52(1), 20210430. doi:10.1520/jte20210430

Deng, L., Wheeler, W., & Yu, K. (2024). Mendelian randomization test of causal effect using high-dimensional summary data. Statistica sinica. doi:10.5705/ss.202021.0164

Cao, Y., Chen, L., Yang, Y., & Chen, J. (2024). Semiparametric maximum likelihood estimation with two-phase stratified case-control sampling. Statistica sinica. doi:10.5705/ss.202021.0214

Faiz, H., Khan, O., Ali, I., Hussain, T., Haider, S. T., Siddique, T., … Anjum, Q. S. (2024). Foliar application of triacontanol ameliorates heat stress through regulation of the antioxidant defense system and improves yield of eggplant. Brazilian Journal of Biology, 84. doi:10.1590/1519-6984.253696

Amazonas, M. G., Olentino, D., Lubich, C., Duncan, W. P., & Yamamoto, K. C. (2024). Length-weight relationship for Potamotrygon wallacei (Carvalho, Rosa and Araújo, 2016) caught in the middle Negro River, Barcelos, Brazilian Amazon. Brazilian Journal of Biology, 84. doi:10.1590/1519-6984.253497

Salomon, G. R., Gaglioti, A. L., Machado, L. P. B., Carrasco, A. O. T., & Mateus, R. P. (2024). Note on the phylogenetic position of Eptesicus species in the Vespertilionidae family (Chiroptera) using Brazilian bats and RAG2 sequences. Brazilian Journal of Biology, 84. doi:10.1590/1519-6984.258210

Nunes, Y. B. S., Milke, R., Silva, L. R., França, C. L., Costa, C. E. S. S., Nunes, J. L. S., & Figueiredo, M. B. (2024). Length at first sexual maturity of the freshwater fish fauna of the Baixada Maranhense Environmental Protection Area. Brazilian Journal of Biology, 84. doi:10.1590/1519-6984.256697

Zhang, M., Xue, L., Tekwe, C. D., Bai, Y., & Qu, A. (2024). Partially functional linear quantile regression with measurement errors. Statistica sinica. doi:10.5705/ss.202021.0246

Silva, J. E. S. B., Torres, S. B., Leal, C. C. P., Leite, M. S., Guirra, K. S., Dantas, B. F., … Guirra, B. S. (2024). Pre-germination treatments of melon seeds for the production of seedlings irrigated with biosaline water. Brazilian Journal of Biology, 84. doi:10.1590/1519-6984.257314

Lupu, M. I., & Department of Engineering and Management in Food and Tourism, Transilvania University of Brasov, Castle Street no. 148, Brasov 500014, Romania. (2022). Evaluation o Different Starter Cultures in Dry Salami. Bulletin of the Transilvania University of Braşov, 14(63)(2), 129–136. doi:10.31926/but.fwiafe.2021.14.63.2.12

Boeriu, A. E., Department of Engineering and Management in Food and Tourism, Transilvania University of Brasov, Castle Street no. 148, Brasov 500014, Romania, Canja, C. M., & Department of Engineering and Management in Food and Tourism, Transilvania University of Brasov, Castle Street no. 148, Brasov 500014, Romania. (2022). Application of FMEA and Pareto analysis methods in the process of industrial bread making in Romania. Bulletin of the Transilvania University of Braşov, 14(63)(2), 75–84. doi:10.31926/but.fwiafe.2021.14.63.2.7

Renesto, D. M., & São Paulo State University, Department of Animal Science, FCAV-Unesp, 14884-900 Jaboticabal, SP, Brazil. (2021). Supplement levels and functional oils to replace virginiamycin for young bulls during early dry season on grasslands and finishing phase in feedlot systems. Revista de investigacion agraria [Spanish journal of agricultural research], 19(3), e0609–e0609. doi:10.5424/sjar/2021193-15795

Civil Code of the Russian Federation, Arts. 1483, 1513. (2021). “three keys [Tri kljucha]”. IIC; International Review of Industrial Property and Copyright Law, 52(7), 972–976. doi:10.1007/s40319-021-01096-0

Garg, A., Department of Computer Science and Engineering, Sant Longowal Institute of Engineering and Technology, Longowal, Punjab, 148106, India., Kaur, G., & Department of Computer Science and Engineering, Sant Longowal Institute of Engineering and Technology, Longowal, Punjab, 148106, India. (2021). Fuzzy logic based zone head selection algorithm for wireless sensor networks. Journal of University of Shanghai for Science and Technology/Shanghai Ligong Daxue Xuebao, 23(07), 1210–1215. doi:10.51201/jusst/21/07294

Masih, Z. N., & College Of Arts & Sciences, Cornell University, Ithaca Ny 14850, USA And Us Metric Association, Windsor Co 80550, USA. (2021). Some shocking stories: The behavioral response of cancer mortality to spikes in alcohol and tobacco consumption. The American Journal of Applied Sciences, 03(02), 6–14. doi:10.37547/tajas/volume03issue02-02

Bharti, A., Kaur, J., Kumar, A., Singh, S., Kumar, D., & Department of Pharmacology, Akal College of Pharmacy & Technical Education, Mastuana Sahib, Sangrur - 148 001, Punjab, India. (2021). Efficacy of p-coumaric acid in chronic constriction injury induced neuropathic pain in rats. Indian Drugs, 58(09), 52–58. doi:10.53879/id.58.09.12733

Bushlanova, Y. S., & KSPU named after V.P. Astafyev, Secondary School No. 148 named after the USSR Hero I.A. Borisevich. (2021). Application of digital educational and Methodological Complex “school skills. Pro professions” in the work on professional identification of high schoolers. Bulletin of Krasnoyarsk State Pedagogical University named after V P Astafiev, 58(4), 95–107. doi:10.25146/1995-0861-2021-58-4-307

Bhagat, S., Assistant Professor, Department of Chemical Engineering, SLIET-Longowal, 148106, India., Prakash, N., & Assistant Professor, Department of Chemical Engineering, SLIET-Longowal, 148106, India. (2021). Comparative study of Metallocene catalyst propylene polymerization with different iteration rates. Ymer, 20(12), 562–568. doi:10.37896/ymer20.12/53

Zhao, J., & Dyson School of Applied Economics and Management, Cornell University, Ithaca, NY 14853, USA. (2021). Toward the coming of age of environmental economics research in China. Frontiers of Economics in China, 16(2), 171–176. doi:10.54605/fec20210201

Zhao, J., Dyson School of Applied Economics and Management, Cornell University, Ithaca, NY 14853, USA, Kerr, J. M., Lapinski, M. K., Shupp, R., Department of Community Sustainability, Michigan State University, East Lansing MI 48824, USA, … Department of Agricultural, Food and Resource Economics, Michigan State University, East Lansing MI 48824, USA. (2021). Reciprocity and social norms: Short- and Long-Run crowding out effects of financial incentives. Frontiers of Economics in China, 16(2), 177–213. doi:10.54605/fec20210202

Julka, N., Research Scholar, Department of Electronics and Communication Engineering, SLIET Longowal, 148106, India, Singh, & Professor, Department of Electronics and Communication Engineering, SLIET Longowal, 148106. (2021). Detection of foreign materials in wheat kernels using regional colour descriptors. Journal of Engineering Research. doi:10.36909/jer.10371

Garg, A., Department of Computer Science and Engineering, Sant Longowal Institute of Engineering and Technology, Longowal, Punjab, 148106 India., Kaur, G., & Department of Computer Science and Engineering, Sant Longowal Institute of Engineering and Technology, Longowal, Punjab, 148106 India. (2021). Zone head selection algorithm based on fuzzy logic for wireless sensor networks. Journal of University of Shanghai for Science and Technology/Shanghai Ligong Daxue Xuebao, 23(10), 29–37. doi:10.51201/jusst/21/09706

Matvieieva, N. A., Institute of Cell Biology and Genetic Engineering, National Academy of Sciences of Ukraine 148 Akademika Zabolotnoho St., Kyiv, 03143, Ukraine, Melnyk, A. S., Duplij, V. P., Kyrpa, T. M., Kuchuk, M. V., … Institute of Cell Biology and Genetic Engineering, National Academy of Sciences of Ukraine 148 Akademika Zabolotnoho St., Kyiv, 03143, Ukraine. (2021). Influence of nitrogen-containing salts on the growth and accumulation of flavonoids in “hairy” roots of chicory. Fiziologia rastenij i genetika, 53(5), 406–414. doi:10.15407/frg2021.05.406

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Vlaskina, S. I., Yeoju Institute of Technology (Yeoju University), 338, Sejong-ro, Yeoju-eup, Yeoju-gun, Gyeonggi-do,469-705 Korea, Svechnikov, G. S., Mishinova, G. N., Vlaskin, V. I., Rodionov, V. E., … Institute of Electrophysics and Radiation Technologies NAS of Ukraine, p.o. box. 8812, 28, Chernyshevskiy Str., 61002 Kharkiv, Ukraine. (2018). Nano silicon carbide’s stacking faults, deep level’s and grain boundary’s defects. Journal of Nano- and Electronic Physics, 10(5), 05021-1-05021–05026. doi:10.21272/jnep.10(5).05021

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Seeland, U., Coluzzi, F., Simmaco, M., Mura, C., Bourne, P. E., Heiland, M., … Preissner, S. (2020). Evidence for treatment with estradiol for women with SARS-CoV-2 infection. BMC Medicine, 18(1), 369. doi:10.1186/s12916-020-01851-z

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Bourne, Philip E. (2005a). CASP and CAFASP experiments and their findings. In Methods of biochemical analysis. Structural Bioinformatics (bll 499–507). doi:10.1002/0471721204.ch24

Valas, R. E., Yang, S., & Bourne, P. E. (2009). Nothing about protein structure classification makes sense except in the light of evolution. Current Opinion in Structural Biology, 19(3), 329–334. doi:10.1016/j.sbi.2009.03.011

Veretnik, S., Wills, C., Youkharibache, P., Valas, R. E., & Bourne, P. E. (2009). Sm/Lsm genes provide a glimpse into the early evolution of the spliceosome. PLoS Computational Biology, 5(3), e1000315. doi:10.1371/journal.pcbi.1000315

Beaver, J. E., Bourne, P. E., & Ponomarenko, J. V. (2007). EpitopeViewer: a Java application for the visualization and analysis of immune epitopes in the Immune Epitope Database and Analysis Resource (IEDB). Immunome Research, 3(1), 3. doi:10.1186/1745-7580-3-3

Zhang, H., Wang, P., Papangelopoulos, N., Xu, Y., Sette, A., Bourne, P. E., … Peters, B. (2010). Limitations of Ab initio predictions of peptide binding to MHC class II molecules. PloS One, 5(2), e9272. doi:10.1371/journal.pone.0009272

Bauer, R. A., Bourne, P. E., Formella, A., Frömmel, C., Gille, C., Goede, A., … Preissner, R. (2008). Superimpose: a 3D structural superposition server. Nucleic Acids Research, 36(Web Server issue), W47-54. doi:10.1093/nar/gkn285

Myers-Turnbull, D., Bliven, S. E., Rose, P. W., Aziz, Z. K., Youkharibache, P., Bourne, P. E., & Prlić, A. (2014). Systematic detection of internal symmetry in proteins using CE-Symm. Journal of Molecular Biology, 426(11), 2255–2268. doi:10.1016/j.jmb.2014.03.010

Veretnik, S., Fink, J. L., & Bourne, P. E. (2008). Computational biology resources lack persistence and usability. PLoS Computational Biology, 4(7), e1000136. doi:10.1371/journal.pcbi.1000136

Fink, J. L., Kushch, S., Williams, P. R., & Bourne, P. E. (2008). BioLit: integrating biological literature with databases. Nucleic Acids Research, 36(Web Server issue), W385-9. doi:10.1093/nar/gkn317

Vita, R., Vaughan, K., Zarebski, L., Salimi, N., Fleri, W., Grey, H., … Sette, A. (2006). Curation of complex, context-dependent immunological data. BMC Bioinformatics, 7(1), 341. doi:10.1186/1471-2105-7-341

Chang, W., Shindyalov, I. N., Pu, C., & Bourne, P. E. (1994). Design and application of PDBlib, a C++ macromolecular class library. Computer Applications in the Biosciences : CABIOS, 10(6), 575–586. doi:10.1093/bioinformatics/10.6.575

Zhao, Z., Martin, C., Fan, R., Bourne, P. E., & Xie, L. (2016). Drug repurposing to target Ebola virus replication and virulence using structural systems pharmacology. BMC Bioinformatics, 17(1), 90. doi:10.1186/s12859-016-0941-9

Bourne, Philip E., & McEntyre, J. (2006). [Review of Biocurators: contributors to the world of science]. PLoS computational biology, 2(10), e142. doi:10.1371/journal.pcbi.0020142

Gu, J., Gribskov, M., & Bourne, P. E. (2006). Wiggle-predicting functionally flexible regions from primary sequence. PLoS Computational Biology, 2(7), e90. doi:10.1371/journal.pcbi.0020090

Sathiamurthy, M., Peters, B., Bui, H.-H., Sidney, J., Mokili, J., Wilson, S. S., … Sette, A. (2005). An ontology for immune epitopes: application to the design of a broad scope database of immune reactivities. Immunome Research, 1(1), 2. doi:10.1186/1745-7580-1-2

Wang, J., Bourne, P. E., & Bandeira, N. (2011). Peptide identification by database search of mixture tandem mass spectra. Molecular & Cellular Proteomics: MCP, 10(12), M111.010017. doi:10.1074/mcp.M111.010017

Jia, Y., Dewey, T. G., Shindyalov, I. N., & Bourne, P. E. (2004). A new scoring function and associated statistical significance for structure alignment by CE. Journal of Computational Biology: A Journal of Computational Molecular Cell Biology, 11(5), 787–799. doi:10.1089/cmb.2004.11.787

Xie, Lei, & Bourne, P. E. (2015). Developing multi-target therapeutics to fine-tune the evolutionary dynamics of the cancer ecosystem. Frontiers in Pharmacology, 6, 209. doi:10.3389/fphar.2015.00209

Valas, R. E., & Bourne, P. E. (2011). The origin of a derived superkingdom: how a gram-positive bacterium crossed the desert to become an archaeon. Biology Direct, 6(1), 16. doi:10.1186/1745-6150-6-16

Valas, R. E., & Bourne, P. E. (2009). Structural analysis of polarizing indels: an emerging consensus on the root of the tree of life. Biology Direct, 4(1), 30. doi:10.1186/1745-6150-4-30

Berman, H., Bourne, P., & Westbrook, J. (2004). The protein data bank: A case study in management of community data. Current proteomics, 1(1), 49–57. doi:10.2174/1570164043488252

Zhao, Z., Xie, L., Xie, L., & Bourne, P. E. (2016). Delineation of polypharmacology across the human structural kinome using a functional site interaction fingerprint approach. Journal of Medicinal Chemistry, 59(9), 4326–4341. doi:10.1021/acs.jmedchem.5b02041

Doctor, K. S., Reed, J. C., Godzik, A., & Bourne, P. E. (2003). The apoptosis database. Cell Death and Differentiation, 10(6), 621–633. doi:10.1038/sj.cdd.4401230

Li, Wilfred W., Quinn, G. B., Alexandrov, N. N., Bourne, P. E., & Shindyalov, I. N. (2003). A comparative proteomics resource: proteins of Arabidopsis thaliana. Genome Biology, 4(8), R51. doi:10.1186/gb-2003-4-8-r51

Samish, I., Bourne, P. E., & Najmanovich, R. J. (2015). Achievements and challenges in structural bioinformatics and computational biophysics. Bioinformatics (Oxford, England), 31(1), 146–150. doi:10.1093/bioinformatics/btu769

Ponomarenko, J. V., Bourne, P. E., & Shindyalov, I. N. (2005). Assigning new GO annotations to protein data bank sequences by combining structure and sequence homology. Proteins, 58(4), 855–865. doi:10.1002/prot.20355

Bourne, Philip E., & Shindyalov, I. N. (2003). Structure comparison and alignment. Methods of Biochemical Analysis, 44, 321–337. Opgehaal van https://www.ncbi.nlm.nih.gov/pubmed/12647393

Weissig, Helge, & Bourne, P. E. (2002). Protein structure resources. Acta Crystallographica. Section D, Biological Crystallography, 58(Pt 61), 908–915. doi:10.1107/s0907444902003906

Tsai, L.-C. L., Xie, L., Dore, K., Xie, L., Del Rio, J. C., King, C. C., … Newton, A. C. (2015). Zeta inhibitory peptide disrupts electrostatic interactions that maintain atypical protein kinase C in its active conformation on the scaffold p62. The Journal of Biological Chemistry, 290(36), 21845–21856. doi:10.1074/jbc.M115.676221

Chang, R. L., Xie, L., Bourne, P. E., & Palsson, B. O. (2013). Antibacterial mechanisms identified through structural systems pharmacology. BMC Systems Biology, 7(1), 102. doi:10.1186/1752-0509-7-102

Bourne, Philip E., Fink, J. L., & Gerstein, M. (2008). Open access: taking full advantage of the content. PLoS Computational Biology, 4(3), e1000037. doi:10.1371/journal.pcbi.1000037

Greer, D. S., Westbrook, J. D., & Bourne, P. E. (2002). An ontology driven architecture for derived representations of macromolecular structure. Bioinformatics (Oxford, England), 18(9), 1280–1281. doi:10.1093/bioinformatics/18.9.1280

Bourne, P., Gribskov, M., Johnson, G., Moreland, J., Wavra, S., & Weissig, H. (1998). A prototype molecular interactive collaborative environment (MICE). Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing, 118–129. Opgehaal van https://www.ncbi.nlm.nih.gov/pubmed/9697176

Zhao, Z., Xie, L., & Bourne, P. E. (2017). Insights into the binding mode of MEK type-III inhibitors. A step towards discovering and designing allosteric kinase inhibitors across the human kinome. PloS One, 12(6), e0179936. doi:10.1371/journal.pone.0179936

Fink, J. L., Fernicola, P., Chandran, R., Parastatidis, S., Wade, A., Naim, O., … Bourne, P. E. (2010). Word add-in for ontology recognition: semantic enrichment of scientific literature. BMC Bioinformatics, 11(1), 103. doi:10.1186/1471-2105-11-103

Bourne, Philip E., Westbrook, J., & Berman, H. M. (2004). The Protein Data Bank and lessons in data management. Briefings in Bioinformatics, 5(1), 23–30. doi:10.1093/bib/5.1.23

Ponomarenko, J. V., Bourne, P. E., & Shindyalov, I. N. (2002). Building an automated classification of DNA-binding protein domains. Bioinformatics (Oxford, England), 18 Suppl 2, S192-201. doi:10.1093/bioinformatics/18.suppl_2.s192

Lewitter, F., & Bourne, P. E. (2011). Teaching bioinformatics at the secondary school level. PLoS Computational Biology, 7(10), e1002242. doi:10.1371/journal.pcbi.1002242

Dunn, M. C., & Bourne, P. E. (2017). Building the biomedical data science workforce. PLoS Biology, 15(7), e2003082. doi:10.1371/journal.pbio.2003082

Bourne, Philip E. (2014b). What Big Data means to me. Journal of the American Medical Informatics Association: JAMIA, 21(2), 194. doi:10.1136/amiajnl-2014-002651

Wodak, S. J., Mietchen, D., Collings, A. M., Russell, R. B., & Bourne, P. E. (2012). Topic pages: PLoS Computational Biology meets Wikipedia. PLoS Computational Biology, 8(3), e1002446. doi:10.1371/journal.pcbi.1002446

Kuo, G. M., Ma, J. D., Lee, K. C., Halpert, J. R., Bourne, P. E., Ganiats, T. G., & Taylor, P. (2011). Institutional Profile: University of California San Diego Pharmacogenomics Education Program (PharmGenEdTM): bridging the gap between science and practice. Pharmacogenomics, 12(2), 149–153. doi:10.2217/pgs.10.213

Chung, J.-L., Wang, W., & Bourne, P. E. (2007). High-throughput identification of interacting protein-protein binding sites. BMC Bioinformatics, 8(1), 223. doi:10.1186/1471-2105-8-223

Berman, Helen M., Henrick, K., Nakamura, H., Markley, J., Bourne, P. E., & Westbrook, J. (2007). [Review of Realism about PDB]. Nature biotechnology, 25(8), 845–846; author reply 846. doi:10.1038/nbt0807-845

Weissig, H., & Bourne, P. E. (1999). An analysis of the Protein Data Bank in search of temporal and global trends. Bioinformatics (Oxford, England), 15(10), 807–831. doi:10.1093/bioinformatics/15.10.807

Bernstein, H. J., Bernstein, F. C., & Bourne, P. E. (1998). CIF Applications. VIII. pdb2cif: translating PDB entries into mmCIF format. Journal of applied crystallography, 31(2), 282–295. doi:10.1107/s0021889897007309

Berman, F. D., & Bourne, P. E. (2015). Let’s make gender diversity in data science a priority right from the start. PLoS Biology, 13(7), e1002206. doi:10.1371/journal.pbio.1002206

Gramada, A., & Bourne, P. E. (2006). Multipolar representation of protein structure. BMC Bioinformatics, 7(1), 242. doi:10.1186/1471-2105-7-242

Wang, J., Anania, V. G., Knott, J., Rush, J., Lill, J. R., Bourne, P. E., & Bandeira, N. (2014b). Combinatorial approach for large-scale identification of linked peptides from tandem mass spectrometry spectra. Molecular & Cellular Proteomics: MCP, 13(4), 1128–1136. doi:10.1074/mcp.M113.035758

Ng, C., Hauptman, R., Zhang, Y., Bourne, P. E., & Xie, L. (2013, November). Anti-infectious drug repurposing using an integrated chemical genomics and structural systems biology approach. Biocomputing 2014. Presented at the Proceedings of the Pacific Symposium, Kohala Coast, Hawaii, USA. doi:10.1142/9789814583220_0014

Bourne, Philip E., Clark, T. W., Dale, R., de Waard, A., Herman, I., Hovy, E. H., & Shotton, D. (2012). Improving the future of research communications and e-scholarship (dagstuhl perspectives workshop 11331). doi:10.4230/DagMan.1.1.41

Shindyalov, I. N., & Bourne, P. E. (1997). Protein data representation and query using optimized data decomposition. Computer Applications in the Biosciences : CABIOS, 13(5), 487–496. doi:10.1093/bioinformatics/13.5.487

Wang, J., Bourne, P. E., & Bandeira, N. (2014). MixGF: spectral probabilities for mixture spectra from more than one peptide. Molecular & Cellular Proteomics: MCP, 13(12), 3688–3697. doi:10.1074/mcp.O113.037218

Gu, J., & Bourne, P. E. (2007a). Identifying allosteric fluctuation transitions between different protein conformational states as applied to Cyclin Dependent Kinase 2. BMC Bioinformatics, 8(1), 45. doi:10.1186/1471-2105-8-45

Pekurovsky, D., Shindyalov, I. N., & Bourne, P. E. (2004). A case study of high-throughput biological data processing on parallel platforms. Bioinformatics (Oxford, England), 20(12), 1940–1947. doi:10.1093/bioinformatics/bth184

Bourne, Philip E., & Shindyalov, I. N. (2005). Structure Comparison and Alignment. In Methods of biochemical analysis. Structural Bioinformatics (bll 321–337). doi:10.1002/0471721204.ch16

Youkharibache, P., Veretnik, S., Li, Q., Stanek, K. A., Mura, C., & Bourne, P. E. (2019). The small β-barrel domain: A survey-based structural analysis. Structure (London, England: 1993), 27(1), 6–26. doi:10.1016/j.str.2018.09.012

Guda, P., Bourne, P. E., & Guda, C. (2007). Conserved motifs in voltage-sensing and pore-forming modules of voltage-gated ion channel proteins. Biochemical and Biophysical Research Communications, 352(2), 292–298. doi:10.1016/j.bbrc.2006.10.190

Bourne, P. E., Allerston, C. K. J., Krebs, W., Li, W., Shindyalov, I. N., Godzik, A., … Westbrook, J. (2004). The status of structural genomics defined through the analysis of current targets and structures. Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing, 375–386. doi:10.1142/9789812704856_0036

Tate, J. G., Moreland, J. L., & Bourne, P. E. (2001). Design and implementation of a collaborative molecular graphics environment. Journal of Molecular Graphics & Modelling, 19(3–4), 280–287, 369–373. doi:10.1016/s1093-3263(00)00055-3

Fitzgerald, P. M. D., Berman, H., Bourne, P., McMahon, B., Watenpaugh, K., & Westbrook, J. (1996). The mmCIF dictionary: community review and final approval. Acta crystallographica. Section A, Foundations of crystallography, 52(a1), C575–C575. doi:10.1107/s0108767396076593

Chung, J.-L., Beaver, J. E., Scheeff, E. D., & Bourne, P. E. (2007). Con-Struct Map: a comparative contact map analysis tool. Bioinformatics (Oxford, England), 23(18), 2491–2492. doi:10.1093/bioinformatics/btm356

Berman, H., Goodsell, D., & Bourne, P. (2002). Protein structures: From famine to feast. American scientist, 90(4), 350. doi:10.1511/2002.27.785

Alden, K., Veretnik, S., & Bourne, P. E. (2010). dConsensus: a tool for displaying domain assignments by multiple structure-based algorithms and for construction of a consensus assignment. BMC Bioinformatics, 11(1), 310. doi:10.1186/1471-2105-11-310

Scheeff, E. D., & Bourne, P. E. (2006a). Application of protein structure alignments to iterated hidden Markov model protocols for structure prediction. BMC Bioinformatics, 7(1), 410. doi:10.1186/1471-2105-7-410

Birnbaum, A., Hayes, J., Li, W. W., Miller, M. A., Arzberger, P. W., Bourne, P. E., & Casanova, H. (2005). Grid workflow software for a high-throughput proteome annotation pipeline. In Lecture notes in computer science. Grid Computing in Life Science (bll 68–81). doi:10.1007/978-3-540-32251-1_7

Krebs, W. G., & Bourne, P. E. (2004). Statistically rigorous automated protein annotation. Bioinformatics (Oxford, England), 20(7), 1066–1073. doi:10.1093/bioinformatics/bth039

Proceedings of the eighth annual international conference on Computational molecular biology - RECOMB ’04. (2004). Presented at the the eighth annual international conference, San Diego, California, USA. doi:10.1145/974614

Yang, P., Craig, P. A., Goodsell, D., & Bourne, P. E. (2003). BioEditor-simplifying macromolecular structure annotation. Bioinformatics (Oxford, England), 19(7), 897–898. doi:10.1093/bioinformatics/btg103

Shindyalov, I. N., & Bourne, P. E. (1995). WPDB– PC Windows-based interrogation of macromolecular structure. Journal of applied crystallography, 28(6), 847–852. doi:10.1107/s0021889895005723

Bourne, P. E., & Taylor, M. R. (1983). Dicytosinium tetrachlorozincate, [C4H6N3O]2[ZnCl4]. Acta crystallographica. Section C, Crystal structure communications, 39(4), 430–432. doi:10.1107/s0108270183005004

Breen, N., Berrigan, D., Jackson, J. S., Wong, D. W. S., Wood, F. B., Denny, J. C., … Bourne, P. E. (2019). Translational Health Disparities research in a data-rich world. Health Equity, 3(1), 588–600. doi:10.1089/heq.2019.0042

Bliven, S. E., Lafita, A., Rose, P. W., Capitani, G., Prlić, A., & Bourne, P. E. (2019). Analyzing the symmetrical arrangement of structural repeats in proteins with CE-Symm. PLoS Computational Biology, 15(4), e1006842. doi:10.1371/journal.pcbi.1006842

Bourne, Philip E. (2015). [Review of Confronting the ethical challenges of big data in public health]. PLoS computational biology, 11(2), e1004073. doi:10.1371/journal.pcbi.1004073

Watenpaugh, K. D., Berman, H. M., Bourne, P. E., & Fitzgerald, P. M. D. (1993). The macromolecular CIF dicitionary. Acta crystallographica. Section A, Foundations of crystallography, 49(s1), c412–c413. doi:10.1107/s0108767378088364

Quinn, G. B., Bi, C., Christie, C. H., Pang, K., Prlić, A., Nakane, T., … Rose, P. W. (2015). RCSB PDB Mobile: iOS and Android mobile apps to provide data access and visualization to the RCSB Protein Data Bank. Bioinformatics (Oxford, England), 31(1), 126–127. doi:10.1093/bioinformatics/btu596

Bluhm, W. F., Beran, B., Bi, C., Dimitropoulos, D., Prlic, A., Quinn, G. B., … Bourne, P. E. (2011). Quality assurance for the query and distribution systems of the RCSB Protein Data Bank. Database: The Journal of Biological Databases and Curation, 2011(0), bar003. doi:10.1093/database/bar003

Chang, W., & Bourne, P. E. (1998). CIF Applications. IX. A new approach for representing and manipulating STAR files. Journal of applied crystallography, 31(3), 505–509. doi:10.1107/s0021889897017019

Bourne, P. E., & Taylor, M. R. (1980). The structure of aqua[3-ethoxy-2-oxobutyraldehyde bis(thiosemicarbazonato)]zinc(II). Acta crystallographica. Section B: Structural crystallography and crystal chemistry, 36(9), 2143–2145. doi:10.1107/s0567740880008151

Donlan, A. N., Sutherland, T. E., Marie, C., Preissner, S., Bradley, B. T., Carpenter, R. M., … Petri, W. A., Jr. (2021). IL-13 is a driver of COVID-19 severity. MedRxiv : The Preprint Server for Health Sciences. doi:10.1101/2020.06.18.20134353

Kolker, E., Altintas, I., Bourne, P., Faris, J., Fox, G., Frishman, D., … Wilmes, P. (2013). Reproducibility: In praise of open research measures. Nature, 498(7453), 170. doi:10.1038/498170b

von Eichborn, J., Bourne, P. E., & Preissner, R. (2011). Cobweb: a Java applet for network exploration and visualisation. Bioinformatics (Oxford, England), 27(12), 1725–1726. doi:10.1093/bioinformatics/btr195

Valas, R. E., & Bourne, P. E. (2010). Save the tree of life or get lost in the woods. Biology Direct, 5(1), 44. doi:10.1186/1745-6150-5-44

Briedis, K. M., Starr, A., & Bourne, P. E. (2008). Analysis of the human kinome using methods including fold recognition reveals two novel kinases. PloS One, 3(2), e1597. doi:10.1371/journal.pone.0001597

Cohen, K. B., Yu, H., Bourne, P. E., & Hirschman, L. (2008). Translating biology: Text mining tools that work. Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing, 13, 551–555. Opgehaal van https://www.ncbi.nlm.nih.gov/pubmed/20827444

Baldridge, K., & Bourne, P. E. (2003). The new biology and the grid. In Wiley Series in Communications Networking & Distributed Systems (bll 907–922). doi:10.1002/0470867167.ch40

Li, Wilfred W., Reddy, B. V. B., Tate, J. G., Shindyalov, I. N., & Bourne, P. E. (2002). CKAAPs DB: A Conserved Key Amino Acid Positions DataBase. Nucleic Acids Research, 30(1), 409–411. doi:10.1093/nar/30.1.409

Bourne, Philip, Holstein, R., & McMullen, J. (2003). UNIX for OpenVMS Users (3rd ed). doi:10.1016/b978-1-55558-276-0.x5000-6

Abel, R., Paredes Ramos, M., Chen, Q., Pérez-Sánchez, H., Coluzzi, F., Rocco, M., … Banerjee, P. (2020). Computational prediction of potential inhibitors of the main protease of SARS-CoV-2. Frontiers in Chemistry, 8, 590263. doi:10.3389/fchem.2020.590263

Zhao, Z., & Bourne, P. E. (2020b). Structural insights into the binding modes of viral RNA-dependent RNA polymerases using a function-site interaction fingerprint method for RNA virus drug discovery. Journal of Proteome Research, 19(11), 4698–4705. doi:10.1021/acs.jproteome.0c00623

Prlić, A., Martinez, M. A., Dimitropoulos, D., Beran, B., Yukich, B. T., Rose, P. W., … Fink, J. L. (2010). Integration of open access literature into the RCSB Protein Data Bank using BioLit. BMC Bioinformatics, 11(1), 220. doi:10.1186/1471-2105-11-220

Scheeff, E. D., & Bourne, P. E. (2006b). Application of protein structure alignments to iterated hidden Markov model protocols for structure prediction. BMC Bioinformatics, 7(1), 410. doi:10.1186/1471-2105-7-410

Shindyalov, I. N., Chang, W., Pu, C., & Bourne, P. E. (1994). Macromolecular query language (MMQL): prototype data model and implementation. Protein engineering, design & selection: PEDS, 7(11), 1311–1322. doi:10.1093/protein/7.11.1311

Zhao, Z., & Bourne, P. E. (2020a). Overview of current type I/II kinase inhibitors. In Next Generation Kinase Inhibitors (bll 13–28). doi:10.1007/978-3-030-48283-1_2

Zhao, Z., Xie, L., & Bourne, P. E. (2019). Structural insights into characterizing binding sites in epidermal growth factor receptor kinase mutants. Journal of Chemical Information and Modeling, 59(1), 453–462. doi:10.1021/acs.jcim.8b00458

Mura, C., Draizen, E. J., & Bourne, P. E. (2018). Structural biology meets data science: does anything change? Current Opinion in Structural Biology, 52, 95–102. doi:10.1016/j.sbi.2018.09.003

Gao, J., Prlić, A., Bi, C., Bluhm, W. F., Dimitropoulos, D., Xu, D., … Rose, P. W. (2017). BioJava-ModFinder: identification of protein modifications in 3D structures from the Protein Data Bank. Bioinformatics, 33(13), 2047–2049. doi:10.1093/bioinformatics/btx101

Bliven, S. E., Bourne, P. E., & Prlić, A. (2015). Detection of circular permutations within protein structures using CE-CP. Bioinformatics (Oxford, England), 31(8), 1316–1318. doi:10.1093/bioinformatics/btu823

Bourne, Philip E., Beran, B., Bi, C., Bluhm, W. F., Dimitropoulos, D., Feng, Z., … Berman, H. M. (2011). The evolution of the RCSB Protein Data Bank website. Wiley Interdisciplinary Reviews. Computational Molecular Science, 1(5), 782–789. doi:10.1002/wcms.57

Bourne, Philip E., Briedis, K., Dupont, C., Valas, R., & Yang, S. (2010). Genome evolution studied through protein structure. In Evolutionary Genomics and Systems Biology (bll 153–164). doi:10.1002/9780470570418.ch8

Kuller, A., Fleri, W., Bluhm, W. F., Smith, J. L., Westbrook, J., & Bourne, P. E. (2002). A biologist’s guide to synchrotron facilities: the BioSync web resource. Trends in Biochemical Sciences, 27(4), 213–215. doi:10.1016/s0968-0004(02)02056-x

Weissig, Helge, Shindyalov, I. N., & Bourne, P. E. (1998). Macromolecular structure databases: Past progress and future challenges. Acta crystallographica. Section D, Biological crystallography, 54(6), 1085–1094. doi:10.1107/s0907444998009846

Gramada, A., & Bourne, P. E. (2011). Coarse-graining the electrostatic potential via distributed multipole expansions. Computer Physics Communications, 182(7), 1455–1462. doi:10.1016/j.cpc.2011.03.014

Zhang, Q., Veretnik, S., & Bourne, P. E. (2005). Overview of Structural Bioinformatics. In Bioinformatics Technologies (bll 15–44). doi:10.1007/3-540-26888-x_2

Shahab, A., Chuon, D., Suzumua, T., Li, W. W., Byrnes, R. W., Tanaka, K., … Arzberger, P. W. (2005). Grid portal interface for interactive use and monitoring of high-throughput proteome annotation. In Lecture notes in computer science. Grid Computing in Life Science (bll 53–67). doi:10.1007/978-3-540-32251-1_6

Reddy, B. V. B., & Bourne, P. E. (2005). Protein structure evolution and the scop database. In Methods of biochemical analysis. Structural Bioinformatics (bll 237–248). doi:10.1002/0471721204.ch12

Helliwell, J. R., Achari, A., Bloomer, A. C., Bourne, P. E., Carr, P., Clegg, G. A., … Machin, P. A. (1981). Protein crystal oscillation film data processing: a comparative study. Acta crystallographica. Section A, Foundations of crystallography, 37(a1), C311–C312. doi:10.1107/s0108767381090338

Xie, Li, Ng, C., Ali, T., Valencia, R., Ferreira, B. L., Xue, V., … Xie, L. (2013). Multiscale modeling of the causal functional roles of nsSNPs in a genome-wide association study: application to hypoxia. BMC Genomics, 14 Suppl 3(S3), S9. doi:10.1186/1471-2164-14-S3-S9

Rana, B. K., Bourne, P. E., & Insel, P. A. (2012). Receptor databases and computational websites for ligand binding. Methods in Molecular Biology (Clifton, N.J.), 897, 1–13. doi:10.1007/978-1-61779-909-9_1

Bourne, Philip E., Brenner, S. E., & Eisen, M. B. (2005). PLoS Computational Biology: a new community journal. PLoS Computational Biology, 1(1), e4. doi:10.1371/journal.pcbi.0010004

Bourne, P. E. (2000). Bioinformatics meets data mining: time to dance? Trends in Biotechnology, 18(6), 228–230. doi:10.1016/s0167-7799(00)01430-x

Wang, J., Anania, V. G., Knott, J., Rush, J., Lill, J. R., Bourne, P. E., & Bandeira, N. (2014a). A turn-key approach for large-scale identification of complex posttranslational modifications. Journal of Proteome Research, 13(3), 1190–1199. doi:10.1021/pr400368u

Xie, Li, Kinnings, S. L., Xie, L., & Bourne, P. E. (2012). Predicting the polypharmacology of drugs: Identifying new uses through chemoinformatics, structural informatics, and molecular modeling-based approaches. In Drug Repositioning (bll 163–205). doi:10.1002/9781118274408.ch7

Bourne, Philip E., Beran, B., Bi, C., Bluhm, W., Dunbrack, R., Prlić, A., … Yukich, B. (2010). Will widgets and semantic tagging change computational biology? PLoS Computational Biology, 6(2), e1000673. doi:10.1371/journal.pcbi.1000673

Gramada, A., & Bourne, P. E. (2008). Resolving a distribution of charge into intrinsic multipole moments: a rankwise distributed multipole analysis. Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics, 78(6 Pt 2), 066601. doi:10.1103/PhysRevE.78.066601

Li, W. W., Reddy, B. V., Shindyalov, I. N., & Bourne, P. E. (2001). CKAAPs DB: a conserved key amino acid positions database. Nucleic Acids Research, 29(1), 329–331. doi:10.1093/nar/29.1.329

Biggs, J., Pu, C., Groeninger, A., & Bourne, P. E. (1996). PDBtool: An interactive browser and geometry checker for protein structures. Journal of applied crystallography, 29(4), 484–490. doi:10.1107/s002188989600026x

Kittrie, E., Atienza, A. A., Kiley, R., Carr, D., MacFarlane, A., Pai, V., … Bourne, P. E. (2017). Developing international open science collaborations: Funder reflections on the Open Science Prize. PLoS Biology, 15(8), e2002617. doi:10.1371/journal.pbio.2002617

Erren, T. C., & Bourne, P. E. (2007). Ten simple rules for a good poster presentation. PLoS Computational Biology, 3(5), e102. doi:10.1371/journal.pcbi.0030102

Bourne, Philip E., Polka, J. K., Vale, R. D., & Kiley, R. (2017). Ten simple rules to consider regarding preprint submission. PLoS Computational Biology, 13(5), e1005473. doi:10.1371/journal.pcbi.1005473

Rougier, N. P., Droettboom, M., & Bourne, P. E. (2014). Ten simple rules for better figures. PLoS Computational Biology, 10(9), e1003833. doi:10.1371/journal.pcbi.1003833

Bourne, Philip E. (2005b). Ten simple rules for getting published. PLoS Computational Biology, 1(5), e57. doi:10.1371/journal.pcbi.0010057

Bourne, Philip E. (2007). Ten simple rules for making good oral presentations. PLoS Computational Biology, 3(4), e77. doi:10.1371/journal.pcbi.0030077

Vicens, Q., & Bourne, P. E. (2007). Ten simple rules for a successful collaboration. PLoS Computational Biology, 3(3), e44. doi:10.1371/journal.pcbi.0030044

Bourne, Philip E., & Korngreen, A. (2006). Ten simple rules for reviewers. PLoS Computational Biology, 2(9), e110. doi:10.1371/journal.pcbi.0020110

Ekins, S., & Perlstein, E. O. (2014). Ten simple rules of live tweeting at scientific conferences. PLoS Computational Biology, 10(8), e1003789. doi:10.1371/journal.pcbi.1003789

Bourne, Philip E., & Chalupa, L. M. (2006). Ten simple rules for getting grants. PLoS Computational Biology, 2(2), e12. doi:10.1371/journal.pcbi.0020012

Budd, A., Dinkel, H., Corpas, M., Fuller, J. C., Rubinat, L., Devos, D. P., … Wood, N. T. (2015). Ten simple rules for organizing an unconference. PLoS Computational Biology, 11(1), e1003905. doi:10.1371/journal.pcbi.1003905

Masum, H., Rao, A., Good, B. M., Todd, M. H., Edwards, A. M., Chan, L., … Bourne, P. E. (2013). Ten simple rules for cultivating open science and collaborative R&D. PLoS Computational Biology, 9(9), e1003244. doi:10.1371/journal.pcbi.1003244

Bourne, Philip E., & Barbour, V. (2011). Ten simple rules for building and maintaining a scientific reputation. PLoS Computational Biology, 7(6), e1002108. doi:10.1371/journal.pcbi.1002108

Bourne, Philip E., & Friedberg, I. (2006). Ten simple rules for selecting a postdoctoral position. PLoS Computational Biology, 2(11), e121. doi:10.1371/journal.pcbi.0020121

Corpas, M., Gehlenborg, N., Janga, S. C., & Bourne, P. E. (2008). Ten simple rules for organizing a scientific meeting. PLoS Computational Biology, 4(6), e1000080. doi:10.1371/journal.pcbi.1000080

Erren, T. C., Cullen, P., Erren, M., & Bourne, P. E. (2007). Ten simple rules for doing your best research, according to Hamming. PLoS Computational Biology, 3(10), 1839–1840. doi:10.1371/journal.pcbi.0030213

Fletcher, A. C., & Bourne, P. E. (2012b). Ten simple rules to commercialize scientific research. PLoS Computational Biology, 8(9), e1002712. doi:10.1371/journal.pcbi.1002712

Vicens, Q., & Bourne, P. E. (2009). Ten simple rules to combine teaching and research. PLoS Computational Biology, 5(4), e1000358. doi:10.1371/journal.pcbi.1000358

Dashnow, H., Lonsdale, A., & Bourne, P. E. (2014). Ten simple rules for writing a PLOS ten simple rules article. PLoS Computational Biology, 10(10), e1003858. doi:10.1371/journal.pcbi.1003858

Gu, J., & Bourne, P. E. (2007b). Ten simple rules for graduate students. PLoS Computational Biology, 3(11), e229. doi:10.1371/journal.pcbi.0030229

Jolly, M., Fletcher, A. C., & Bourne, P. E. (2012). Ten simple rules to protect your intellectual property. PLoS Computational Biology, 8(11), e1002766. doi:10.1371/journal.pcbi.1002766

Schultheiss, S. J. (2011). Ten simple rules for providing a scientific Web resource. PLoS Computational Biology, 7(5), e1001126. doi:10.1371/journal.pcbi.1001126

Bourne, Philip E. (2011). Ten simple rules for getting ahead as a computational biologist in Academia. PLoS Computational Biology, 7(1), e1002001. doi:10.1371/journal.pcbi.1002001

Goh, H.-H., & Bourne, P. E. (2020b). Ten simple rules for researchers while in isolation from a pandemic. PLoS Computational Biology, 16(6), e1007946. doi:10.1371/journal.pcbi.1007946

Lewitter, F., Bourne, P. E., & Attwood, T. K. (2019). Ten Simple Rules for avoiding and resolving conflicts with your colleagues. PLoS Computational Biology, 15(1), e1006708. doi:10.1371/journal.pcbi.1006708

Bourne, Philip E. (2014a). Ten simple rules for approaching a new job. PLoS Computational Biology, 10(6), e1003660. doi:10.1371/journal.pcbi.1003660

Bateman, A., & Bourne, P. E. (2009). Ten simple rules for chairing a scientific session. PLoS Computational Biology, 5(9), e1000517. doi:10.1371/journal.pcbi.1000517

Parker, M. S., Burgess, A. E., & Bourne, P. E. (2021). Ten simple rules for starting (and sustaining) an academic data science initiative. PLoS Computational Biology, 17(2), e1008628. doi:10.1371/journal.pcbi.1008628

Erren, T. C., Slanger, T. E., Groß, J. V., Bourne, P. E., & Cullen, P. (2015). Ten simple rules for lifelong learning, according to Hamming. PLoS Computational Biology, 11(2), e1004020. doi:10.1371/journal.pcbi.1004020

Fletcher, A. C., & Bourne, P. E. (2012a). Ten simple rules for starting a company. PLoS Computational Biology, 8(3), e1002439. doi:10.1371/journal.pcbi.1002439

Goh, H.-H., & Bourne, P. (2020a). Ten simple rules for writing scientific op-ed articles. PLoS Computational Biology, 16(9), e1008187. doi:10.1371/journal.pcbi.1008187

Bourne, Philip E. (2017). Ten simple rules in considering a career in academia versus government. PLoS Computational Biology, 13(10), e1005729. doi:10.1371/journal.pcbi.1005729

Bourne, Philip E., Polka, J. K., Vale, R. D., & Kiley, R. (2016). Ten simple rules for considering preprints. doi:10.7287/peerj.preprints.2669v1

Fletcher, A. C., Wagner, G. A., & Bourne, P. E. (2020). Ten simple rules for more objective decision-making. PLoS Computational Biology, 16(4), e1007706. doi:10.1371/journal.pcbi.1007706

Bourne, Philip E., Lewitter, F., Markel, S., & Papin, J. A. (2018). One thousand simple rules. PLoS Computational Biology, 14(12), e1006670. doi:10.1371/journal.pcbi.1006670