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Peer-review'ede publikationer ved MBG - 2025

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Peer-review'ede publikationer ved MBG - alle år

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Simonsen, M., Thomsen, R., Christensen, M. H. & Pedersen, C. N. S. (2011). GPU-Accelerated High-Accuracy Molecular Docking using Guided Differential Evolution. I GECCO'11 Proceedings of the 13th annual conference on Genetic and evolutionary computation (s. 1803-1810). Association for Computing Machinery. https://doi.org/10.1145/2001576.2001818

Simonsen, M., Christensen, M. H., Thomsen, R. & Pedersen, C. N. S. (2013). GPU-Accelerated High-Accuracy Molecular Docking using Guided Differential Evolution. I S. tsutsui & P. Collet (red.), Massively Parallel Evolutionary Computation on GPGPUs Springer Publishing Company.

Simonsen, M., Mailund, T. & Pedersen, C. N. S. (2008). Rapid neighbour-joining. I Algorithms in Bioinformatics - 8th International Workshop, WABI 2008, Proceedings (s. 113-122) https://doi.org/10.1007/978-3-540-87361-7_10

Simonsen, B., Rübsam, H., Kolte, M. V., Larsen, M. M., Krönauer, C., Gysel, K., Laursen, M., Feng, F., Sezer, G., Oldroyd, G. E. D., Stougaard, J., Fort, S., Radutoiu, S. & Andersen, K. R. (2025). The Medicago truncatula LYR4 intracellular domain serves as a scaffold in immunity signaling independent of its phosphorylation activity. New Phytologist, 246(4), 1423-1431. https://doi.org/10.1111/nph.70067

Silla, T., Karadoulama, E., Mąkosa, D., Lubas, M. & Jensen, T. H. (2018). The RNA Exosome Adaptor ZFC3H1 Functionally Competes with Nuclear Export Activity to Retain Target Transcripts. Cell Reports, 23(7), 2199-2210. https://doi.org/10.1016/j.celrep.2018.04.061

Silla, T., Schmid, M., Dou, Y., Garland, W., Milek, M., Imami, K., Johnsen, D., Polák, P., Andersen, J. S., Selbach, M., Landthaler, M. & Jensen, T. H. (2020). The human ZC3H3 and RBM26/27 proteins are critical for PAXT-mediated nuclear RNA decay. Nucleic Acids Research, 48(5), 2518-2530. https://doi.org/10.1093/nar/gkz1238

Silberberg, J. M., Corey, R. A., Hielkema, L., Stock, C., Stansfeld, P. J., Paulino, C. & Hänelt, I. (2021). Deciphering ion transport and ATPase coupling in the intersubunit tunnel of KdpFABC. Nature Communications, 12(1), Artikel 5098. https://doi.org/10.1038/s41467-021-25242-x

Sigurdsson, A. I., Louloudis, I., Banasik, K., Westergaard, D., Winther, O., Lund, O., Ostrowski, S. R., Erikstrup, C., Pedersen, O. B. V., Nyegaard, M., Brunak, S., Vilhjálmsson, B. J., Rasmussen, S. & DBDS Genomic Consortium (2023). Deep integrative models for large-scale human genomics. Nucleic Acids Research, 51(12), E67. Artikel e67. https://doi.org/10.1093/nar/gkad373

Siepel, A., Bejerano, G., Pedersen, J. S., Hinrichs, A. S., Hou, M., Rosenbloom, K., Clawson, H., Spieth, J., Hillier, L. W., Richards, S., Weinstock, G. M., Wilson, R. K., Gibbs, R. A., Kent, W. J., Miller, W. & Haussler, D. (2005). Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes. Genome Research, 15(8), 1034-50. https://doi.org/10.1101/gr.3715005

Siega, P., Wuerges, J., Arena, F., Gianolio, E., Fedosov, S., Dreos, R., Geremia, S., Aime, S. & Randaccio, L. (2009). Release of toxic Gd3+ ions to tumour cells by vitamin B12 bioconjugates. Chemistry: A European Journal, 15, 7980-7989.

Shuai, S., PCAWG Drivers and Functional Interpretation Working Group, Gallinger, S., Stein, L. & PCAWG Consortium (2020). Combined burden and functional impact tests for cancer driver discovery using DriverPower. Nature Communications, 11(1), Artikel 734. https://doi.org/10.1038/s41467-019-13929-1

Shrestha, A., Zhong, S., Therrien, J., Huebert, T., Sato, S., Mun, T., Andersen, S. U., Stougaard, J., Lepage, A., Niebel, A., Ross, L. & Szczyglowski, K. (2021). Lotus japonicus Nuclear Factor YA1, a nodule emergence stage-specific regulator of auxin signalling. New Phytologist, 229(3), 1535-1552. https://doi.org/10.1111/nph.16950

Sholl, J. & Rattan, S. (2019). Biomarkers of health and healthy ageing from the outside-in. I A. Moskalev (red.), Biomarkers of human ageing (s. 37-46). Springer. https://doi.org/10.1007/978-3-030-24970-0

Sholl, J. & Rattan, S. I. S. (2020). How is ‘health’ explained across the sciences? conclusions and recapitulation. I J. Sholl & S. I. S. Rattan (red.), Explaining health across the sciences (s. 541-549). Springer. https://doi.org/10.1007/978-3-030-52663-4_30

Shliaha, P. V., Gibb, S., Gorshkov, V., Jespersen, M. S., Andersen, G. R., Bailey, D., Schwartz, J., Eliuk, S., Schwämmle, V. & Jensen, O. N. (2018). Maximizing Sequence Coverage in Top-Down Proteomics by Automated Multimodal Gas-Phase Protein Fragmentation. Analytical Chemistry, 90(21), 12519-12526. https://doi.org/10.1021/acs.analchem.8b02344

Shkotova, L., Bohush, A., Voloshina, I., Smutok, O. & Dzyadevych, S. (2019). Amperometric biosensor modified with platinum and palladium nanoparticles for detection of lactate concentrations in wine. SN Applied Sciences, 1(4), Artikel 306. https://doi.org/10.1007/s42452-019-0315-9

Shitomi, Y., Thøgersen, I. B., Ito, N., Leitinger, B., Enghild, J. J. & Itoh, Y. (2015). ADAM10 controls collagen signaling and cell migration on collagen by shedding the ectodomain of discoidin domain receptor 1 (DDR1). Molecular Biology of the Cell, 26(4), 659-673. https://doi.org/10.1091/mbc.E14-10-1463

Shiraz, M. G., Nielsen, J., Widmann, J., Chung, K. H. K., Davis, T. P., Rasmussen, C., Scavenius, C., Enghild, J. J., Martin-Gallausiaux, C., Singh, Y., Javed, I. & Otzen, D. E. (2025). Young rat microbiota extracts strongly inhibit fibrillation of α-synuclein and protect neuroblastoma cells and zebrafish against α-synuclein toxicity. Molecules and Cells, 48(1), Artikel 100161. https://doi.org/10.1016/j.mocell.2024.100161

Shimizu, M., Narboux-Nême, N., Gitton, Y., de Lombares, C., Fontaine, A., Alfama, G., Kitazawa, T., Kawamura, Y., Heude, E., Marshall, L., Higashiyama, H., Wada, Y., Kurihara, Y., Kurihara, H. & Levi, G. (2018). Probing the origin of matching functional jaws: roles of Dlx5/6 in cranial neural crest cells. Scientific Reports, 8(1), 14975. https://doi.org/10.1038/s41598-018-33207-2

Shi, J., Heegaard, C. W., Rasmussen, J. T. & Gilbert, G. E. (2004). Lactadherin binds selectively to membranes containing phosphatidyl-L-serine and increased curvature. Biochim. Biophys. Acta., 1667, 82-90.

Shi, J., Shi, Y., Wæhrens, L. N., Rasmussen, J. T., Heegaard, C. W. & Gilbert, G. E. (2006). Lactadherin Detects Early Phosphatidylserine Exposure on Immortalized Leukemia Cells Undergoing Programmed Cell Death. Cytometry A, 69(12), 1193-1201.

Shi, J., Heegaard, C. W., Rasmussen, J. T. & Gilbert, G. E. (2002). Lactadherin exhibits specificity for membranes containing phosphatidylserine. Blood, (11), 96B.

Shi, J., Pipe, S. W., Rasmussen, J. T., Heegaard, C. W. & Gilbert, G. E. (2008). Lactadherin blocks thrombosis and hemostasis in vivo: correlation with platelet phosphatidylserine exposure. Journal of Thrombosis and Haemostasis, 6, 1167-1174.

Sheng, H., Enghild, J. J., Bowler, R., Patel, M., Calvi, C. L., Day, B. J., Pearlstein, R. D., Crapo, J. D. & Warner, D. S. (2002). Effects of metalloporphyrin catalytic antioxidants in experimental brain ischemia. Free Radic. Biol. Med., 33, 947-961.

Sheng, H., Enghild, J. J., Bowler, R., Patel, M., Batinic-Haberle, I., Calvi, CL., Day, BJ., Pearlstein, RD., Crapo, JD. & Warner, DS. (2002). Effects of metalloporphyrin catalytic antioxidants in experimental brain ischemia. Free Radic. Biol. Med., 33(7).

Shemesh, M., Aktepe, T. E., Deerain, J. M., McAuley, J. L., Audsley, M. D., David, C. T., Purcell, D. F. J., Urin, V., Hartmann, R., Moseley, G. W., Mackenzie, J. M., Schreiber, G. & Harari, D. (2021). SARS-CoV-2 suppresses IFNβ production mediated by NSP1, 5, 6, 15, ORF6 and ORF7b but does not suppress the effects of added interferon. PLOS Pathogens, 17(8), Artikel e1009800. https://doi.org/10.1371/journal.ppat.1009800

She, Q., Lauridsen, P., Stougaard, J. & Marcker, K. A. (1993). Minimal enhancer elements of the leghemoglobin lba and lbc3 gene promoters from Glycine max L. have different properties. Plant Molecular Biology, 22(6), 945-956. https://doi.org/10.1007/BF00028968

She, Q., Sandal, N. N., Stougaard, J. & Marcker, K. A. (1993). Comparative sequence analysis of cis elements present in Glycine max L. leghemoglobin lba and lbc3 genes. Plant Molecular Biology, 22(5), 931-5.

Sharma, S. P., Kaur, P. & Rattan, S. (1995). Plant growth hormone kinetin delays ageing, prolongs the lifespan and slows down development of the fruitfly Zaprionus paravittiger. Biochemical and Biophysical Research Communications, 216, 1067-1071.

Sharma, S. P., Kaur, J. & Rattan, S. (1997). Increased longevity of kinetin-fed Zaprionus fruitflies is accompanied by their reduced fecundity and enhanced catalase activity. Biochemistry and Molecular Biology International, 41, 869-875.

Sharma, N., Hollensen, A. K., Bak, R. O., Staunstrup, N. H., Schrøder, L. D. & Mikkelsen, J. G. (2012). The Impact of cHS4 Insulators on DNA Transposon Vector Mobilization and Silencing in Retinal Pigment Epithelium Cells. PLOS ONE, 7(10). https://doi.org/10.1371/journal.pone.0048421

Shao, Y., Zhou, L., Li, F., Zhao, L., Zhang, B. L., Shao, F., Chen, J. W., Chen, C. Y., Bi, X., Zhuang, X. L., Zhu, H. L., Hu, J., Sun, Z., Li, X., Wang, D., Rivas-González, I., Wang, S., Wang, Y. M., Chen, W. ... Wu, D. D. (2023). Phylogenomic analyses provide insights into primate evolution. Science (New York, N.Y.), 380(6648), 913-924. https://doi.org/10.1126/science.abn6919

Shammas, S. L., Garcia, G. A., Kumar, S., Kjaergaard, M., Horrocks, M. H., Shivji, N., Mandelkow, E., Knowles, T. P. J., Mandelkow, E. & Klenerman, D. (2015). A mechanistic model of tau amyloid aggregation based on direct observation of oligomers. Nature Communications, 6, 7025. https://doi.org/10.1038/ncomms8025

Shahsavari, S., Rad, M. B., Hajiaghajani, A., Rostami, M., Hakimian, F., Jafarzadeh, S., Hasany, M., Collingwood, J. F., Aliakbari, F., Fouladiha, H., Bardania, H., Otzen, D. E. & Morshedi, D. (2024). Magnetoresponsive liposomes applications in nanomedicine: A comprehensive review. Biomedicine & Pharmacotherapy, 181, Artikel 117665. https://doi.org/10.1016/j.biopha.2024.117665

Shah, N., Hirakawa, H., Kusakabe, S., Sandal, N., Stougaard, J., Schierup, M. H., Sato, S. & Andersen, S. U. (2016). High-resolution genetic maps of Lotus japonicus and L. burttii based on re-sequencing of recombinant inbred lines. D N A Research, 23(5), 487-495. https://doi.org/10.1093/dnares/dsw033

Shah, N., Wakabayashi, T., Kawamura, Y., Skovbjerg, C. K., Wang, M.-Z., Mustamin, Y., Isomura, Y., Gupta, V., Jin, H., Mun, T., Sandal, N., Azuma, F., Fukai, E., Seren, Ü., Kusakabe, S., Kikuchi, Y., Nitanda, S., Kumaki, T., Hashiguchi, M. ... Andersen, S. U. (2020). Extreme genetic signatures of local adaptation during Lotus japonicus colonization of Japan. Nature Communications, 11(1), Artikel 253. https://doi.org/10.1038/s41467-019-14213-y

Shah, A., Zhang, X., Snee, M., Lockhart-Cairns, M. P., Levy, C. W., Jowitt, T. A., Birchenough, H. L., Dean, L., Collins, R., Dodd, R. J., Roberts, A. R. E., Enghild, J. J., Mantovani, A., Fontana, J., Baldock, C., Inforzato, A., Richter, R. P. & Day, A. J. (2025). The structural organisation of pentraxin-3 and its interactions with heavy chains of inter-α-inhibitor regulate crosslinking of the hyaluronan matrix. Matrix biology : journal of the International Society for Matrix Biology, 136, 52-68. https://doi.org/10.1016/j.matbio.2025.01.002

Seweryn, P., Van, L. B., Kjeldgaard, M., J. Russo, C., A. Passmore, L., Hove-Jensen, B., Jochimsen, B. & Brodersen, D. E. (2015). Structural insights into the bacterial carbon - phosphorus lyase machinery. Nature, 525, 68-72. https://doi.org/10.1038/nature14683

Seviour, T., Hansen, S. H., Yang, L., Yau, Y. H., Wang, V. B., Stenvang, M. R., Christiansen, G., Marsili, E., Givskov, M., Chen, Y., Otzen, D., Nielsen, P. H., Shochat, S. G., Kjelleberg, S. & Dueholm, M. S. (2015). Functional Amyloids Keep Quorum Sensing Molecules in Check. Journal of Biological Chemistry, 290, 6457-6469. https://doi.org/10.1074/jbc.M114.613810

Severinsen, J., Bjarkam, C., Kiær-Larsen, S., Olsen, I. M., Nielsen, M. M., Blechingberg, J., Nielsen, A. L., Holm, I. E., Foldager, L., Young, B. D., Muir, W. J., Blackwood, D. HR., Corydon, T. J., Mors, O. & Børglum, A. (2006). Evidence implicating BRD1 with brain development and susceptibility to both schizophrenia and bipolar affective disorder. Molecular Psychiatry, 1126-1138. http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=pubmed&cmd=Retrieve&dopt=AbstractPlus&list_uids=16924267&itool=iconabstr&query_hl=1&itool=pubmed_docsum

Severinsen, J. E., Bjarkam, C. R., Kiaer-Larsen, S., Olsen, I. M., Nielsen, M. M., Blechingberg, J., Nielsen, A. L., Holm, I. E., Foldager, L., Young, B. D., Muir, W. J., Blackwood, D. H. R., Corydon, T. J., Mors, O. & Børglum, A. D. (2006). Evidence implicating BRD1 with brain development and susceptibility to both schizophrenia and bipolar affective disorder. Molecular Psychiatry, 11(12), 1126-38. https://doi.org/10.1038/sj.mp.4001885

Serrano, K., Tedeschi, F., Andersen, S. U. & Scheller, H. V. (2024). Unraveling plant-microbe symbioses using single-cell and spatial transcriptomics. Trends in Plant Science, 29(12), 1356-1367. https://doi.org/10.1016/j.tplants.2024.06.008

Serpell, L. C., Radford, S. E. & Otzen, D. (2021). AlphaFold: A Special Issue and a Special time for Protein Science. Journal of Molecular Biology, 433(20), Artikel 167231. https://doi.org/10.1016/j.jmb.2021.167231

Seren, Ü., Vilhjálmsson, B. J., Horton, M. W., Meng, D., Forai, P., Huang, Y. S., Long, Q., Segura, V. & Nordborg, M. (2012). GWAPP: a web application for genome-wide association mapping in Arabidopsis. Plant Cell, 24(12), 4793-805. https://doi.org/10.1105/tpc.112.108068

Senissar, M., Manav, M. C. & Brodersen, D. E. (2017). Structural conservation of the PIN domain active site across all domains of life. Protein Science, 26(8), 1474-1492. https://doi.org/10.1002/pro.3193

Sengpiel, V., Elind, E., Bacelis, J., Nilsson, S., Grove, J., Myhre, R., Haugen, M., Margrete Meltzer, H., Alexander, J., Jacobsson, B. & Brantsæter, A.-L. (2013). Maternal caffeine intake during pregnancy is associated with birth weight but not with gestational length: results from a large prospective observational cohort study. B M C Medicine, 11(42). https://doi.org/10.1186/1741-7015-11-42

Sendrowski, J. & Bataillon, T. (2024). FastDFE: Fast and Flexible Inference of the Distribution of Fitness Effects. Molecular Biology and Evolution, 41(5), Artikel msae070. https://doi.org/10.1093/molbev/msae070

Semba, R. D., Enghild, J. J., Venkatraman, V., Dyrlund, T. F. & Van Eyk, J. E. (2013). The Human Eye Proteome Project: Perspectives on an emerging proteome. Proteomics, 13(16), 2500–2511. https://doi.org/10.1002/pmic.201300075

Semba, R. D. & Enghild, J. E. (2014). Proteomics and the Eye. Proteomics - Clinical Applications, 8(3-4), 127-129. https://doi.org/10.1002/prca.201470024

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Lisbeth Heilesen