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ID	publication
17871	Aigner, A., Buesen, R., Gant, C., Gooderham, N., Greim, H., Hackermüller, J., Hubesch, B., Laffont, M., Marczylo, E., Meister, G., Petrick, J.S., Rasoulpour, R.J., Sauer, U.G., Schmidt, K., Seitz, H., Slack, F., Sukata, T., van der Vies, S.M., Verhaert, J., Witwer, K.W., Poole, A. (2016): Advancing the use of noncoding RNA in regulatory toxicology: Report of an ECETOC workshop Regul. Toxicol. Pharmacol. 82 , 127 - 139 full text (doi)
19180	Al Arab, M., Bernt, M., Höner zu Siederdissen, C., Tout, K., Stadler, P.F. (2017): Partially local three-way alignments and the sequence signatures of mitochondrial genome rearrangements Algorithms Mol. Biol. 12 , art. 22 full text (doi)
22888	Ananbeh, H., Merlos Rodrigo, M.A., Jelinkova, P., Strmiska, V., Splichal, Z., Jehmlich, N., Michalkova, H., Stojanović, M., Voberkova, S., Adam, V., Moulick, A. (2020): Soil protein as a potential antimicrobial agent against methicillin-resistant Staphylococcus aureus Environ. Res. 188 , art. 109320 full text (doi)
24785	Anders, J., Petruschke, H., Jehmlich, N., Haange, S.-B., von Bergen, M., Stadler, P.F. (2021): A workflow to identify novel proteins based on the direct mapping of peptide-spectrum-matches to genomic locations BMC Bioinformatics 22 , art. 277 full text (doi)
22245	Anselmann, S.E.L., Löffler, C., Stärk, H.-J., Jehmlich, N., von Bergen, M., Brüls, T., Boll, M. (2019): The class II benzoyl‐coenzyme A reductase complex from the sulfate‐reducing Desulfosarcina cetonica Environ. Microbiol. 21 (11), 4241 - 4252 full text (doi)
18896	Aurich, S., Seitz, A.-T., Tomm, J., Simon, J.-C., Treudler, R. (2016): A case of anaphylaxis to patent blue in a patient with sentinel lymph node excision Iran. J. Allergy Asthma Immunol. 15 (6), 547 - 550 full text (url)
23122	Balogh, G., Bernhart, S.H., Stadler, P.F., Schor, J. (2020): A probabilistic version of Sankoff’s maximum parsimony algorithm J. Bioinform. Comput. Biol. 18 (1), art. 2050004 full text (doi)
22534	Bannuscher, A., Karkossa, I., Buhs, S., Nollau, P., Kettler, K., Balas, M., Dinischiotu, A., Hellack, B., Wiemann, M., Luch, A., von Bergen, M., Haase, A., Schubert, K. (2020): A multi-omics approach reveals mechanisms of nanomaterial toxicity and structure–activity relationships in alveolar macrophages Nanotoxicology 14 (2), 181 - 195 full text (doi)
21395	Bastida, F., Crowther, T.W., Prieto, I., Routh, D., García, C., Jehmlich, N. (2018): Climate shapes the protein abundance of dominant soil bacteria Sci. Total Environ. 640–641 , 18 - 21 full text (doi)
22110	Bastida, F., García, C., Fierer, N., Eldridge, D.J., Bowker, M.A., Abades, S., Alfaro, F.D., Berhe, A.A., Cutler, N.A., Gallardo, A., García-Velázquez, L., Hart, S.C., Hayes, P.E., Hernández, T., Hseu, Z.-Y., Jehmlich, N., Kirchmair, M., Lambers, H., Neuhauser, S., Peña-Ramírez, V.M., Pérez, C.A., Reed, S.C., Santos, F.A.M., Siebe, C., Sullivan, B.W., Trivedi, P., Vera, A., Williams, M.A., Moreno, J.L., Delgado-Baquerizo, M. (2019): Global ecological predictors of the soil priming effect Nat. Commun. 10 , art. 3481 full text (doi)
17882	Bastida, F., Jehmlich, N. (2016): It's all about functionality: How can metaproteomics help us to discuss the attributes of ecological relevance in soil? J. Proteomics 144 , 159 - 161 full text (doi)
17181	Bastida, F., Jehmlich, N., Lima, K., Morris, B.E.L., Richnow, H.H., Hernández, T., von Bergen, M., García, C. (2016): The ecological and physiological responses of the microbial community from a semiarid soil to hydrocarbon contamination and its bioremediation using compost amendment J. Proteomics 135 , 162 - 169 full text (doi)
21543	Bastida, F., Jehmlich, N., Martínez-Navarro, J., Bayona, V., García, C., Moreno, J.L. (2019): The effects of struvite and sewage sludge on plant yield and the microbial community of a semiarid Mediterranean soil Geoderma 337 , 1051 - 1057 full text (doi)
24836	Bastida, F., Jehmlich, N., Starke, R., Benndorf, D., López-Mondéjar, R., Plaza, C., Freixino, Z., Ramírez-Ortuño, C., Ruiz-Navarro, A., Díaz-López, M., Vera, A., Moreno, J.L., Eldridge, D.J., García, C., Delgado-Baquerizo, M. (2021): Structure and function of bacterial metaproteomes across biomes Soil Biol. Biochem. 160 , art. 108331 full text (doi)
19961	Bastida, F., Jehmlich, N., Torres, I.F., García, C. (2018): The extracellular metaproteome of soils under semiarid climate: A methodological comparison of extraction buffers Sci. Total Environ. 619–620 , 707 - 711 full text (doi)
21643	Bastida, F., López-Mondéjar, R., Baldrian, P., Andrés-Abellán, M., Jehmlich, N., Torres, I.F., García, C., López-Serrano, F.R. (2019): When drought meets forest management: Effects on the soil microbial community of a Holm oak forest ecosystem Sci. Total Environ. 662 , 276 - 286 full text (doi)
19284	Bastida, F., Torres, I.F., Andrés-Abellán, M., Baldrian, P., López-Mondéjar, R., Větrovský, T., Richnow, H.H., Starke, R., Ondoño, S., García, C., López-Serrano, F., Jehmlich, N. (2017): Differential sensitivity of total and active soil microbial communities to drought and forest management Glob. Change Biol. 23 (10), 4185 - 4203 full text (doi)
17869	Bastida, F., Torres, I.F., Moreno, J.L., Baldrian, P., Ondoño, S., Ruiz-Navarro, A., Hernández, T., Richnow, H.H., Starke, R., García, C., Jehmlich, N. (2016): The active microbial diversity drives ecosystem multifunctionality and is physiologically related to carbon availability in Mediterranean semi-arid soils Mol. Ecol. 25 (18), 4660 - 4673 full text (doi)
21108	Bauer, M., Hackermüller, J., Schor, J., Schreiber, S., Fink, B., Pierzchalski, A., Herberth, G. (2019): Specific induction of the unique GPR15 expression in heterogeneous blood lymphocytes by tobacco smoking Biomarkers 24 (3), 217 - 224 full text (doi)
17283	Bauer, T., Trump, S., Ishaque, N., Thürmann, L., Gu, L., Bauer, M., Bieg, M., Gu, Z., Weichenhan, D., Mallm, J.-P., Röder, S., Herberth, G., Takada, E., Mücke, O., Winter, M., Junge, K.M., Grützmann, K., Rolle-Kampczyk, U., Wang, Q., Lawerenz, C., Borte, M., Polte, T., Schlesner, M., Schanne, M., Wiemann, S., Geörg, C., Stunnenberg, H.G., Plass, C., Rippe, K., Mizuguchi, J., Herrmann, C., Eils, R., Lehmann, I. (2016): Environment-induced epigenetic reprogramming in genomic regulatory elements in smoking mothers and their children Mol. Syst. Biol. 12 (3), art. 861 full text (doi)
20250	Becher, E., Heese, A., Claußen, L., Eisen, S., Jehmlich, N., Rohwerder, T., Purswani, J. (2018): Active site alanine preceding catalytic cysteine determines unique substrate specificity in bacterial CoA‐acylating prenal dehydrogenase FEBS Lett. 592 (7), 1150 - 1160 full text (doi)
23714	Bedulina, D., Drozdova, P., Gurkov, A., von Bergen, M., Stadler, P.F., Luckenbach, T., Timofeyev, M., Kalkhof, S. (2021): Proteomics reveals sex-specific heat shock response of Baikal amphipod Eulimnogammarus cyaneus Sci. Total Environ. 763 , art. 143008 full text (doi)
19972	Behrens, G., Winzen, R., Rehage, N., Dörrie, A., Barsch, M., Hoffmann, A., Hackermüller, J., Tiedje, C., Heissmeyer, V., Holtmann, H. (2018): A translational silencing function of MCPIP1/Regnase-1 specified by the target site context Nucleic Acids Res. 46 (8), 4256 - 4270 full text (doi)
19586	Benndorf, D. (Hrsg., 2000): Molekulare Mechanismen der Resistenz von Bakterien gegenüber Xenobiotika UFZ-Bericht 22/2000 UFZ Leipzig-Halle GmbH, Leipzig, 95 S.
18210	Bhattacharya, D.P., Canzler, S., Kehr, S., Hertel, J., Grosse, I., Stadler, P.F. (2016): Phylogenetic distribution of plant snoRNA families BMC Genomics 17 , art. 969 full text (doi)
19111	Binder, S., Hösler, N., Riedel, D., Zipfel, I., Buschmann, T., Kämpf, C., Reiche, K., Burger, R., Gramatzki, M., Hackermüller, J., Stadler, P.F., Horn, F. (2017): STAT3-induced long noncoding RNAs in multiple myeloma cells display different properties in cancer Sci. Rep. 7 , art. 7976 full text (doi)
17355	Braasch, I., Gehrke, A.R., Smith, J.J., Kawasaki, K., Manousaki, T., Pasquier, J., Amores, A., Desvignes, T., Batzel, P., Catchen, J., Berlin, A.M., Campbell, M.S., Barrell, D., Martin, K.J., Mulley, J.F., Ravi, V., Lee, A.P., Nakamura, T., Chalopin, D., Fan, S., Wcisel, D., Cañestro, C., Sydes, J., Beaudry, F.E.G., Sun, Y., Hertel, J., Beam, M.J., Fasold, M., Ishiyama, M., Johnson, J., Kehr, S., Lara, M., Letaw, J.H., Litman, G.W., Litman, R.T., Mikami, M., Ota, T., Saha, N.R., Williams, L., Stadler, P.F., Wang, H., Taylor, J.S., Fontenot, Q., Ferrara, A., Searle, S.M.J., Aken, B., Yandell, M., Schneider, I., Yoder, J.A., Volff, J.-N., Meyer, A., Amemiya, C.T., Venkatesh, B., Holland, P.W.H., Guiguen, Y., Bobe, J., Shubin, N.H., Di Palma, F., Alföldi, J., Lindblad-Toh, K., Postlethwait, J.H. (2016): The spotted gar genome illuminates vertebrate evolution and facilitates human-teleost comparisons Nature Genet. 48 (4), 427 - 437 full text (doi)
19333	Buesen, R., Chorley, B.N., da Silva Lima, B., Daston, G., Deferme, L., Ebbels, T., Gant, T.W., Goetz, A., Greally, J., Gribaldo, L., Hackermüller, J., Hubesch, B., Jennen, D., Johnson, K., Kanno, J., Kauffmann, H.-M., Laffont, M., McMullen, P., Meehan, R., Pemberton, M., Perdichizzi, S., Piersma, A.H., Sauer, U.G., Schmidt, K., Seitz, H., Sumida, K., Tollefsen, K.E., Tong, W., Tralau, T., van Ravenzwaay, B., Weber, R.J.M., Worth, A., Yauk, C., Poole, A. (2017): Applying 'omics technologies in chemicals risk assessment: Report of an ECETOC workshop Regul. Toxicol. Pharmacol. 91 (Suppl. 1), S3 - S13 full text (doi)
22243	Buettner, C., von Bergen, M., Jehmlich, N., Noll, M. (2019): Pseudomonas spp. are key players in agricultural biogas substrate degradation Sci. Rep. 9 , 12871 full text (doi)
20822	Bulitta, B., Zuschratter, W., Bernal, I., Bruder, D., Klawonn, F., von Bergen, M., Garritsen, H.S.P., Jänsch, L. (2018): Proteomic definition of human mucosal‐associated invariant T cells determines their unique molecular effector phenotype Eur. J. Immunol. 48 (8), 1336 - 1349 full text (doi)
20683	Campoy, C., Cerdó, T., Ruiz, A., Jauregui, R., von Bergen, M., Suarez, A. (2018): Maternal pre-pregnancy body mass index imprints a gut microbial community composition with a specific functionality Ann. Nutr. Metab. 73 (Suppl. 2), 55 full text (doi)
23929	Canzler, S., Hackermüller, J. (2020): multiGSEA: a GSEA-based pathway enrichment analysis for multi-omics data BMC Bioinformatics 21 , art. 561 full text (doi)
22778	Canzler, S., Schor, J., Busch, W., Schubert, K., Rolle-Kampczyk, U.E., Seitz, H., Kamp, H., von Bergen, M., Buesen, R., Hackermüller, J. (2020): Prospects and challenges of multi‑omics data integration in toxicology Arch. Toxicol. 94 (2), 371 - 388 full text (doi)
17254	Canzler, S., Stadler, P.F., Hertel, J. (2016): U6 snRNA intron insertion occurred multiple times during fungi evolution RNA Biol. 13 (2), 119 - 127 full text (doi)
21393	Canzler, S., Stadler, P.F., Hertel, J. (2017): Evolution of fungal U3 snoRNAs: Structural variation and introns Non-Coding RNA 3 (1), art. 3 full text (doi)
20004	Canzler, S., Stadler, P.F., Schor, J. (2018): The fungal snoRNAome RNA 24 (3), 342 - 360 full text (doi)
20844	Cerdó, T., Ruiz, A., Acuña, I., Jáuregui, R., Jehmlich, N., Haange, S.-B., von Bergen, M., Suárez, A., Campoy, C. (2018): Gut microbial functional maturation and succession during human early life Environ. Microbiol. 20 (6), 2160 - 2177 full text (doi)
24439	Chen, J., Haase, N., Haange, S.-B., Sucher, R., Münzker, J., Jäger, E., Schischke, K., Seyfried, F., von Bergen, M., Hankir, M.K., Krügel, U., Fenske, W.K. (2021): Roux-en-Y gastric bypass contributes to weight loss-independent improvement in hypothalamic inflammation and leptin sensitivity through gut-microglia-neuron-crosstalk Mol. Metab. 48 , art. 101214 full text (doi)
19570	Chupani, L., Niksirat, H., Lünsmann, V., Haange, S.-B., von Bergen, M., Jehmlich, N., Zuskova, E. (2018): Insight into the modulation of intestinal proteome of juvenile common carp (Cyprinus carpio L.) after dietary exposure to ZnO nanoparticles Sci. Total Environ. 613-614 , 62 - 71 full text (doi)
18492	Chupani, L., Zusková, É., Niksirat, H., Panáček, A., Lünsmann, V., Haange, S.-B., von Bergen, M., Jehmlich, N. (2017): Effects of chronic dietary exposure of zinc oxide nanoparticles on the serum protein profile of juvenile common carp (Cyprinus carpio L.) Sci. Total Environ. 579 , 1504 - 1511 full text (doi)
21400	de Araujo Oliveira, J.V., Costa, F., Backofen, R., Stadler, P.F., Walter, M.E.M.T., Hertel, J. (2016): SnoReport 2.0: new features and a refined Support Vector Machine to improve snoRNA identification BMC Bioinformatics 17 (Suppl 18), art. 464 full text (doi)
21292	Deutsch, E.W., Perez-Riverol, Y., Chalkley, R.J., Wilhelm, M., Tate, S., Sachsenberg, T., Walzer, M., Käll, L., Delanghe, B., Böcker, S., Schymanski, E.L., Wilmes, P., Dorfer, V., Kuster, B., Volders, P.-J., Jehmlich, N., Vissers, J.P.C., Wolan, D.W., Wang, A.Y., Mendoza, L., Shofstahl, J., Dowsey, A.W., Griss, J., Salek, R.M., Neumann, S., Binz, P.-A., Lam, H., Vizcaíno, J.A., Bandeira, N., Röst, H. (2018): Expanding the use of spectral libraries in proteomics J. Proteome Res. 17 (12), 4051 - 4060 full text (doi)
17902	Dey, P., Gola, D., Mishra, A., Malik, A., Kumar, P., Singh, D.K., Patel, N., von Bergen, M., Jehmlich, N. (2016): Comparative performance evaluation of multi-metal resistant fungal strains for simultaneous removal of multiple hazardous metals J. Hazard. Mater. 318 , 679 - 685 full text (doi)
22942	Dey, P., Malik, A., Mishra, A., Singh, D.K., von Bergen, M., Jehmlich, N. (2020): Mechanistic insight to mycoremediation potential of a metal resistant fungal strain for removal of hazardous metals from multimetal pesticide matrix Environ. Pollut. 262 , art. 114255 full text (doi)
18498	Dietrich, S., Floegel, A., Troll, M., Kühn, T., Rathmann, W., Peters, A., Sookthai, D., von Bergen, M., Kaaks, R., Adamski, J., Prehn, C., Boeing, H., Schulze, M.B., Illig, T., Pischon, T., Knüppel, S., Wang-Sattler, R., Drogan, D. (2016): Random Survival Forest in practice: a method for modelling complex metabolomics data in time to event analysis Int. J. Epidemiol. 45 (5), 1406 - 1420 full text (doi)
22589	Donath, A., Jühling, F., Al-Arab, M., Bernhart, S.H., Reinhardt, F., Stadler, P.F., Middendorf, M., Bernt, M. (2019): Improved annotation of protein-coding genes boundaries in metazoan mitochondrial genomes Nucleic Acids Res. 47 (20), 10543 - 10552 full text (doi)
17380	Dragelj, J.L., Stanković, I.M., Božinovski, D.M., Meyer, T., Veljković, D.Ž., Medaković, V.B., Knapp, E.W., Zarić, S.D. (2016): C–H/O interactions of aromatic CH donors within proteins: a crystallographic study Cryst. Growth Des. 16 (4), 1948 - 1957 full text (doi)
21932	Drozdova, P., Bedulina, D., Madyarova, E., Rivarola-Duarte, L., Schreiber, S., Stadler, P.F., Luckenbach, T., Timofeyev, M. (2019): Description of strongly heat-inducible heat shock protein 70 transcripts from Baikal endemic amphipods Sci. Rep. 9 , art. 8907 full text (doi)
22169	Drozdova, P., Rivarola-Duarte, L., Bedulina, D., Axenov-Gribanov, D., Schreiber, S., Gurkov, A., Shatilina, Z., Vereshchagina, K., Lubyaga, Y., Madyarova, E., Otto, C., Jühling, F., Busch, W., Jakob, L., Lucassen, M., Sartoris, F.J., Hackermüller, J., Hoffmann, S., Pörtner, H.-O., Luckenbach, T., Timofeyev, M., Stadler, P.F. (2019): Comparison between transcriptomic responses to short-term stress exposures of a common Holarctic and endemic Lake Baikal amphipods BMC Genomics 20 , art. 712 full text (doi)
18629	Ebenau-Jehle, C., Mergelsberg, M., Fischer, S., Brüls, T., Jehmlich, N., von Bergen, M., Boll, M. (2017): An unusual strategy for the anoxic biodegradation of phthalate ISME J. 11 (1), 224 - 236 full text (doi)

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