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15362 Arnold, C., Externbrink, F., Hackermüller, J., Reiche, K. (2014):
CEM-Designer: design of custom expression microarrays in the post-ENCODE era
J. Biotechnol. 189 , 154 - 156
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)
12164 Boll, K., Reiche, K., Kasack, K., Mörbt, N., Kretzschmar, A.K., Tomm, J.M., Verhaegh, G., Schalken, J., von Bergen, M., Horn, F., Hackermüller, J. (2013):
MiR-130a, miR-203 and miR-205 jointly repress key oncogenic pathways and are downregulated in prostate carcinoma
Oncogene 32 , 277 - 285
full text (doi)
20951 Essig, K., Kronbeck, N., Guimaraes, J.C., Lohs, C., Schlundt, A., Hoffmann, A., Behrens, G., Brenner, S., Kowalska, J., Lopez-Rodriguez, C., Jemielity, J., Holtmann, H., Reiche, K., Hackermüller, J., Sattler, M., Zavolan, M., Heissmeyer, V. (2018):
Roquin targets mRNAs in a 3′-UTR-specific manner by different modes of regulation
Nat. Commun. 9 , art. 3810
full text (doi)
23081 Friedrich, M., Wiedemann, K., Reiche, K., Puppel, S.-H., Pfeifer, G., Zipfel, I., Binder, S., Köhl, U., Müller, G.A., Engeland, K., Aigner, A., Füssel, S., Fröhner, M., Peitzsch, C., Dubrovska, A., Rade, M., Christ, S., Schreiber, S., Hackermüller, J., Lehmann, J., Toma, M.I., Muders, M.H., Sommer, U., Baretton, G.B., Wirth, M., Horn, F. (2020):
The role of lncRNAs TAPIR-1 and -2 as diagnostic markers and potential therapeutic targets in prostate cancer
Cancers 12 (5), art. 1122
full text (doi)
14688 Hackermüller, J., Reiche, K., Otto, C., Hösler, N., Blumert, C., Brocke-Heidrich, K., Böhlig, L., Nitsche, A., Kasack, K., Ahnert, P., Krupp, W., Engeland, K., Stadler, P.F., Horn, F. (2014):
Cell cycle, oncogenic and tumor suppressor pathways regulate numerous long and macro non-protein coding RNAs
Genome Biol. 15 (3), R48
full text (doi)
11731 Hösler, N., Hackermüller, J., Reiche, K., Horn, F. (2011):
Identification of ncRNAs regulating differencoation and function of CD4+ T cells. PS2-061
Cytokine 56 (1), 81 - 81
full text (doi)
22544 Kämpf, C., Specht, M., Scholz, A., Puppel, S.-H., Doose, G., Reiche, K., Schor, J., Hackermüller, J. (2019):
uap: reproducible and robust HTS data analysis
BMC Bioinformatics 20 , art. 664
full text (doi)
16196 Kirsten, H., Al-Hasani, H., Holdt, L., Gross, A., Beutner, F., Krohn, K., Ahnert, P., Burkhardt, R., Reiche, K., Hackermüller, J., Löffler, M., Teupser, D., Thiery, J., Scholz, M. (2015):
Dissecting the genetics of the human transcriptome identifies novel trait-related trans-eQTLs and corroborates the regulatory relevance of non-protein coding loci
Hum. Mol. Genet. 24 (16), 4746 - 4763
full text (doi)
23348 Kreuz, M., Otto, D.J., Fuessel, S., Blumert, C., Bertram, C., Bartsch, S., Loeffler, D., Puppel, S.-H., Rade, M., Buschmann, T., Christ, S., Erdmann, K., Friedrich, M., Froehner, M., Muders, M.H., Schreiber, S., Specht, M., Toma, M.I., Benigni, F., Freschi, M., Gandaglia, G., Briganti, A., Baretton, G.B., Loeffler, M., Hackermüller, J., Reiche, K., Wirth, M., Horn, F. (2020):
ProstaTrend—A multivariable prognostic RNA expression score for aggressive prostate cancer
Eur. Urol. 78 (3), 452 - 459
full text (doi)
22921 Nitsche, A., Arnold, C., Ueberham, U., Reiche, K., Fallmann, J., Hackermüller, J., Horn, F., Stadler, P.F., Arendt, T. (2021):
Alzheimer-related genes show accelerated evolution
Mol. Psychiatr. 26 (10), 5790 - 5796
full text (doi)
16144 Nitsche, A., Rose, D., Fasold, M., Reiche, K., Stadler, P.F. (2015):
Comparison of splice sites reveals that long noncoding RNAs are evolutionarily well conserved
RNA 21 (5), 801 - 812
full text (doi)
12542 Otto, C., Reiche, K., Hackermüller, J. (2012):
Detection of differentially expressed segments in tiling array data
Bioinformatics 28 (11), 1471 - 1479
full text (doi)
19823 Rehage, N., Davydova, E., Conrad, C., Behrens, G., Maiser, A., Stehklein, J.E., Brenner, S., Klein, J., Jeridi, A., Hoffmann, A., Lee, E., Dianzani, U., Willemsen, R., Feederle, R., Reiche, K., Hackermüller, J., Leonhardt, H., Sharma, S., Niessing, D., Heissmeyer, V. (2018):
Binding of NUFIP2 to Roquin promotes recognition and regulation of ICOS mRNA
Nat. Commun. 9 , art. 299
full text (doi)
15341 Reiche, K., Kasack, K., Schreiber, S., Lüders, T., Due, E.U., Naume, B., Riis, M., Kristensen, VN, Horn, F., Børresen-Dale, A.L., Hackermüller, J., Baumbusch, L.O. (2014):
Long non-coding RNAs differentially expressed between normal versus primary breast tumor tissues disclose converse changes to breast cancer-related protein-coding genes

PLOS One 9 (9), e106076
full text (doi)
12938 Reiche, K., Schutt, K., Boll, K., Horn, F., Hackermüller, J. (2011):
Bioinformatics for RNomics
In: Mayer, B. (ed.)
Bioinformatics for Omics data
Methods in Molecular Biology 719
Humana Press, p. 299 - 330
full text (doi)
21907 Schüttler, A., Altenburger, R., Ammar, M., Bader-Blukott, M., Jakobs, G., Knapp, J., Krüger, J., Reiche, K., Wu, G.-M., Busch, W. (2019):
Map and model—moving from observation to prediction in toxicogenomics
GigaScience 8 (6), giz057
full text (doi)
18633 Schüttler, A., Reiche, K., Altenburger, R., Busch, W. (2017):
The transcriptome of the zebrafish embryo after chemical exposure: a meta-analysis
Toxicol. Sci. 157 (2), 291 - 304
full text (doi)
12135 Tramontano, A., Donath, A., Bernhart, S.H., Reiche, K., Böhmdorfer, C., Stadler, P.F., Bachmair, A. (2011):
Deletion analysis of the 3' long terminal repeat sequence of plant retrotransposon Tto1 identifies 125 base pairs redundancy as sufficient for first strand transfer
Virology 412 (1), 75 - 82
full text (doi)
12992 von Bergen, M., Reiche, K., Hösler, N., Rockstroh, M., Horn, F., Hackermüller, J., Tomm, J. (2012):
A time resolved analysis of nc/mRNA and protein expression throughout Th cell activation
Immunology 137 (Suppl. S1), 364 - 364
full text (doi)
13925 Will, S., Siebauer, M.F., Heyne, S., Engelhardt, J., Stadler, P.F., Reiche, K., Backofen, R. (2013):
LocARNAscan: Incorporating thermodynamic stability in sequence and structure-based RNA homology search
Algorithms Mol. Biol. 8 , art. 14
full text (doi)
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