Zu Hauptinhalt springen


Our facility has contributed to more than 300 peer-reviewed publications.



[1]       G. Maheshwari et al., “Characterization of the Nutritional Composition of a Biotechnologically Produced Oyster Mushroom and its Physiological Effects in Obese Zucker Rats,” Molecular Nutrition & Food Research, vol. n/a, no. n/a, p. 2000591, doi: 10.1002/mnfr.202000591.

[2]       P. Zhang et al., “The role of interferon regulatory factor 8 for retinal tissue homeostasis and development of choroidal neovascularisation,” Journal of Neuroinflammation, vol. 18, no. 1, p. 215, Sep. 2021, doi: 10.1186/s12974-021-02230-y.

[3]       M. Zarattini et al., “LPMO-oxidized cellulose oligosaccharides evoke immunity in Arabidopsis conferring resistance towards necrotrophic fungus B. cinerea,” Communications Biology, vol. 4, no. 1, p. 727, Jun. 2021, doi: 10.1038/s42003-021-02226-7.

[4]       P. Wieghofer et al., “Mapping the origin and fate of myeloid cells in distinct compartments of the eye by single-cell profiling,” EMBO J, vol. 40, no. 6, pp. e105123–e105123, Mar. 2021, doi: 10.15252/embj.2020105123.

[5]       F. C. Sussmilch et al., “Gaining or cutting SLAC: the evolution of plant guard cell signalling pathways,” bioRxiv, 2021, doi: 10.1101/2021.05.26.445736.

[6]       L. Schmauder and K. Richter, “hsp-90 and unc-45 depletion induce characteristic transcriptional signatures in coexpression cliques of C. elegans,” Scientific Reports, vol. 11, no. 1, p. 12852, Jun. 2021, doi: 10.1038/s41598-021-91690-6.

[7]       A. Schlecht et al., “Secreted Phosphoprotein 1 Expression in Retinal Mononuclear Phagocytes Links Murine to Human Choroidal Neovascularization,” Front Cell Dev Biol, vol. 8, pp. 618598–618598, Jan. 2021, doi: 10.3389/fcell.2020.618598.

[8]       R. C. Schelker et al., “Stanniocalcin 1 is overexpressed in multipotent mesenchymal stromal cells from acute myeloid leukemia patients,” null, vol. 26, no. 1, pp. 565–576, Jan. 2021, doi: 10.1080/16078454.2021.1962048.

[9]       N. Rodriguez et al., “Integrative DNA Methylation and Gene Expression Analysis of Cognitive Behavioral Therapy Response in Children and Adolescents with Obsessive-Compulsive Disorder; a Pilot Study,” Pharmgenomics Pers Med, vol. 14, pp. 757–766, Jun. 2021, doi: 10.2147/PGPM.S313015.

[10]     R. Ringseis, S. M. Grundmann, S. Schuchardt, E. Most, and K. Eder, “Limited Impact of Pivalate-Induced Secondary Carnitine Deficiency on Hepatic Transcriptome and Hepatic and Plasma Metabolome in Nursery Pigs,” Metabolites, vol. 11, no. 9, p. 573, Aug. 2021, doi: 10.3390/metabo11090573.

[11]     R. Ringseis et al., “Swine Inflammation and Necrosis Syndrome Is Associated with Plasma Metabolites and Liver Transcriptome in Affected Piglets,” Animals, vol. 11, no. 3, 2021, doi: 10.3390/ani11030772.

[12]     N. Rachinger et al., “Loss of Gene Information: Discrepancies between RNA Sequencing, cDNA Microarray, and qRT-PCR,” Int J Mol Sci, vol. 22, no. 17, p. 9349, Aug. 2021, doi: 10.3390/ijms22179349.

[13]     S. Nickel et al., “Mesenchymal stromal cells mitigate liver damage after extended resection in the pig by modulating thrombospondin-1/TGF-β,” npj Regenerative Medicine, vol. 6, no. 1, p. 84, Dec. 2021, doi: 10.1038/s41536-021-00194-4.

[14]     K. Mendes et al., “The epigenetic pioneer EGR2 initiates DNA demethylation in differentiating monocytes at both stable and transient binding sites,” Nature Communications, vol. 12, no. 1, p. 1556, Mar. 2021, doi: 10.1038/s41467-021-21661-y.

[15]     A. Martínez-Pinteño et al., “Identification of EP300 as a Key Gene Involved in Antipsychotic-Induced Metabolic Dysregulation Based on Integrative Bioinformatics Analysis of Multi-Tissue Gene Expression Data,” Frontiers in Pharmacology, vol. 12, p. 2125, 2021, doi: 10.3389/fphar.2021.729474.

[16]     M. J. M. Marschall et al., “Effect of Ecdysterone on the Hepatic Transcriptome and Lipid Metabolism in Lean and Obese Zucker Rats,” International Journal of Molecular Sciences, vol. 22, no. 10, 2021, doi: 10.3390/ijms22105241.

[17]     A. K. Lösslein et al., “Monocyte progenitors give rise to multinucleated giant cells,” Nature Communications, vol. 12, no. 1, p. 2027, Apr. 2021, doi: 10.1038/s41467-021-22103-5.

[18]     L. Linck-Paulus et al., “Learning from Embryogenesis—A Comparative Expression Analysis in Melanoblast Differentiation and Tumorigenesis Reveals miRNAs Driving Melanoma Development,” Journal of Clinical Medicine, vol. 10, no. 11, 2021, doi: 10.3390/jcm10112259.

[19]     V. Korz et al., “Striatal Transcriptome Reveals Differences Between Cognitively Impaired and Unimpaired Aged Male Rats,” Front Aging Neurosci, vol. 12, pp. 611572–611572, Jan. 2021, doi: 10.3389/fnagi.2020.611572.

[20]     F. Grünberger et al., “CopR, a Global Regulator of Transcription to Maintain Copper Homeostasis in Pyrococcus furiosus,” Frontiers in Microbiology, vol. 11, p. 3411, 2021, doi: 10.3389/fmicb.2020.613532.

[21]     F. Grünberger et al., “CopR, a Global Regulator of Transcription to Maintain Copper Homeostasis in Pyrococcus furiosus,” Front Microbiol, vol. 11, pp. 613532–613532, Jan. 2021, doi: 10.3389/fmicb.2020.613532.

[22]     P. Gassó et al., “A longitudinal study of gene expression in first-episode schizophrenia; exploring relapse mechanisms by co-expression analysis in peripheral blood,” Transl Psychiatry, vol. 11, no. 1, pp. 539–539, Oct. 2021, doi: 10.1038/s41398-021-01645-8.

[23]     T. M. Fenton et al., “Single-cell characterisation of mononuclear phagocytes in the human intestinal mucosa,” bioRxiv, p. 2021.03.28.437379, Jan. 2021, doi: 10.1101/2021.03.28.437379.

[24]     D. Erny et al., “Microbiota-derived acetate enables the metabolic fitness of the brain innate immune system during health and disease,” Cell Metabolism, vol. 33, no. 11, pp. 2260-2276.e7, Nov. 2021, doi: 10.1016/j.cmet.2021.10.010.

[25]     P. d’Errico et al., “Microglia contribute to the propagation of Aβ into unaffected brain tissue,” Nature Neuroscience, Nov. 2021, doi: 10.1038/s41593-021-00951-0.

[26]     S. Cui et al., “Transcriptional profiling of intervertebral disc in a post-traumatic early degeneration organ culture model,” JOR SPINE, vol. n/a, no. n/a, p. e1146, Apr. 2021, doi: 10.1002/jsp2.1146.

[27]     Christina B. Bielmeier et al., “Retinitis Pigmentosa Results in Neurodegeneration Concomitant With Neuroinflammation, Extracellular Matrix Disorganization and the Upregulation of Neuroprotective Pathways in Glial Cells and Neurons,” Research Square, Oct. 2021, doi: 10.21203/rs.3.rs-101559/v1.

[28]     S. K. Boneva et al., “In-Depth Molecular Characterization of Neovascular Membranes Suggests a Role for Hyalocyte-to-Myofibroblast Transdifferentiation in Proliferative Diabetic Retinopathy,” Front Immunol, vol. 12, pp. 757607–757607, Nov. 2021, doi: 10.3389/fimmu.2021.757607.

[29]     C. B. Bielmeier et al., “Transcriptional Profiling Identifies Upregulation of Neuroprotective Pathways in Retinitis Pigmentosa,” International Journal of Molecular Sciences, vol. 22, no. 12, 2021, doi: 10.3390/ijms22126307.


[30]     E. Ydens et al., “Profiling peripheral nerve macrophages reveals two macrophage subsets with distinct localization, transcriptome and response to injury.,” Nat Neurosci, Apr. 2020, doi: 10.1038/s41593-020-0618-6.

[31]     S. Warsi et al., “BMP signaling is required for postnatal murine hematopoietic stem cell self-renewal,” Haematologica, p. haematol.2019.236125, Jul. 2020, doi: 10.3324/haematol.2019.236125.

[32]     T. Wallach et al., “Identification of CNS Injury-Related microRNAs as Novel Toll-Like Receptor 7/8 Signaling Activators by Small RNA Sequencing,” Cells, vol. 9, no. 1, 2020, doi: 10.3390/cells9010186.

[33]     O. Treeck, M. Skrzypczak, S. Schuler-Toprak, F. Weber, and O. Ortmann, “Long non-coding RNA CCAT1 is overexpressed in endometrial cancer and regulates growth and transcriptome of endometrial adenocarcinoma cells.,” Int J Biochem Cell Biol, p. 105740, Mar. 2020, doi: 10.1016/j.biocel.2020.105740.

[34]     T. Torres et al., “Response to fluoxetine in children and adolescents: a weighted gene co-expression network analysis of peripheral blood,” Am J Transl Res, vol. 12, no. 5, pp. 2028–2040, May 2020.

[35]     M. Thurner et al., “Generation of myogenic progenitor cell-derived smooth muscle cells for sphincter regeneration,” Stem Cell Res Ther, vol. 11, no. 1, pp. 233–233, Jun. 2020, doi: 10.1186/s13287-020-01749-w.

[36]     A. Subramaniam et al., “Lysine-specific demethylase 1A (LSD1) restricts ex vivo propagation of human HSCs and is a target of UM171,” Blood, no. blood.2020005827, Jun. 2020, doi: 10.1182/blood.2020005827.

[37]     Simon Hultmark et al., “Combinatorial molecule screening identifies a novel diterpene and the BET inhibitor CPI-203 as differentiation inducers of primary acute myeloid leukemia cells,” haematol, Aug. 2020, doi: 10.3324/haematol.2020.249177.

[38]     T. Sen et al., “Enhancing mitochondrial function in vivo rescues MDS-like anemia induced by pRb deficiency,” Experimental Hematology, vol. 88, pp. 28–41, Aug. 2020, doi: 10.1016/j.exphem.2020.06.006.

[39]     S. Schüler-Toprak, M. Skrzypczak, T. Ignatov, A. Ignatov, O. Ortmann, and O. Treeck, “G protein-coupled estrogen receptor 1 (GPER-1) and agonist G-1 inhibit growth of ovarian cancer cells by activation of anti-tumoral transcriptome responses: impact of GPER-1 mRNA on survival,” Journal of Cancer Research and Clinical Oncology, Aug. 2020, doi: 10.1007/s00432-020-03333-4.

[40]     L. Schmiderer et al., “Efficient and nontoxic biomolecule delivery to primary human hematopoietic stem cells using nanostraws,” Proc Natl Acad Sci USA, vol. 117, no. 35, p. 21267, Sep. 2020, doi: 10.1073/pnas.2001367117.

[41]     C. Rao et al., “Transcriptome Analysis Reveals Unfolded Protein Response Was Induced During the Early Stage of Burkholderia pseudomallei Infection in A549 Cells,” Frontiers in Genetics, vol. 11, p. 1522, 2020, doi: 10.3389/fgene.2020.585203.

[42]     T. Pfannschmidt, M. J. Terry, O. Van Aken, and P. M. Quiros, “Retrograde signals from endosymbiotic organelles: a common control principle in eukaryotic cells,” Philos Trans R Soc Lond B Biol Sci, vol. 375, no. 1801, pp. 20190396–20190396, Jun. 2020, doi: 10.1098/rstb.2019.0396.

[43]     K. Niss et al., “Complete Topological Mapping of a Cellular Protein Interactome Reveals Bow-Tie Motifs as Ubiquitous Connectors of Protein Complexes,” Cell Reports, vol. 31, no. 11, p. 107763, Jun. 2020, doi: 10.1016/j.celrep.2020.107763.

[44]     S. Müller et al., “SNP dependent modulation of circulating miRNAs from the miR25/93/106 cluster in  patients undergoing weight loss.,” Gene, vol. 753, p. 144787, Aug. 2020, doi: 10.1016/j.gene.2020.144787.

[45]     J. Miro et al., “First Identification of RNA-Binding Proteins That Regulate Alternative Exons in the Dystrophin Gene,” Int J Mol Sci, vol. 21, no. 20, p. 7803, Oct. 2020, doi: 10.3390/ijms21207803.

[46]     J. Minderjahn et al., “Mechanisms governing the pioneering and redistribution capabilities of the non-classical pioneer PU.1.,” Nat Commun, vol. 11, no. 1, p. 402, Jan. 2020, doi: 10.1038/s41467-019-13960-2.

[47]     C. Mezö et al., “Different effects of constitutive and induced microbiota modulation on microglia in a mouse model of Alzheimer’s disease,” Acta Neuropathologica Communications, vol. 8, no. 1, p. 119, Jul. 2020, doi: 10.1186/s40478-020-00988-5.

[48]     S. Meyer et al., “Comprehensive evaluation of the metabolic effects of insect meal from Tenebrio molitor L. in growing pigs by transcriptomics, metabolomics and lipidomics,” J Anim Sci Biotechnol, vol. 11, pp. 20–20, Mar. 2020, doi: 10.1186/s40104-020-0425-7.

[49]     L. Merendino et al., “Retrograde signals from mitochondria reprogramme skoto-morphogenesis in Arabidopsis thaliana via alternative oxidase 1a.,” Philos Trans R Soc Lond B Biol Sci, vol. 375, no. 1801, p. 20190567, Jun. 2020, doi: 10.1098/rstb.2019.0567.

[50]     T. Masuda et al., “Novel Hexb-based tools for studying microglia in the CNS,” Nature Immunology, Jun. 2020, doi: 10.1038/s41590-020-0707-4.

[51]     V. Kumar, L. Vogelsang, R. R. Schmidt, S. S. Sharma, T. Seidel, and K.-J. Dietz, “Remodeling of Root Growth Under Combined Arsenic and Hypoxia Stress Is Linked to Nutrient Deprivation,” Front Plant Sci, vol. 11, pp. 569687–569687, Oct. 2020, doi: 10.3389/fpls.2020.569687.

[52]     K. Krempaska et al., “alphaAzithromycin has enhanced effects on lung fibroblasts from idiopathic pulmonary fibrosis (IPF) patients compared to controls.,” Respir Res, vol. 21, no. 1, p. 25, Jan. 2020, doi: 10.1186/s12931-020-1275-8.

[53]     I. Julca et al., “Comparative transcriptomic analysis reveals conserved transcriptional programs underpinning organogenesis and reproduction in land plants,” bioRxiv, 2020, doi: 10.1101/2020.10.29.361501.

[54]     F. Grünberger et al., “CopR, a global regulator of transcription to maintain copper homeostasis in Pyrococcus furiosus,” bioRxiv, p. 2020.08.14.251413, Jan. 2020, doi: 10.1101/2020.08.14.251413.

[55]     M. Flores-Tornero et al., “Transcriptomic and Proteomic Insights into Amborella trichopoda Male Gametophyte Functions,” Plant Physiology, vol. 184, no. 4, pp. 1640–1657, 2020, doi: 10.1104/pp.20.00837.

[56]     R. Feuerstein et al., “Resident macrophages acquire innate immune memory in staphylococcal skin infection,” eLife, vol. 9, p. e55602, Jul. 2020, doi: 10.7554/eLife.55602.

[57]     A. Duscha et al., “Propionic Acid Shapes the Multiple Sclerosis Disease Course by an Immunomodulatory Mechanism.,” Cell, Mar. 2020, doi: 10.1016/j.cell.2020.02.035.

[58]     K. Dirscherl et al., “Hypoxia sensing by hepatic stellate cells leads to VEGF-dependent angiogenesis and may contribute to accelerated liver regeneration.,” Sci Rep, vol. 10, no. 1, p. 4392, Mar. 2020, doi: 10.1038/s41598-020-60709-9.

[59]     S. K. Boneva et al., “Transcriptional Profiling Uncovers Human Hyalocytes as a Unique Innate Immune Cell Population,” Front Immunol, vol. 11, pp. 567274–567274, Sep. 2020, doi: 10.3389/fimmu.2020.567274.

[60]     M. Boeck et al., “Temporospatial distribution and transcriptional profile of retinal microglia in the oxygen-induced retinopathy mouse model.,” Glia, Mar. 2020, doi: 10.1002/glia.23810.

[61]     R. Agerholm, J. Rizk, D. Kadekar, A. Borch, S. R. Hadrup, and V. Bekiaris, “The retinoic acid receptor drives neuroinflammation and fine tunes the homeostasis of interleukin-17-producing T cells,” bioRxiv, p. 2020.08.12.247510, Jan. 2020, doi: 10.1101/2020.08.12.247510.


[62]     C. Ziegler et al., “The long non-coding RNA LINC00941 and SPRR5 are novel regulators of human epidermal homeostasis,” EMBO Rep, Jan. 2019, doi: 10.15252/embr.201846612.

[63]     O. Treeck, E. Diepolder, M. Skrzypczak, S. Schüler-Toprak, and O. Ortmann, “Knockdown of estrogen receptor β increases proliferation and affects the transcriptome of endometrial adenocarcinoma cells,” BMC cancer, vol. 19, no. 1, p. 745, Jul. 2019, doi: 10.1186/s12885-019-5928-2.

[64]     O. Staszewski and N. Hagemeyer, “Unique microglia expression profile in developing white matter,” BMC Research Notes, vol. 12, no. 1, p. 367, Jul. 2019, doi: 10.1186/s13104-019-4410-1.

[65]     S. Sprunck et al., “Elucidating small RNA pathways in Arabidopsis thaliana egg cells,” bioRxiv, p. 525956, Jan. 2019, doi: 10.1101/525956.

[66]     E. Savchenko et al., “FGF family members differentially regulate maturation and proliferation of stem cell-derived astrocytes,” Scientific reports, vol. 9, no. 1, p. 9610, Jul. 2019, doi: 10.1038/s41598-019-46110-1.

[67]     R. Sankowski et al., “Endogenous retroviruses are associated with hippocampus-based memory impairment,” Proc Natl Acad Sci U S A, Dec. 2019, doi: 10.1073/pnas.1822164116.

[68]     Y. Rondot and A. Reineke, “Endophytic Beauveria bassiana activates expression of defence genes in grapevine and prevents infections by grapevine downy mildew Plasmopara viticola,” Plant Pathology, vol. 68, no. 9, pp. 1719–1731, Dec. 2019, doi: 10.1111/ppa.13089.

[69]     J. Rizk et al., “SMAC mimetics promote NIK-dependent inhibition of CD4(+) TH17 cell differentiation,” Science signaling, vol. 12, no. 596, Aug. 2019, doi: 10.1126/scisignal.aaw3469.

[70]     R. Ringseis, J. O. Zeitz, A. Weber, C. Koch, and K. Eder, “Hepatic transcript profiling in early-lactation dairy cows fed rumen-protected niacin during the transition from late pregnancy to lactation,” Journal of Dairy Science, vol. 102, no. 1, pp. 365–376, Jan. 2019, doi: 10.3168/jds.2018-15232.

[71]     S. Reichelt-Wurm et al., “Glomerular expression pattern of long non-coding RNAs in the type 2 diabetes mellitus BTBR mouse model,” Scientific reports, vol. 9, no. 1, p. 9765, Jul. 2019, doi: 10.1038/s41598-019-46180-1.

[72]     L. Ohler, S. Niopek-Witz, S. E. Mainguet, and T. Möhlmann, “Pyrimidine Salvage: Physiological Functions and Interaction with Chloroplast Biogenesis,” Plant Physiol., vol. 180, no. 4, p. 1816, Aug. 2019, doi: 10.1104/pp.19.00329.

[73]     M. Muhlhofer et al., “The Heat Shock Response in Yeast Maintains Protein Homeostasis by Chaperoning and Replenishing Proteins.,” Cell Rep, vol. 29, no. 13, pp. 4593-4607.e8, Dec. 2019, doi: 10.1016/j.celrep.2019.11.109.

[74]     N. Mendez et al., “Fetal Programming of Renal Dysfunction and High Blood Pressure by Chronodisruption,” Frontiers in Endocrinology, vol. 10, p. 362, 2019, doi: 10.3389/fendo.2019.00362.

[75]     K. Mages et al., “The agonistic TSPO ligand XBD173 attenuates the glial response thereby protecting inner retinal neurons in a murine model of retinal ischemia,” Journal of neuroinflammation, vol. 16, no. 1, p. 43, Feb. 2019, doi: 10.1186/s12974-019-1424-5.

[76]     V. Kumar et al., “Interference between arsenic-induced toxicity and hypoxia,” Plant, Cell & Environment, vol. 42, no. 2, pp. 574–590, Feb. 2019, doi: 10.1111/pce.13441.

[77]     J. Kolter et al., “A Subset of Skin Macrophages Contributes to the Surveillance and Regeneration of Local Nerves,” Immunity, vol. 50, no. 6, pp. 1482-1497.e7, Jun. 2019, doi: 10.1016/j.immuni.2019.05.009.

[78]     M. Kappelmann-Fenzl, C. Gebhard, A. O. Matthies, S. Kuphal, M. Rehli, and A. K. Bosserhoff, “C-Jun drives melanoma progression in PTEN wild type melanoma cells,” Cell death & disease, vol. 10, no. 8, p. 584, Aug. 2019, doi: 10.1038/s41419-019-1821-9.

[79]     C. Halvarsson, E. Rörby, P. Eliasson, S. Lang, S. Soneji, and J.-I. Jönsson, “Putative role of NF-kB but not HIF-1α in hypoxia-dependent regulation of oxidative stress in hematopoietic stem and progenitor cells,” Antioxidants & Redox Signaling, 2019, doi: 10.1089/ars.2018.7551.

[80]     K. Görgülü et al., “Levels of the Autophagy-Related 5 Protein Affect Progression and Metastasis of Pancreatic Tumors in Mice,” Gastroenterology, vol. 156, no. 1, pp. 203-217.e20, Jan. 2019, doi: 10.1053/j.gastro.2018.09.053.

[81]     S. Girardeau-Hubert et al., “Reconstructed Skin Models Revealed Unexpected Differences in Epidermal African and Caucasian Skin,” Scientific reports, vol. 9, no. 1, p. 7456, May 2019, doi: 10.1038/s41598-019-43128-3.

[82]     M. Gillmeister et al., “Polyphenols from Rheum-roots inhibit growth of fungal and oomycete phytopathogens and induce plant disease resistance,” Plant Disease, 2019, doi: 10.1094/PDIS-07-18-1168-RE.

[83]     M. Flores-Tornero, S. Proost, M. Mutwil, C. P. Scutt, T. Dresselhaus, and S. Sprunck, “Transcriptomics of manually isolated Amborella trichopoda egg apparatus cells,” Plant reproduction, Feb. 2019, doi: 10.1007/s00497-019-00361-0.

[84]     J. Fischer et al., “Safeguard function of PU.1 shapes the inflammatory epigenome of neutrophils,” Nature Immunology, Mar. 2019, doi: 10.1038/s41590-019-0343-z.

[85]     A. Eyking, F. Ferber, S. Kohler, H. Reis, and E. Cario, “TRIM58 Restrains Intestinal Mucosal Inflammation by Negatively Regulating TLR2 in Myeloid Cells,” Journal of immunology (Baltimore, Md.: 1950), Aug. 2019, doi: 10.4049/jimmunol.1900413.

[86]     M. M. de Jel, M. Schott, S. Lamm, W. Neuhuber, S. Kuphal, and A. K. Bosserhoff, “Loss of CYLD accelerates melanoma development and progression in the Tg(Grm1) melanoma mouse model,” Oncogenesis, vol. 8, no. 10, p. 56, Oct. 2019, doi: 10.1038/s41389-019-0169-4.

[87]     R. S. Berger et al., “Degradation of D-2-hydroxyglutarate in the presence of isocitrate dehydrogenase mutations.,” Sci Rep, vol. 9, no. 1, p. 7436, May 2019, doi: 10.1038/s41598-019-43891-3.

[88]     K. Begcy, T. Nosenko, L.-Z. Zhou, L. Fragner, W. Weckwerth, and T. Dresselhaus, “Male Sterility in Maize after Transient Heat Stress during the Tetrad Stage of Pollen Development,” Plant Physiol., vol. 181, no. 2, p. 683, Oct. 2019, doi: 10.1104/pp.19.00707.


[89]     T. Zoller et al., “Silencing of TGFbeta signalling in microglia results in impaired homeostasis,” Nat Commun, vol. 9, no. 1, p. 4011, Oct. 2018, doi: 10.1038/s41467-018-06224-y.

[90]     E. A. A. Yousef, T. Muller, A. Borner, and K. J. Schmid, “Comparative analysis of genetic diversity and differentiation of cauliflower (Brassica oleracea var. botrytis) accessions from two ex situ genebanks,” PLoS ONE, vol. 13, no. 2, p. e0192062, 2018, doi: 10.1371/journal.pone.0192062.

[91]     S. Voet et al., “A20 critically controls microglia activation and inhibits inflammasome-dependent neuroinflammation,” Nat Commun, vol. 9, no. 1, p. 2036, May 2018, doi: 10.1038/s41467-018-04376-5.

[92]     M. Thurner et al., “Development of an in vitro potency assay for human skeletal muscle derived cells,” PLoS ONE, vol. 13, no. 3, p. e0194561, 2018, doi: 10.1371/journal.pone.0194561.

[93]     M. S. Talkhoncheh, A. Subramaniam, M. Magnusson, P. Kumar, J. Larsson, and A. Baudet, “Transient inhibition of NF-kappaB signaling enhances ex vivo propagation of human hematopoietic stem cells,” Haematologica, vol. 103, no. 9, pp. 1444–1450, Sep. 2018, doi: 10.3324/haematol.2018.188466.

[94]     M. Schulze et al., “Sporadic Parkinson’s disease derived neuronal cells show disease-specific mRNA and small RNA signatures with abundant deregulation of piRNAs,” Acta neuropathologica communications, vol. 6, no. 1, p. 58, Jul. 2018, doi: 10.1186/s40478-018-0561-x.

[95]     M. Schulze et al., “Chronophin regulates active vitamin B6 levels and transcriptomic features of glioblastoma cell lines cultured under non-adherent, serum-free conditions,” BMC cancer, vol. 18, no. 1, p. 524, May 2018, doi: 10.1186/s12885-018-4440-4.

[96]     M. Schott et al., “Selenium-binding protein 1 is down-regulated in malignant melanoma,” Oncotarget, vol. 9, no. 12, pp. 10445–10456, Feb. 2018, doi: 10.18632/oncotarget.23853.

[97]     P. Schafer et al., “Reconstitution of mammalian Cleavage Factor II involved in 3’ processing of mRNA precursors,” RNA (New York, N.Y.), Aug. 2018, doi: 10.1261/rna.068056.118.

[98]     E. R. Salazar et al., “Gestational chronodisruption leads to persistent changes in the rat fetal and adult adrenal clock and function,” The Journal of physiology, Aug. 2018, doi: 10.1113/jp276083.

[99]     D. A. Ruess et al., “Mutant KRAS-driven cancers depend on PTPN11/SHP2 phosphatase,” Nature medicine, vol. 24, no. 7, pp. 954–960, Jul. 2018, doi: 10.1038/s41591-018-0024-8.

[100]   R. Reichelt, K. M. A. Ruperti, M. Kreuzer, S. Dexl, M. Thomm, and W. Hausner, “The Transcriptional Regulator TFB-RF1 Activates Transcription of a Putative ABC Transporter in Pyrococcus furiosus,” Frontiers in microbiology, vol. 9, p. 838, 2018, doi: 10.3389/fmicb.2018.00838.

[101]   J. M. Ramos Pittol, A. Oruba, G. Mittler, S. Saccani, and D. van Essen, “Zbtb7a is a transducer for the control of promoter accessibility by NF-kappa B and multiple other transcription factors,” PLoS biology, vol. 16, no. 5, p. e2004526, May 2018, doi: 10.1371/journal.pbio.2004526.

[102]   A. Pfab, M. Breindl, and K. D. Grasser, “The Arabidopsis histone chaperone FACT is required for stress-induced expression of anthocyanin biosynthetic genes,” Plant molecular biology, Jan. 2018, doi: 10.1007/s11103-018-0701-5.

[103]   G. Martin, D. Conrad, B. Cakir, G. Schlunck, and H. T. Agostini, “Gene expression profiling in a mouse model of retinal vein occlusion induced by laser treatment reveals a predominant inflammatory and tissue damage response,” PLoS ONE, vol. 13, no. 3, p. e0191338, 2018, doi: 10.1371/journal.pone.0191338.

[104]   G. Locatelli et al., “Mononuclear phagocytes locally specify and adapt their phenotype in a multiple sclerosis model,” Nature neuroscience, vol. 21, no. 9, pp. 1196–1208, Sep. 2018, doi: 10.1038/s41593-018-0212-3.

[105]   L. Linck et al., “MicroRNA-sequencing data analyzing melanoma development and progression,” Experimental and molecular pathology, Nov. 2018, doi: 10.1016/j.yexmp.2018.11.001.

[106]   A. Frudinger, R. Marksteiner, J. Pfeifer, E. Margreiter, J. Paede, and M. Thurner, “Skeletal muscle-derived cell implantation for the treatment of sphincter-related faecal incontinence,” Stem cell research & therapy, vol. 9, no. 1, p. 233, Sep. 2018, doi: 10.1186/s13287-018-0978-y.

[107]   M. Datta et al., “Histone Deacetylases 1 and 2 Regulate Microglia Function during Development, Homeostasis, and Neurodegeneration in a Context-Dependent Manner,” Immunity, vol. 48, no. 3, pp. 514-529.e6, Mar. 2018, doi: 10.1016/j.immuni.2018.02.016.

[108]   K. Dannhausen, C. Mohle, and T. Langmann, “Immunomodulation with minocycline rescues retinal degeneration in juvenile neuronal ceroid lipofuscinosis mice highly susceptible to light damage,” Disease models & mechanisms, vol. 11, no. 9, Sep. 2018, doi: 10.1242/dmm.033597.

[109]   D. Chittka et al., “Long-term expression of glomerular genes in diabetic nephropathy,” Nephrology, dialysis, transplantation: official publication of the European Dialysis and Transplant Association - European Renal Association, Jan. 2018, doi: 10.1093/ndt/gfx359.

[110]   M. Boesch et al., “Interleukin 7-expressing fibroblasts promote breast cancer growth through sustenance of tumor cell stemness,” Oncoimmunology, vol. 7, no. 4, p. e1414129, 2018, doi: 10.1080/2162402x.2017.1414129.


[111]   M. Wroblewski et al., “Mast cells decrease efficacy of anti-angiogenic therapy by secreting matrix-degrading granzyme B,” Nat Commun, vol. 8, no. 1, p. 269, Aug. 2017, doi: 10.1038/s41467-017-00327-8.

[112]   T. L. Tay et al., “A new fate mapping system reveals context-dependent random or clonal expansion of microglia,” Nature neuroscience, vol. 20, no. 6, pp. 793–803, Jun. 2017, doi: 10.1038/nn.4547.

[113]   H. M. Tautenhahn et al., “Mesenchymal stem cells correct haemodynamic dysfunction associated with liver injury after extended resection in a pig model,” Scientific reports, vol. 7, no. 1, p. 2617, Jun. 2017, doi: 10.1038/s41598-017-02670-8.

[114]   J. Szczyrba et al., “Analysis of Argonaute Complex Bound mRNAs in DU145 Prostate Carcinoma Cells Reveals New miRNA Target Genes,” Prostate cancer, vol. 2017, p. 4893921, 2017, doi: 10.1155/2017/4893921.

[115]   S. Schuler-Toprak, C. Moehle, M. Skrzypczak, O. Ortmann, and O. Treeck, “Effect of estrogen receptor beta agonists on proliferation and gene expression of ovarian cancer cells,” BMC cancer, vol. 17, no. 1, p. 319, May 2017, doi: 10.1186/s12885-017-3246-0.

[116]   O. Safronov et al., “Detecting early signs of heat and drought stress in Phoenix dactylifera (date palm),” PLoS ONE, vol. 12, no. 6, p. e0177883, 2017, doi: 10.1371/journal.pone.0177883.

[117]   R. Pohl et al., “Hepatic chemerin mRNA expression is reduced in human nonalcoholic steatohepatitis,” European journal of clinical investigation, vol. 47, no. 1, pp. 7–18, Jan. 2017, doi: 10.1111/eci.12695.

[118]   H. M. Muller et al., “The desert plant Phoenix dactylifera closes stomata via nitrate-regulated SLAC1 anion channel,” The New phytologist, vol. 216, no. 1, pp. 150–162, Oct. 2017, doi: 10.1111/nph.14672.

[119]   M. Mondragon-Palomino, R. Stam, A. John-Arputharaj, and T. Dresselhaus, “Diversification of defensins and NLRs in Arabidopsis species by different evolutionary mechanisms,” BMC evolutionary biology, vol. 17, no. 1, p. 255, Dec. 2017, doi: 10.1186/s12862-017-1099-4.

[120]   M. Leist et al., “Membrane-bound stem cell factor is the major but not only driver of fibroblast-induced murine skin mast cell differentiation,” Experimental dermatology, vol. 26, no. 3, pp. 255–262, Mar. 2017, doi: 10.1111/exd.13206.

[121]   A. Kaser-Eichberger et al., “Distribution of the neuro-regulatory peptide galanin in the human eye,” Neuropeptides, vol. 64, pp. 85–93, Aug. 2017, doi: 10.1016/j.npep.2016.11.007.

[122]   E. M. Hennenberg, A. Eyking, H. Reis, and E. Cario, “MDR1A deficiency restrains tumor growth in murine colitis-associated carcinogenesis,” PLoS ONE, vol. 12, no. 7, p. e0180834, 2017, doi: 10.1371/journal.pone.0180834.

[123]   N. Hagemeyer et al., “Microglia contribute to normal myelinogenesis and to oligodendrocyte progenitor maintenance during adulthood,” Acta neuropathologica, vol. 134, no. 3, pp. 441–458, Sep. 2017, doi: 10.1007/s00401-017-1747-1.

[124]   B. Grubler et al., “Light and Plastid Signals Regulate Different Sets of Genes in the Albino Mutant Pap7-1,” Plant physiology, vol. 175, no. 3, pp. 1203–1219, Nov. 2017, doi: 10.1104/pp.17.00982.

[125]   K. Gharun et al., “Mycobacteria exploit nitric oxide-induced transformation of macrophages into permissive giant cells,” EMBO Rep, vol. 18, no. 12, pp. 2144–2159, Dec. 2017, doi: 10.15252/embr.201744121.

[126]   D. K. Gessner et al., “Analysis of hepatic transcript profile and plasma lipid profile in early lactating dairy cows fed grape seed and grape marc meal extract,” BMC genomics, vol. 18, no. 1, p. 253, Mar. 2017, doi: 10.1186/s12864-017-3638-1.

[127]   K. Gerl et al., “Activation of Hypoxia Signaling in Stromal Progenitors Impairs Kidney Development,” The American journal of pathology, vol. 187, no. 7, pp. 1496–1511, Jul. 2017, doi: 10.1016/j.ajpath.2017.03.014.

[128]   P. Gasso et al., “Microarray gene-expression study in fibroblast and lymphoblastoid cell lines from antipsychotic-naive first-episode schizophrenia patients,” Journal of psychiatric research, vol. 95, pp. 91–101, Dec. 2017, doi: 10.1016/j.jpsychires.2017.08.003.

[129]   J. Chen et al., “Zygotic Genome Activation Occurs Shortly after Fertilization in Maize,” The Plant cell, vol. 29, no. 9, pp. 2106–2125, Sep. 2017, doi: 10.1105/tpc.17.00099.


[130]   D. Voller et al., “Argonaute Family Protein Expression in Normal Tissue and Cancer Entities,” PLoS ONE, vol. 11, no. 8, p. e0161165, 2016, doi: 10.1371/journal.pone.0161165.

[131]   K. M. Sitnik et al., “Context-Dependent Development of Lymphoid Stroma from Adult CD34(+) Adventitial Progenitors,” Cell reports, vol. 14, no. 10, pp. 2375–88, Mar. 2016, doi: 10.1016/j.celrep.2016.02.033.

[132]   S. Schuler-Toprak, J. Haring, E. C. Inwald, C. Moehle, O. Ortmann, and O. Treeck, “Agonists and knockdown of estrogen receptor beta differentially affect invasion of triple-negative breast cancer cells in vitro,” BMC cancer, vol. 16, no. 1, p. 951, Dec. 2016, doi: 10.1186/s12885-016-2973-y.

[133]   A. Rundberg Nilsson, S. Soneji, S. Adolfsson, D. Bryder, and C. J. Pronk, “Human and Murine Hematopoietic Stem Cell Aging Is Associated with Functional Impairments and Intrinsic Megakaryocytic/Erythroid Bias,” PLoS ONE, vol. 11, no. 7, p. e0158369, 2016, doi: 10.1371/journal.pone.0158369.

[134]   R. Ringseis, W. Windisch, and K. Eder, “Transcript profiling in the liver of early-lactating dairy cows fed conjugated linoleic acid,” Genomics Data, vol. 10, pp. 101–103, Dec. 2016, doi: 10.1016/j.gdata.2016.10.004.

[135]   P. Riemke et al., “Myeloid leukemia with transdifferentiation plasticity developing from T-cell progenitors,” The EMBO journal, vol. 35, no. 22, pp. 2399–2416, Nov. 2016, doi: 10.15252/embj.201693927.

[136]   K.; S. Papsdorf, “Construction and evaluation of yeast expression networks by database-guided predictions.,” Microbial Cell, vol. 3, no. 6, pp. 236–247, Jun. 2016, doi: 10.15698/mic2016.06.505.

[137]   S. Moeckel et al., “Validation Study: Response-Predictive Gene Expression Profiling of Glioma Progenitor Cells In Vitro,” PLoS ONE, vol. 11, no. 3, p. e0151312, 2016, doi: 10.1371/journal.pone.0151312.

[138]   S. Mas et al., “Network analysis of gene expression in mice provides new evidence of involvement of the mTOR pathway in antipsychotic-induced extrapyramidal symptoms,” Pharmacogenomics J, vol. 16, no. 3, pp. 293–300, Jun. 2016, doi: 10.1038/tpj.2015.48.

[139]   A. Klein et al., “A novel intracellular mutualistic bacterium in the invasive ant Cardiocondyla obscurior,” ISME J, vol. 10, no. 2, pp. 376–88, Feb. 2016, doi: 10.1038/ismej.2015.119.

[140]   S. Hoja et al., “Molecular dissection of the valproic acid effects on glioma cells,” Oncotarget, vol. 7, no. 39, pp. 62989–63002, Sep. 2016, doi: 10.18632/oncotarget.11379.

[141]   C. Hantel et al., “TNF alpha signaling is associated with therapeutic responsiveness to vascular disrupting agents in endocrine tumors,” Molecular and cellular endocrinology, vol. 423, pp. 87–95, Mar. 2016, doi: 10.1016/j.mce.2015.12.009.

[142]   S. Han et al., “Systemic Responses of Barley to the 3-hydroxy-decanoyl-homoserine Lactone Producing Plant Beneficial Endophyte Acidovorax radicis N35,” Frontiers in plant science, vol. 7, p. 1868, 2016, doi: 10.3389/fpls.2016.01868.

[143]   N. Hagemeyer et al., “Transcriptome-based profiling of yolk sac-derived macrophages reveals a role for Irf8 in macrophage maturation,” The EMBO journal, vol. 35, no. 16, pp. 1730–44, Aug. 2016, doi: 10.15252/embj.201693801.

[144]   P. Blanc et al., “Mature IgM-expressing plasma cells sense antigen and develop competence for cytokine production upon antigenic challenge,” Nat Commun, vol. 7, p. 13600, Dec. 2016, doi: 10.1038/ncomms13600.

[145]   D.; R. Beier, “Metabolic challenge of proneural glioblastoma cancer stem cell lines does not induce a mesenchymal transformation in vitro.,” Int J Clin Exp Pathol, vol. 9(7), pp. 6724–6737, Jul. 2016.


[146]   S. Weber, A. Hofmann, S. Herms, P. Hoffmann, and W. Doerfler, “Destabilization of the human epigenome: consequences of foreign DNA insertions,” Epigenomics, vol. 7, no. 5, pp. 745–55, Aug. 2015, doi: 10.2217/epi.15.40.

[147]   K. von Wyschetzki, O. Rueppell, J. Oettler, and J. Heinze, “Transcriptomic Signatures Mirror the Lack of the Fecundity/Longevity Trade-Off in Ant Queens,” Molecular biology and evolution, vol. 32, no. 12, pp. 3173–85, Dec. 2015, doi: 10.1093/molbev/msv186.

[148]   K. Vahabi, I. Sherameti, M. Bakshi, A. Mrozinska, A. Ludwig, and R. Oelmüller, “Microarray analyses during early and later stages of the Arabidopsis/Piriformospora indica interaction,” Genomics Data, vol. 6, pp. 16–18, 2015, doi: dx.doi.org/10.1016/j.gdata.2015.07.019.

[149]   K. Vahabi et al., “The interaction of Arabidopsis with Piriformospora indica shifts from initial transient stress induced by fungus-released chemical mediators to a mutualistic interaction after physical contact of the two symbionts,” BMC plant biology, vol. 15, p. 58, 2015, doi: 10.1186/s12870-015-0419-3.

[150]   R. Thaler et al., “Acute-phase protein serum amyloid A3 is a novel paracrine coupling factor that controls bone homeostasis,” FASEB journal: official publication of the Federation of American Societies for Experimental Biology, vol. 29, no. 4, pp. 1344–59, Apr. 2015, doi: 10.1096/fj.14-265512.

[151]   M. Tausendschön et al., “Genome-wide identification of hypoxia-inducible factor-1 and -2 binding sites in hypoxic human macrophages alternatively activated by IL-10,” Biochimica et Biophysica Acta (BBA) - Gene Regulatory Mechanisms, vol. 1849, no. 1, pp. 10–22, 2015, doi: dx.doi.org/10.1016/j.bbagrm.2014.10.006.

[152]   F. Szulzewsky et al., “Glioma-Associated Microglia/Macrophages Display an Expression Profile Different from M1 and M2 Polarization and Highly Express Gpnmb and Spp1,” PLoS ONE, vol. 10, no. 2, p. e0116644, 2015, doi: 10.1371/journal.pone.0116644.

[153]   H. Stangl, H. R. Springorum, D. Muschter, S. Grassel, and R. H. Straub, “Catecholaminergic-to-cholinergic transition of sympathetic nerve fibers is stimulated under healthy but not under inflammatory arthritic conditions,” Brain, behavior, and immunity, vol. 46, pp. 180–91, May 2015, doi: 10.1016/j.bbi.2015.02.022.

[154]   C. Spichiger, C. Torres-Farfan, H. A. Galdames, N. Mendez, P. Alonso-Vazquez, and H. G. Richter, “Gestation under chronic constant light leads to extensive gene expression changes in the fetal rat liver,” Physiological genomics, vol. 47, no. 12, pp. 621–33, Dec. 2015, doi: 10.1152/physiolgenomics.00023.2015.

[155]   L. Schrader, D. F. Simola, J. Heinze, and J. Oettler, “Sphingolipids, Transcription Factors, and Conserved Toolkit Genes: Developmental Plasticity in the Ant Cardiocondyla obscurior,” Molecular biology and evolution, vol. 32, no. 6, pp. 1474–86, Jun. 2015, doi: 10.1093/molbev/msv039.

[156]   R. Scholz, M. Sobotka, A. Caramoy, T. Stempfl, C. Moehle, and T. Langmann, “Minocycline counter-regulates pro-inflammatory microglia responses in the retina and protects from degeneration,” Journal of neuroinflammation, vol. 12, no. 1, p. 209, 2015, doi: 10.1186/s12974-015-0431-4.

[157]   L. Rein-Fischboeck et al., “Hepatic scavenger receptor BI is associated with type 2 diabetes but unrelated to human and murine non-alcoholic fatty liver disease,” Biochemical and biophysical research communications, vol. 467, no. 2, pp. 377–82, Nov. 2015, doi: 10.1016/j.bbrc.2015.09.149.

[158]   J. Miro et al., “FUBP1: a new protagonist in splicing regulation of the DMD gene,” Nucleic acids research, vol. 43, no. 4, pp. 2378–89, Feb. 2015, doi: 10.1093/nar/gkv086.

[159]   M. Matsuo et al., “High REDOX RESPONSIVE TRANSCRIPTION FACTOR1 Levels Result in Accumulation of Reactive Oxygen Species in Arabidopsis thaliana Shoots and Roots,” Molecular plant, vol. 8, no. 8, pp. 1253–73, Aug. 2015, doi: 10.1016/j.molp.2015.03.011.

[160]   S. Mas, P. Gasso, E. Parellada, M. Bernardo, and A. Lafuente, “Network analysis of gene expression in peripheral blood identifies mTOR and NF-kappaB pathways involved in antipsychotic-induced extrapyramidal symptoms,” Pharmacogenomics J, vol. 15, no. 5, pp. 452–60, Oct. 2015, doi: 10.1038/tpj.2014.84.

[161]   H. Karlic et al., “Inhibition of the mevalonate pathway affects epigenetic regulation in cancer cells,” Cancer Genetics, vol. 208, no. 5, pp. 241–52, May 2015, doi: 10.1016/j.cancergen.2015.03.008.

[162]   S. Hunten et al., “p53-Regulated Networks of Protein, mRNA, miRNA, and lncRNA Expression Revealed by Integrated Pulsed Stable Isotope Labeling With Amino Acids in Cell Culture (pSILAC) and Next Generation Sequencing (NGS) Analyses,” Molecular & cellular proteomics: MCP, vol. 14, no. 10, pp. 2609–29, Oct. 2015, doi: 10.1074/mcp.M115.050237.

[163]   C. J. Hoffmann et al., “Vascular signal transducer and activator of transcription-3 promotes angiogenesis and neuroplasticity long-term after stroke,” Circulation, vol. 131, no. 20, pp. 1772–82, May 2015, doi: 10.1161/circulationaha.114.013003.

[164]   G. Heller et al., “EVI1 promotes tumor growth via transcriptional repression of MS4A3,” J Hematol Oncol, vol. 8, no. 1, pp. 1–14, Mar. 2015, doi: 10.1186/s13045-015-0124-6.

[165]   A. F. Heiseke et al., “IRAK1 Drives Intestinal Inflammation by Promoting the Generation of Effector Th Cells with Optimal Gut-Homing Capacity,” Journal of immunology (Baltimore, Md.: 1950), vol. 195, no. 12, pp. 5787–94, Dec. 2015, doi: 10.4049/jimmunol.1501874.

[166]   M. J. Geels et al., “TRANSVAC research infrastructure - Results and lessons learned from the European network of vaccine research and development,” Vaccine, vol. 33, no. 41, pp. 5481–7, Oct. 2015, doi: 10.1016/j.vaccine.2015.01.079.

[167]   D. Erny et al., “Host microbiota constantly control maturation and function of microglia in the CNS,” Nature neuroscience, vol. 18, no. 7, pp. 965–77, Jul. 2015, doi: 10.1038/nn.4030.

[168]   J. C. Engelmann et al., “Causal Modeling of Cancer-Stromal Communication Identifies PAPPA as a Novel Stroma-Secreted Factor Activating NFkappaB Signaling in Hepatocellular Carcinoma,” PLoS computational biology, vol. 11, no. 5, p. e1004293, May 2015, doi: 10.1371/journal.pcbi.1004293.

[169]   L. Dietzel et al., “Identification of Early Nuclear Target Genes of Plastidial Redox Signals that Trigger the Long-Term Response of Arabidopsis to Light Quality Shifts,” Molecular plant, vol. 8, no. 8, pp. 1237–52, Aug. 2015, doi: 10.1016/j.molp.2015.03.004.

[170]   K. N. Diakopoulos et al., “Impaired autophagy induces chronic atrophic pancreatitis in mice via sex- and nutrition-dependent processes,” Gastroenterology, vol. 148, no. 3, pp. 626-638.e17, Mar. 2015, doi: 10.1053/j.gastro.2014.12.003.

[171]   K. Z. Chapman et al., “Inflammation without neuronal death triggers striatal neurogenesis comparable to stroke,” Neurobiology of disease, vol. 83, pp. 1–15, Aug. 2015, doi: 10.1016/j.nbd.2015.08.013.

[172]   S. M. Brunner et al., “Tumor-infiltrating, interleukin-33-producing effector-memory CD8(+) T cells in resected hepatocellular carcinoma prolong patient survival,” Hepatology (Baltimore, Md.), vol. 61, no. 6, pp. 1957–67, Jun. 2015, doi: 10.1002/hep.27728.

[173]   J. S. Breitenbach et al., “Transcriptome and ultrastructural changes in dystrophic Epidermolysis bullosa resemble skin aging,” Aging, vol. 7, no. 6, pp. 389–411, Jun. 2015.

[174]   R. Beltran-Debon et al., “The acute impact of polyphenols from Hibiscus sabdariffa in metabolic homeostasis: an approach combining metabolomics and gene-expression analyses,” Food & Function, vol. 6, no. 9, pp. 2957–66, Sep. 2015, doi: 10.1039/c5fo00696a.

[175]   F. Bellutti, M. Kauer, D. Kneidinger, T. Lion, and R. Klein, “Identification of RISC-associated adenoviral microRNAs, a subset of their direct targets, and global changes in the targetome upon lytic adenovirus 5 infection,” Journal of virology, vol. 89, no. 3, pp. 1608–27, Feb. 2015, doi: 10.1128/jvi.02336-14.


[176]   C. Vesely, S. Tauber, F. J. Sedlazeck, M. Tajaddod, A. von Haeseler, and M. F. Jantsch, “ADAR2 induces reproducible changes in sequence and abundance of mature microRNAs in the mouse brain,” Nucleic acids research, vol. 42, no. 19, pp. 12155–68, Oct. 2014, doi: 10.1093/nar/gku844.

[177]   M. Torrado et al., “Pitx2c is reactivated in the failing myocardium and stimulates myf5 expression in cultured cardiomyocytes,” PLoS ONE, vol. 9, no. 3, p. e90561, 2014, doi: 10.1371/journal.pone.0090561.

[178]   B. Steinmetz et al., “The oncogene EVI1 enhances transcriptional and biological responses of human myeloid cells to all-trans retinoic acid,” Cell Cycle, vol. 13, no. 18, pp. 2931–2943, Sep. 2014, doi: 10.4161/15384101.2014.946869.

[179]   I. Spellmann et al., “Pleckstrin homology domain containing 6 protein (PLEKHA6) polymorphisms are associated with psychopathology and response to treatment in schizophrenic patients,” Progress in neuro-psychopharmacology & biological psychiatry, vol. 51, pp. 190–5, Jun. 2014, doi: 10.1016/j.pnpbp.2014.02.006.

[180]   L. Schrader et al., “Transposable element islands facilitate adaptation to novel environments in an invasive species,” Nat Commun, vol. 5, p. 5495, Dec. 2014, doi: 10.1038/ncomms6495.

[181]   J. Schmitz et al., “The essential role of sugar metabolism in the acclimation response of Arabidopsis thaliana to high light intensities,” Journal of experimental botany, vol. 65, no. 6, pp. 1619–36, Apr. 2014, doi: 10.1093/jxb/eru027.

[182]   M. L. Oelze, M. Muthuramalingam, M. O. Vogel, and K. J. Dietz, “The link between transcript regulation and de novo protein synthesis in the retrograde high light acclimation response of Arabidopsis thaliana,” BMC genomics, vol. 15, p. 320, 2014, doi: 10.1186/1471-2164-15-320.

[183]   T. Müller, F. Freund, H. Wildhagen, and K. Schmid, “Targeted re-sequencing of five Douglas-fir provenances reveals population structure and putative target genes of positive selection,” Tree Genetics & Genomes, vol. 11, no. 1, pp. 1–17, Dec. 2014, doi: 10.1007/s11295-014-0816-z.

[184]   S. Moeckel et al., “Response-predictive gene expression profiling of glioma progenitor cells in vitro,” PLoS ONE, vol. 9, no. 9, p. e108632, 2014, doi: 10.1371/journal.pone.0108632.

[185]   M. Mascher, N. Gerlach, M. Gahrtz, M. Bucher, U. Scholz, and T. Dresselhaus, “Sequence and ionomic analysis of divergent strains of maize inbred line B73 with an altered growth phenotype,” PLoS ONE, vol. 9, no. 5, p. e96782, 2014, doi: 10.1371/journal.pone.0096782.

[186]   D. Li et al., “Myeloid cell RelA/p65 promotes lung cancer proliferation through Wnt/beta-catenin signaling in murine and human tumor cells,” Oncogene, vol. 33, no. 10, pp. 1239–48, Mar. 2014, doi: 10.1038/onc.2013.75.

[187]   C. Lattrich, S. Schuler, J. Haring, M. Skrzypczak, O. Ortmann, and O. Treeck, “Effects of a combined treatment with tamoxifen and estrogen receptor beta agonists on human breast cancer cell lines,” Archives of gynecology and obstetrics, vol. 289, no. 1, pp. 163–71, Jan. 2014, doi: 10.1007/s00404-013-2977-7.

[188]   M. Kutyniok, A. Viehhauser, M. O. Vogel, K. J. Dietz, and C. Muller, “Local and systemic transcriptional responses to crosstalk between above- and belowground herbivores in Arabidopsis thaliana,” Plant signaling & behavior, vol. 9, no. 11, p. e976113, 2014, doi: 10.4161/15592324.2014.976113.

[189]   T. W. Kelso et al., “Cyclin-dependent kinase 7 controls mRNA synthesis by affecting stability of preinitiation complexes, leading to altered gene expression, cell cycle progression, and survival of tumor cells,” Molecular and cellular biology, vol. 34, no. 19, pp. 3675–88, Oct. 2014, doi: 10.1128/mcb.00595-14.

[190]   M. Kandasamy et al., “TGF-beta signalling in the adult neurogenic niche promotes stem cell quiescence as well as generation of new neurons,” Journal of cellular and molecular medicine, vol. 18, no. 7, pp. 1444–1459, Jul. 2014, doi: 10.1111/jcmm.12298.

[191]   C. Glasser et al., “Meta-Analysis of Retrograde Signaling in Arabidopsis thaliana Reveals a Core Module of Genes Embedded in Complex Cellular Signaling Networks,” Molecular plant, vol. 7, no. 7, pp. 1167–90, Jul. 2014, doi: 10.1093/mp/ssu042.

[192]   H. A. Galdames et al., “Impact of gestational chronodisruption on fetal cardiac genomics,” Journal of Molecular and Cellular Cardiology, vol. 66, no. 0, pp. 1–11, 2014, doi: dx.doi.org/10.1016/j.yjmcc.2013.10.020.

[193]   O. Felthaus et al., “Dexamethasone-related osteogenic differentiation of dental follicle cells depends on ZBTB16 but not Runx2,” Cell and tissue research, vol. 357, no. 3, pp. 695–705, Sep. 2014, doi: 10.1007/s00441-014-1891-z.

[194]   J. Durr et al., “The transcript elongation factor SPT4/SPT5 is involved in auxin-related gene expression in Arabidopsis,” Nucleic acids research, vol. 42, no. 7, pp. 4332–47, Apr. 2014, doi: 10.1093/nar/gku096.

[195]   C. Dorn et al., “Increased expression of c-Jun in nonalcoholic fatty liver disease,” Laboratory investigation; a journal of technical methods and pathology, vol. 94, no. 4, pp. 394–408, Apr. 2014, doi: 10.1038/labinvest.2014.3.

[196]   S. Dey et al., “Bacteria-Triggered Systemic Immunity in Barley Is Associated with WRKY and ETHYLENE RESPONSIVE FACTORs But Not with Salicylic Acid,” vol. 166, no. 4, pp. 2133–51, Dec. 2014, doi: 10.1104/pp.114.249276.

[197]   M. M. de Jel, J. C. Engelmann, M. Kunz, S. Schiffner, S. Kuphal, and A. K. Bosserhoff, “Transcriptome sequencing of melanocytic nevi and melanomas from Grm1 transgenic mice to determine melanoma driver mutations,” Pigment Cell & Melanoma Research, vol. 27, no. 4, pp. 678–680, Jul. 2014, doi: 10.1111/pcmr.12244.

[198]   C. Daussy et al., “T-bet and Eomes instruct the development of two distinct natural killer cell lineages in the liver and in the bone marrow,” The Journal of experimental medicine, vol. 211, no. 3, pp. 563–77, Mar. 2014, doi: 10.1084/jem.20131560.

[199]   K. Alsharafa et al., “Kinetics of retrograde signalling initiation in the high light response of Arabidopsis thaliana,” Philosophical transactions of the Royal Society of London. Series B, Biological sciences, vol. 369, no. 1640, p. 20130424, Apr. 2014, doi: 10.1098/rstb.2013.0424.

[200]   T. K. Albert et al., “Characterization of molecular and cellular functions of the cyclin-dependent kinase CDK9 using a novel specific inhibitor,” British journal of pharmacology, vol. 171, no. 1, pp. 55–68, Jan. 2014, doi: 10.1111/bph.12408.


[201]   C. Zollbrecht et al., “Expression pattern in human macrophages dependent on 9p21.3 coronary artery disease risk locus,” Atherosclerosis, vol. 227, no. 2, pp. 244–9, Apr. 2013, doi: 10.1016/j.atherosclerosis.2012.12.030.

[202]   N. Walther et al., “Aberrant lymphocyte enhancer-binding factor 1 expression is characteristic for sporadic Burkitt’s lymphoma,” The American journal of pathology, vol. 182, no. 4, pp. 1092–8, Apr. 2013, doi: 10.1016/j.ajpath.2012.12.013.

[203]   O. Treeck, S. Schuler, J. Haring, M. Skrzypczak, C. Lattrich, and O. Ortmann, “icb-1 Gene counteracts growth of ovarian cancer cell lines,” Cancer letters, vol. 335, no. 2, pp. 441–6, Jul. 2013, doi: 10.1016/j.canlet.2013.02.049.

[204]   R. Thaler et al., “Homocysteine induces serum amyloid A3 in osteoblasts via unlocking RGD-motifs in collagen,” FASEB journal: official publication of the Federation of American Societies for Experimental Biology, vol. 27, no. 2, pp. 446–63, Feb. 2013, doi: 10.1096/fj.12-208058.

[205]   C. Schmid, S. Bauer, B. Muller, and M. Bartelheimer, “Belowground neighbor perception in Arabidopsis thaliana studied by transcriptome analysis: roots of Hieracium pilosella cause biotic stress,” Frontiers in plant science, vol. 4, p. 296, 2013, doi: 10.3389/fpls.2013.00296.

[206]   G. Schlegel, R. Ringseis, J. Keller, F. J. Schwarz, W. Windisch, and K. Eder, “Expression of fibroblast growth factor 21 in the liver of dairy cows in the transition period and during lactation,” Journal of animal physiology and animal nutrition, vol. 97, no. 5, pp. 820–9, Oct. 2013, doi: 10.1111/j.1439-0396.2012.01323.x.

[207]   M. Rumpler et al., “Osteoclasts on bone and dentin in vitro: mechanism of trail formation and comparison of resorption behavior,” Calcified tissue international, vol. 93, no. 6, pp. 526–39, Dec. 2013, doi: 10.1007/s00223-013-9786-7.

[208]   A. Rommer et al., “EVI1 inhibits apoptosis induced by antileukemic drugs via upregulation of CDKN1A/p21/WAF in human myeloid cells,” PLoS ONE, vol. 8, no. 2, p. e56308, 2013, doi: 10.1371/journal.pone.0056308.

[209]   R. Rid et al., “Deciphering the calcitriol-induced transcriptomic response in keratinocytes: presentation of novel target genes,” Journal of molecular endocrinology, vol. 50, no. 2, pp. 131–49, Apr. 2013, doi: 10.1530/jme-11-0191.

[210]   A. M. Mueller et al., “Effects of intraventricular methotrexate administration on Cuprizone-induced demyelination in mice,” Frontiers in molecular neuroscience, vol. 6, p. 34, 2013, doi: 10.3389/fnmol.2013.00034.

[211]   S. Mas, P. Gasso, M. Bernardo, and A. Lafuente, “Functional analysis of gene expression in risperidone treated cells provide new insights in molecular mechanism and new candidate genes for pharmacogenetic studies,” European neuropsychopharmacology: the journal of the European College of Neuropsychopharmacology, vol. 23, no. 4, pp. 329–37, Apr. 2013, doi: 10.1016/j.euroneuro.2012.04.016.

[212]   T. Lettner, R. Lang, A. Klausegger, S. Hainzl, J. W. Bauer, and V. Wally, “MMP-9 and CXCL8/IL-8 are potential therapeutic targets in epidermolysis bullosa simplex,” PLoS ONE, vol. 8, no. 7, p. e70123, 2013, doi: 10.1371/journal.pone.0070123.

[213]   L. Fried, S. Behr, and K. Jung, “Identification of a target gene and activating stimulus for the YpdA/YpdB histidine kinase/response regulator system in Escherichia coli,” Journal of bacteriology, vol. 195, no. 4, pp. 807–15, Feb. 2013, doi: 10.1128/jb.02051-12.

[214]   T. Burghardt et al., “LMX1B is essential for the maintenance of differentiated podocytes in adult kidneys,” Journal of the American Society of Nephrology: JASN, vol. 24, no. 11, pp. 1830–48, Nov. 2013, doi: 10.1681/asn.2012080788.

[215]   S. Bandulik et al., “Severe hyperaldosteronism in neonatal Task3 potassium channel knockout mice is associated with activation of the intraadrenal renin-angiotensin system,” Endocrinology, vol. 154, no. 8, pp. 2712–22, Aug. 2013, doi: 10.1210/en.2013-1101.


[216]   O. Treeck, D. Belgutay, J. Haring, S. Schuler, C. Lattrich, and O. Ortmann, “Network analysis of icb-1 gene function in human breast cancer cells,” Journal of cellular biochemistry, vol. 113, no. 9, pp. 2979–88, Sep. 2012, doi: 10.1002/jcb.24175.

[217]   J. Schmidt et al., “Targeting melanoma metastasis and immunosuppression with a new mode of melanoma inhibitory activity (MIA) protein inhibition,” PLoS ONE, vol. 7, no. 5, p. e37941, 2012, doi: 10.1371/journal.pone.0037941.

[218]   G. Schlegel, R. Ringseis, W. Windisch, F. J. Schwarz, and K. Eder, “Effects of a rumen-protected mixture of conjugated linoleic acids on hepatic expression of genes involved in lipid metabolism in dairy cows,” Journal of dairy science, vol. 95, no. 7, pp. 3905–18, Jul. 2012, doi: 10.3168/jds.2011-4835.

[219]   S. Rosenbaum et al., “Genome-wide transcript profiling indicates induction of energy-generating pathways and an adaptive immune response in the liver of sows during lactation,” Comparative biochemistry and physiology. Part D, Genomics & proteomics, vol. 7, no. 4, pp. 370–81, Dec. 2012, doi: 10.1016/j.cbd.2012.09.001.

[220]   A. M. Muller, E. Jun, H. Conlon, and S. A. Sadiq, “Cerebrospinal hepatocyte growth factor levels correlate negatively with disease activity in multiple sclerosis,” Journal of neuroimmunology, vol. 251, no. 1–2, pp. 80–6, Oct. 2012, doi: 10.1016/j.jneuroim.2012.06.008.

[221]   M. Michaelis et al., “Human neuroblastoma cells with acquired resistance to the p53 activator RITA retain functional p53 and sensitivity to other p53 activating agents,” Cell death & disease, vol. 3, p. e294, 2012, doi: 10.1038/cddis.2012.35.

[222]   T. Kraxenberger, L. Fried, S. Behr, and K. Jung, “First insights into the unexplored two-component system YehU/YehT in Escherichia coli,” Journal of bacteriology, vol. 194, no. 16, pp. 4272–84, Aug. 2012, doi: 10.1128/jb.00409-12.

[223]   N. Hobi, A. Ravasio, and T. Haller, “Interfacial stress affects rat alveolar type II cell signaling and gene expression,” American journal of physiology. Lung cellular and molecular physiology, vol. 303, no. 2, pp. L117-29, Jul. 2012, doi: 10.1152/ajplung.00340.2011.

[224]   A. M. Hetzenecker et al., “Downregulation of the ubiquitin-proteasome system in normal colonic macrophages and reinduction in inflammatory bowel disease,” Digestion, vol. 86, no. 1, pp. 34–47, 2012, doi: 10.1159/000336353.

[225]   J. Genius et al., “Dysequilibrium of neuronal proliferation and apoptosis in a pharmacological animal model of psychosis,” Methods (San Diego, Calif.), vol. 56, no. 4, pp. 519–27, Apr. 2012, doi: 10.1016/j.ymeth.2012.04.002.

[226]   U. Deinlein et al., “Elevated nicotianamine levels in Arabidopsis halleri roots play a key role in zinc hyperaccumulation,” The Plant cell, vol. 24, no. 2, pp. 708–23, Feb. 2012, doi: 10.1105/tpc.111.095000.

[227]   O. Czarnecki, C. Glasser, J. G. Chen, K. F. Mayer, and B. Grimm, “Evidence for a Contribution of ALA Synthesis to Plastid-To-Nucleus Signaling,” Frontiers in plant science, vol. 3, p. 236, 2012, doi: 10.3389/fpls.2012.00236.

[228]   S. Cornelius, M. Traub, C. Bernard, C. Salzig, P. Lang, and T. Mohlmann, “Nucleoside transport across the plasma membrane mediated by equilibrative nucleoside transporter 3 influences metabolism of Arabidopsis seedlings,” Plant biology (Stuttgart, Germany), vol. 14, no. 5, pp. 696–705, Sep. 2012, doi: 10.1111/j.1438-8677.2012.00562.x.


[229]   J. Wanninger et al., “MMP-9 activity is increased by adiponectin in primary human hepatocytes but even negatively correlates with serum adiponectin in a rodent model of non-alcoholic steatohepatitis,” Experimental and molecular pathology, vol. 91, no. 2, pp. 603–7, Oct. 2011, doi: 10.1016/j.yexmp.2011.07.001.

[230]   M. Torrado, R. Iglesias, A. Centeno, E. Lopez, and A. T. Mikhailov, “Targeted gene-silencing reveals the functional significance of myocardin signaling in the failing heart,” PLoS ONE, vol. 6, no. 10, p. e26392, 2011, doi: 10.1371/journal.pone.0026392.

[231]   R. Thaler, M. Rumpler, S. Spitzer, K. Klaushofer, and F. Varga, “Mospd1, a new player in mesenchymal versus epidermal cell differentiation,” Journal of cellular physiology, vol. 226, no. 10, pp. 2505–15, Oct. 2011, doi: 10.1002/jcp.22595.

[232]   R. Thaler et al., “Homocysteine suppresses the expression of the collagen cross-linker lysyl oxidase involving IL-6, Fli1, and epigenetic DNA methylation,” The Journal of biological chemistry, vol. 286, no. 7, pp. 5578–88, Feb. 2011, doi: 10.1074/jbc.M110.166181.

[233]   I. Spellmann et al., “Homer-1 polymorphisms are associated with psychopathology and response to treatment in schizophrenic patients,” Journal of psychiatric research, vol. 45, no. 2, pp. 234–41, Feb. 2011, doi: 10.1016/j.jpsychires.2010.06.004.

[234]   K. Schmidt, E. Wies, and F. Neipel, “Kaposi’s sarcoma-associated herpesvirus viral interferon regulatory factor 3 inhibits gamma interferon and major histocompatibility complex class II expression,” Journal of virology, vol. 85, no. 9, pp. 4530–7, May 2011, doi: 10.1128/jvi.02123-10.

[235]   A. Mauerer et al., “Identification of new genes associated with melanoma,” Experimental dermatology, vol. 20, no. 6, pp. 502–7, Jun. 2011, doi: 10.1111/j.1600-0625.2011.01254.x.

[236]   T. Knoblach, B. Grandel, J. Seiler, M. Nevels, and C. Paulus, “Human cytomegalovirus IE1 protein elicits a type II interferon-like host cell response that depends on activated STAT1 but not interferon-gamma,” PLoS pathogens, vol. 7, no. 4, p. e1002016, Apr. 2011, doi: 10.1371/journal.ppat.1002016.

[237]   J. Keller, R. Ringseis, S. Priebe, R. Guthke, H. Kluge, and K. Eder, “Effect of L-carnitine on the hepatic transcript profile in piglets as animal model,” Nutrition & metabolism, vol. 8, p. 76, 2011, doi: 10.1186/1743-7075-8-76.

[238]   J. Keller, R. Ringseis, S. Priebe, R. Guthke, H. Kluge, and K. Eder, “Dietary L-carnitine alters gene expression in skeletal muscle of piglets,” Molecular nutrition & food research, vol. 55, no. 3, pp. 419–29, Mar. 2011, doi: 10.1002/mnfr.201000293.

[239]   M. Karlstetter et al., “Curcumin is a potent modulator of microglial gene expression and migration,” Journal of neuroinflammation, vol. 8, p. 125, 2011, doi: 10.1186/1742-2094-8-125.


[240]   C. Vock, K. Biedasek, I. Boomgaarden, A. Heins, I. Nitz, and F. Doring, “ACBP knockdown leads to down-regulation of genes encoding rate-limiting enzymes in cholesterol and fatty acid metabolism,” Cellular physiology and biochemistry: international journal of experimental cellular physiology, biochemistry, and pharmacology, vol. 25, no. 6, pp. 675–86, 2010, doi: 10.1159/000315087.

[241]   C. Unfried, G. Burbach, H. W. Korf, and C. von Gall, “Melatonin receptor 1-dependent gene expression in the mouse pars tuberalis as revealed by cDNA microarray analysis and in situ hybridization,” Journal of pineal research, vol. 48, no. 2, pp. 148–56, Mar. 2010, doi: 10.1111/j.1600-079X.2009.00738.x.

[242]   R. Thaler et al., “Differential effects of homocysteine and beta aminopropionitrile on preosteoblastic MC3T3-E1 cells,” Bone, vol. 46, no. 3, pp. 703–9, Mar. 2010, doi: 10.1016/j.bone.2009.10.038.

[243]   P. Schuster et al., “Co-ordinated regulation of plasmacytoid dendritic cell surface receptors upon stimulation with herpes simplex virus type 1,” Immunology, vol. 129, no. 2, pp. 234–47, Feb. 2010, doi: 10.1111/j.1365-2567.2009.03176.x.

[244]   M. Laimer et al., “Proteomic profiling reveals a catalogue of new candidate proteins for human skin aging,” Experimental dermatology, vol. 19, no. 10, pp. 912–8, Oct. 2010, doi: 10.1111/j.1600-0625.2010.01144.x.

[245]   C. Hafner et al., “FGFR3 mutation affects cell growth, apoptosis and attachment in keratinocytes,” Experimental cell research, vol. 316, no. 12, pp. 2008–16, Jul. 2010, doi: 10.1016/j.yexcr.2010.04.021.

[246]   H. Hackl, A. Rommer, T. A. Konrad, C. Nassimbeni, and R. Wieser, “Tetracycline regulator expression alters the transcriptional program of mammalian cells,” PLoS ONE, vol. 5, no. 9, p. e13013, 2010, doi: 10.1371/journal.pone.0013013.

[247]   K. Dirscherl et al., “Luteolin triggers global changes in the microglial transcriptome leading to a unique anti-inflammatory and neuroprotective phenotype,” Journal of neuroinflammation, vol. 7, p. 3, 2010, doi: 10.1186/1742-2094-7-3.

[248]   T. K. Albert, K. Grote, S. Boeing, and M. Meisterernst, “Basal core promoters control the equilibrium between negative cofactor 2 and preinitiation complexes in human cells,” Genome biology, vol. 11, no. 3, p. R33, 2010, doi: 10.1186/gb-2010-11-3-r33.


[249]   J. Vadassery et al., “A cell wall extract from the endophytic fungus Piriformospora indica promotes growth of Arabidopsis seedlings and induces intracellular calcium elevation in roots,” The Plant journal: for cell and molecular biology, vol. 59, no. 2, pp. 193–206, Jul. 2009, doi: 10.1111/j.1365-313X.2009.03867.x.

[250]   M. Thieme, C. Lottaz, H. Niederstatter, W. Parson, R. Spang, and P. J. Oefner, “ReseqChip: automated integration of multiple local context probe data from the MitoChip array in mitochondrial DNA sequence assembly,” BMC bioinformatics, vol. 10, p. 440, 2009, doi: 10.1186/1471-2105-10-440.

[251]   A. Riechers, J. Schmidt, B. Konig, and A. K. Bosserhoff, “Heterogeneous transition metal-based fluorescence polarization (HTFP) assay for probing protein interactions,” BioTechniques, vol. 47, no. 4, pp. 837–44, Oct. 2009, doi: 10.2144/000113223.

[252]   A. Rascle et al., “The LIM-homeodomain transcription factor LMX1B regulates expression of NF-kappa B target genes,” Experimental cell research, vol. 315, no. 1, pp. 76–96, Jan. 2009, doi: 10.1016/j.yexcr.2008.10.012.

[253]   K. Pietschmann et al., “Toll-like receptor expression and function in subsets of human gammadelta T lymphocytes,” Scandinavian journal of immunology, vol. 70, no. 3, pp. 245–55, Sep. 2009, doi: 10.1111/j.1365-3083.2009.02290.x.

[254]   C. Nielsen, H. Lippke, A. Didier, R. Dietrich, and E. Martlbauer, “Potential of deoxynivalenol to induce transcription factors in human hepatoma cells,” Molecular nutrition & food research, vol. 53, no. 4, pp. 479–91, Apr. 2009, doi: 10.1002/mnfr.200800475.

[255]   D. Lutter et al., “Analyzing time-dependent microarray data using independent component analysis derived expression modes from human macrophages infected with F. tularensis holartica,” Journal of biomedical informatics, vol. 42, no. 4, pp. 605–11, Aug. 2009, doi: 10.1016/j.jbi.2009.01.002.

[256]   M. Lang et al., “Gene expression profiles of mucosal fibroblasts from strictured and nonstrictured areas of patients with Crohn’s disease,” Inflammatory bowel diseases, vol. 15, no. 2, pp. 212–23, Feb. 2009, doi: 10.1002/ibd.20735.

[257]   A. Hartmann et al., “Validation of microarray-based resequencing of 93 worldwide mitochondrial genomes,” Human mutation, vol. 30, no. 1, pp. 115–22, Jan. 2009, doi: 10.1002/humu.20816.

[258]   P. Guo et al., “Differentially expressed genes between drought-tolerant and drought-sensitive barley genotypes in response to drought stress during the reproductive stage,” Journal of experimental botany, vol. 60, no. 12, pp. 3531–44, 2009, doi: 10.1093/jxb/erp194.

[259]   C. Gruenewald, J. A. Botella, F. Bayersdorfer, J. A. Navarro, and S. Schneuwly, “Hyperoxia-induced neurodegeneration as a tool to identify neuroprotective genes in Drosophila melanogaster,” Free radical biology & medicine, vol. 46, no. 12, pp. 1668–76, Jun. 2009, doi: 10.1016/j.freeradbiomed.2009.03.025.


[260]   K. Zurhove, C. Nakajima, J. Herz, H. H. Bock, and P. May, “Gamma-secretase limits the inflammatory response through the processing of LRP1,” Science signaling, vol. 1, no. 47, p. ra15, 2008, doi: 10.1126/scisignal.1164263.

[261]   K. Weigelt, C. Moehle, T. Stempfl, B. Weber, and T. Langmann, “An integrated workflow for analysis of ChIP-chip data,” BioTechniques, vol. 45, no. 2, pp. 131–2, 134, 136 passim, Aug. 2008, doi: 10.2144/000112819.

[262]   C. Vock, M. Gleissner, M. Klapper, and F. Doring, “Oleate regulates genes controlled by signaling pathways of mitogen-activated protein kinase, insulin, and hypoxia,” Nutrition research (New York, N.Y.), vol. 28, no. 10, pp. 681–9, Oct. 2008, doi: 10.1016/j.nutres.2008.06.010.

[263]   H. Schweikl et al., “Differential gene expression involved in oxidative stress response caused by triethylene glycol dimethacrylate,” Biomaterials, vol. 29, no. 10, pp. 1377–87, Apr. 2008, doi: 10.1016/j.biomaterials.2007.11.049.

[264]   A. Roesch, A. M. Mueller, T. Stempfl, C. Moehle, M. Landthaler, and T. Vogt, “RBP2-H1/JARID1B is a transcriptional regulator with a tumor suppressive potential in melanoma cells,” International journal of cancer. Journal international du cancer, vol. 122, no. 5, pp. 1047–57, Mar. 2008, doi: 10.1002/ijc.23211.

[265]   G. Paragh et al., “Novel sphingolipid derivatives promote keratinocyte differentiation,” Experimental dermatology, vol. 17, no. 12, pp. 1004–16, Dec. 2008, doi: 10.1111/j.1600-0625.2008.00736.x.

[266]   A. M. Mueller et al., “Novel role for SLPI in MOG-induced EAE revealed by spinal cord expression analysis,” Journal of neuroinflammation, vol. 5, p. 20, 2008, doi: 10.1186/1742-2094-5-20.

[267]   D. Lutter et al., “Analyzing M-CSF dependent monocyte/macrophage differentiation: expression modes and meta-modes derived from an independent component analysis,” BMC bioinformatics, vol. 9, p. 100, 2008, doi: 10.1186/1471-2105-9-100.

[268]   C. Hundhausen et al., “Ochratoxin a lowers mRNA levels of genes encoding for key proteins of liver cell metabolism,” Cancer genomics & proteomics, vol. 5, no. 6, pp. 319–32, Dec. 2008.

[269]   C. Hafner, T. Stempfl, W. Baumler, U. Hohenleutner, M. Landthaler, and T. Vogt, “Gene expression profiling of melanocytes following Q-Switched Ruby laser irradiation,” Dermatology (Basel, Switzerland), vol. 216, no. 1, pp. 6–13, 2008, doi: 10.1159/000109352.

[270]   S. Ebert et al., “Chondroitin sulfate disaccharide stimulates microglia to adopt a novel regulatory phenotype,” Journal of leukocyte biology, vol. 84, no. 3, pp. 736–40, Sep. 2008, doi: 10.1189/jlb.0208138.


[271]   A. Zahn et al., “Aquaporin-8 expression is reduced in ileum and induced in colon of patients with ulcerative colitis,” World journal of gastroenterology: WJG, vol. 13, no. 11, pp. 1687–95, Mar. 2007.

[272]   K. Weigelt et al., “Dap12 expression in activated microglia from retinoschisin-deficient retina and its PU.1-dependent promoter regulation,” Journal of leukocyte biology, vol. 82, no. 6, pp. 1564–74, Dec. 2007, doi: 10.1189/jlb.0707447.

[273]   C. Vock, M. Gleissner, M. Klapper, and F. Doring, “Identification of palmitate-regulated genes in HepG2 cells by applying microarray analysis,” Biochimica et biophysica acta, vol. 1770, no. 9, pp. 1283–8, Sep. 2007, doi: 10.1016/j.bbagen.2007.07.001.

[274]   E. Orso et al., “The satiety factor apolipoprotein A-IV modulates intestinal epithelial permeability through its interaction with alpha-catenin: implications for inflammatory bowel diseases,” Hormone and metabolic research = Hormon- und Stoffwechselforschung = Hormones et metabolisme, vol. 39, no. 8, pp. 601–11, Aug. 2007, doi: 10.1055/s-2007-984466.

[275]   M. Neumeier et al., “High molecular weight adiponectin reduces apolipoprotein B and E release in human hepatocytes,” Biochemical and biophysical research communications, vol. 352, no. 2, pp. 543–8, Jan. 2007, doi: 10.1016/j.bbrc.2006.11.058.

[276]   S. Meyer, E. Orso, G. Schmitz, M. Landthaler, and T. Vogt, “Lubrol-RAFTs in melanoma cells: a molecular platform for tumor-promoting ephrin-B2-integrin-beta1 interaction,” The Journal of investigative dermatology, vol. 127, no. 7, pp. 1615–21, Jul. 2007, doi: 10.1038/sj.jid.5700778.

[277]   S. Kiaulehn, O. Voytsekh, M. Fuhrmann, and M. Mittag, “The Presence of UG-repeat sequences in the 3’-UTRs of reporter luciferase mRNAs mediates circadian expression and can determine acrophase in Chlamydomonas reinhardtii,” Journal of biological rhythms, vol. 22, no. 3, pp. 275–7, Jun. 2007, doi: 10.1177/0748730407301053.

[278]   M. Heitzer, A. Eckert, M. Fuhrmann, and C. Griesbeck, “Influence of codon bias on the expression of foreign genes in microalgae,” Advances in experimental medicine and biology, vol. 616, pp. 46–53, 2007, doi: 10.1007/978-0-387-75532-8_5.

[279]   C. Goritz et al., “Glia-induced neuronal differentiation by transcriptional regulation,” Glia, vol. 55, no. 11, pp. 1108–22, Aug. 2007, doi: 10.1002/glia.20531.

[280]   J. Ecker, T. Langmann, C. Moehle, and G. Schmitz, “Isomer specific effects of Conjugated Linoleic Acid on macrophage ABCG1 transcription by a SREBP-1c dependent mechanism,” Biochemical and biophysical research communications, vol. 352, no. 3, pp. 805–11, Jan. 2007, doi: 10.1016/j.bbrc.2006.11.087.

[281]   D. Beier et al., “CD133(+) and CD133(-) glioblastoma-derived cancer stem cells show differential growth characteristics and molecular profiles,” Cancer research, vol. 67, no. 9, pp. 4010–5, May 2007, doi: 10.1158/0008-5472.can-06-4180.


[282]   A. Vollmann, H. P. Vornlocher, T. Stempfl, G. Brockhoff, R. Apfel, and U. Bogdahn, “Effective silencing of EGFR with RNAi demonstrates non-EGFR dependent proliferation of glioma cells,” International journal of oncology, vol. 28, no. 6, pp. 1531–42, Jun. 2006.

[283]   A. Roesch, B. Becker, W. Schneider-Brachert, I. Hagen, M. Landthaler, and T. Vogt, “Re-expression of the retinoblastoma-binding protein 2-homolog 1 reveals tumor-suppressive functions in highly metastatic melanoma cells,” The Journal of investigative dermatology, vol. 126, no. 8, pp. 1850–9, Aug. 2006, doi: 10.1038/sj.jid.5700324.

[284]   M. Neumeier et al., “Aldehyde oxidase 1 is highly abundant in hepatic steatosis and is downregulated by adiponectin and fenofibric acid in hepatocytes in vitro,” Biochemical and biophysical research communications, vol. 350, no. 3, pp. 731–5, Nov. 2006, doi: 10.1016/j.bbrc.2006.09.101.

[285]   C. Moehle et al., “Aberrant intestinal expression and allelic variants of mucin genes associated with inflammatory bowel disease,” Journal of molecular medicine (Berlin, Germany), vol. 84, no. 12, pp. 1055–66, Dec. 2006, doi: 10.1007/s00109-006-0100-2.

[286]   S. Heimerl et al., “Alterations in intestinal fatty acid metabolism in inflammatory bowel disease,” Biochimica et biophysica acta, vol. 1762, no. 3, pp. 341–50, Mar. 2006, doi: 10.1016/j.bbadis.2005.12.006.

[287]   M. Grandl, S. M. Bared, G. Liebisch, T. Werner, S. Barlage, and G. Schmitz, “E-LDL and Ox-LDL differentially regulate ceramide and cholesterol raft microdomains in human Macrophages,” Cytometry. Part A: the journal of the International Society for Analytical Cytology, vol. 69, no. 3, pp. 189–91, Mar. 2006, doi: 10.1002/cyto.a.20232.

[288]   C. Gebhard et al., “Genome-wide profiling of CpG methylation identifies novel targets of aberrant hypermethylation in myeloid leukemia,” Cancer research, vol. 66, no. 12, pp. 6118–28, Jun. 2006, doi: 10.1158/0008-5472.can-06-0376.

[289]   R. Buettner et al., “Defining high-fat-diet rat models: metabolic and molecular effects of different fat types,” Journal of molecular endocrinology, vol. 36, no. 3, pp. 485–501, Jun. 2006, doi: 10.1677/jme.1.01909.


[290]   K. Schreiter et al., “Glycoprotein (gp) 96 expression: induced during differentiation of intestinal macrophages but impaired in Crohn’s disease,” Gut, vol. 54, no. 7, pp. 935–43, Jul. 2005, doi: 10.1136/gut.2004.053116.

[291]   M. Rehli et al., “Transcription factor Tfec contributes to the IL-4-inducible expression of a small group of genes in mouse macrophages including the granulocyte colony-stimulating factor receptor,” Journal of immunology (Baltimore, Md.: 1950), vol. 174, no. 11, pp. 7111–22, Jun. 2005.

[292]   S. Meyer et al., “Ephrin-B2 overexpression enhances integrin-mediated ECM-attachment and migration of B16 melanoma cells,” International journal of oncology, vol. 27, no. 5, pp. 1197–206, Nov. 2005.

[293]   T. Langmann et al., “Gene expression profiling identifies retinoids as potent inducers of macrophage lipid efflux,” Biochimica et biophysica acta, vol. 1740, no. 2, pp. 155–61, May 2005, doi: 10.1016/j.bbadis.2004.11.016.

[294]   C. Hafner et al., “Ephrin-B2 is differentially expressed in the intestinal epithelium in Crohn’s disease and contributes to accelerated epithelial wound healing in vitro,” World journal of gastroenterology: WJG, vol. 11, no. 26, pp. 4024–31, Jul. 2005.

[295]   C. Hafner et al., “Ephrin-B reverse signaling induces expression of wound healing associated genes in IEC-6 intestinal epithelial cells,” World journal of gastroenterology: WJG, vol. 11, no. 29, pp. 4511–8, Aug. 2005.

[296]   M. Fuhrmann, W. Oertel, P. Berthold, and P. Hegemann, “Removal of mismatched bases from synthetic genes by enzymatic mismatch cleavage,” Nucleic acids research, vol. 33, no. 6, p. e58, 2005, doi: 10.1093/nar/gni058.

[297]   M. Bodzioch et al., “The microarray expression analysis identifies BAX as a mediator of beta-carotene effects on apoptosis,” Nutrition and cancer, vol. 51, no. 2, pp. 226–35, 2005, doi: 10.1207/s15327914nc5102_13.


[298]   T. Langmann et al., “Loss of detoxification in inflammatory bowel disease: dysregulation of pregnane X receptor target genes,” Gastroenterology, vol. 127, no. 1, pp. 26–40, Jul. 2004.

[299]   J. A. Botella et al., “The Drosophila carbonyl reductase sniffer prevents oxidative stress-induced neurodegeneration,” Current biology: CB, vol. 14, no. 9, pp. 782–6, May 2004, doi: 10.1016/j.cub.2004.04.036.


[300]   T. Langmann et al., “ZNF202 is inversely regulated with its target genes ABCA1 and apoE during macrophage differentiation and foam cell formation,” Journal of lipid research, vol. 44, no. 5, pp. 968–77, May 2003, doi: 10.1194/jlr.M300016-JLR200.

[301]   T. Langmann et al., “Real-time reverse transcription-PCR expression profiling of the complete human ATP-binding cassette transporter superfamily in various tissues,” Clinical chemistry, vol. 49, no. 2, pp. 230–8, Feb. 2003.

[302]   D. Kielar et al., “Adenosine triphosphate binding cassette (ABC) transporters are expressed and regulated during terminal keratinocyte differentiation: a potential role for ABCA7 in epidermal lipid reorganization,” The Journal of investigative dermatology, vol. 121, no. 3, pp. 465–74, Sep. 2003, doi: 10.1046/j.1523-1747.2003.12404.x.


[303]   T. Stempfl et al., “Identification of circadian-clock-regulated enhancers and genes of Drosophila melanogaster by transposon mobilization and luciferase reporting of cyclical gene expression,” Genetics, vol. 160, no. 2, pp. 571–93, Feb. 2002.

[304]   T. Langmann et al., “Identification of sterol-independent regulatory elements in the human ATP-binding cassette transporter A1 promoter: role of Sp1/3, E-box binding factors, and an oncostatin M-responsive element,” The Journal of biological chemistry, vol. 277, no. 17, pp. 14443–50, Apr. 2002, doi: 10.1074/jbc.M110270200.

[305]   S. Heimerl et al., “Mutations in the human ATP-binding cassette transporters ABCG5 and ABCG8 in sitosterolemia,” Human mutation, vol. 20, no. 2, p. 151, Aug. 2002, doi: 10.1002/humu.9047.


[306]   M. Moser, T. Stempfl, Y. Li, P. Glynn, R. Buttner, and D. Kretzschmar, “Cloning and expression of the murine sws/NTE gene,” Mechanisms of development, vol. 90, no. 2, pp. 279–82, Feb. 2000.