Bioinformatik Core
Publications
- 2017
Long-term CD38 saturation by daratumumab interferes with diagnostic myeloma cell detection
Oberle, A., Brandt, A., Alawi, M., Langebrake, C., Janjetovic, S., Wolschke, C., Schütze, K., Bannas, P., Kröger, N., Koch-Nolte, F., Bokemeyer, C. & Binder, M., 09.2017, In: HAEMATOLOGICA. 102, 9, p. e368-e370Research output: SCORING: Contribution to journal › Other (editorial matter etc.) › Research
Comparative study of whole genome amplification and next generation sequencing performance of single cancer cells
Babayan, A., Alawi, M., Gormley, M., Müller, V., Wikman, H., McMullin, R. P., Smirnov, D. A., Li, W., Geffken, M., Pantel, K. & Joosse, S. A., 22.08.2017, In: ONCOTARGET. 8, 34, p. 56066-56080 15 p.Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
Optimization of design and production strategies for novel adeno-associated viral display peptide libraries
Körbelin, J., Hunger, A., Alawi, M., Sieber, T., Binder, M. & Trepel, M., 08.2017, In: GENE THER. 24, 8, p. 470-481Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
Recovery of the first full-length genome sequence of a parapoxvirus directly from a clinical sample
Günther, T., Haas, L., Alawi, M., Wohlsein, P., Marks, J., Grundhoff, A., Becher, P. & Fischer, N., 16.06.2017, In: SCI REP-UK. 7, 1, p. 3734Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
Monitoring multiple myeloma by next-generation sequencing of V(D)J rearrangements from circulating myeloma cells and cell-free myeloma DNA
Oberle, A., Brandt, A., Voigtländer, M., Thiele, B., Radloff, J., Schulenkorf, A., Alawi, M., Akyüz, N., März, M., Ford, C. T., Krohn-Grimberghe, A. & Binder, M., 06.2017, In: HAEMATOLOGICA. 102, 6, p. 1105-1111Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
BRD4 promotes p63 and GRHL3 expression downstream of FOXO in mammary epithelial cells
Nagarajan, S., Bedi, U., Budida, A., Hamdan, F. H., Mishra, V. K., Najafova, Z., Xie, W., Alawi, M., Indenbirken, D., Knapp, S., Chiang, C-M., Grundhoff, A., Kari, V., Scheel, C. H., Wegwitz, F. & Johnsen, S. A., 07.04.2017, In: NUCLEIC ACIDS RES. 45, 6, p. 3130-3145 16 p.Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
Novel poly-uridine insertion in the 3'UTR and E2 amino acid substitutions in a low virulent classical swine fever virus
Coronado, L., Liniger, M., Muñoz-González, S., Postel, A., Pérez, L. J., Pérez-Simó, M., Perera, C. L., Frías-Lepoureau, M. T., Rosell, R., Grundhoff, A., Indenbirken, D., Alawi, M., Fischer, N., Becher, P., Ruggli, N. & Ganges, L., 03.2017, In: VET MICROBIOL. 201, p. 103-112 10 p.Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
Mutational landscape reflects the biological continuum of plasma cell dyscrasias
Rossi, A., Voigtländer, M., Janjetovic, S., Thiele, B., Alawi, M., März, M., Brandt, A., Hansen, T., Radloff, J., Schön, G., Hegenbart, U., Schönland, S., Langer, C., Bokemeyer, C. & Binder, M., 24.02.2017, In: BLOOD CANCER J. 7, 2, p. e537Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
Mutations in EBF3 Disturb Transcriptional Profiles and Cause Intellectual Disability, Ataxia, and Facial Dysmorphism
Harms, F. L., Girisha, K. M., Hardigan, A. A., Kortüm, F., Shukla, A., Alawi, M., Dalal, A., Brady, L., Tarnopolsky, M., Bird, L. M., Ceulemans, S., Bebin, M., Bowling, K. M., Hiatt, S. M., Lose, E. J., Primiano, M., Chung, W. K., Juusola, J., Akdemir, Z. C., Bainbridge, M., Charng, W-L., Drummond-Borg, M., Eldomery, M. K., El-Hattab, A. W., Saleh, M. A. M., Bézieau, S., Cogné, B., Isidor, B., Küry, S., Lupski, J. R., Myers, R. M., Cooper, G. M. & Kutsche, K., 05.01.2017, In: AM J HUM GENET. 100, 1, p. 117-127Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
Acute Liver Failure Meets SOPH Syndrome: A Case Report on an Intermediate Phenotype
Kortüm, F., Marquardt, I., Alawi, M., Korenke, G. C., Spranger, S., Meinecke, P. & Kutsche, K., 01.2017, In: PEDIATRICS. 139, 1, p. pii: e20160550Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
Insights into Microalga and Bacteria Interactions of Selected Phycosphere Biofilms Using Metagenomic, Transcriptomic, and Proteomic Approaches
Krohn-Molt, I., Alawi, M., Förstner, K. U., Wiegandt, A., Burkhardt, L., Indenbirken, D., Thieß, M., Grundhoff, A., Kehr, J., Tholey, A. & Streit, W. R., 2017, In: FRONT MICROBIOL. 8, p. 1941Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
- 2016
Versatility of Biofilm Matrix Molecules in Staphylococcus epidermidis Clinical Isolates and Importance of Polysaccharide Intercellular Adhesin Expression during High Shear Stress
Schaeffer, C. R., Hoang, T-M. N., Sudbeck, C. M., Alawi, M., Tolo, I. E., Robinson, D. A., Horswill, A. R., Rohde, H. & Fey, P. D., 18.10.2016, In: MSPHERE. 1, 5, p. e00165-16.Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
De Novo Truncating Variants in ASXL2 Are Associated with a Unique and Recognizable Clinical Phenotype
Shashi, V., Pena, L. D. M., Kim, K., Burton, B., Hempel, M., Schoch, K., Walkiewicz, M., McLaughlin, H. M., Cho, M., Stong, N., Hickey, S. E., Shuss, C. M., Undiagnosed Diseases Network, Freemark, M. S., Bellet, J. S., Keels, M. A., Bonner, M. J., El-Dairi, M., Butler, M., Kranz, P. G., Stumpel, C. T. R. M., Klinkenberg, S., Oberndorff, K., Alawi, M., Santer, R., Petrovski, S., Kuismin, O., Korpi-Heikkilä, S., Pietilainen, O., Aarno, P., Kurki, M. I., Hoischen, A., Need, A. C., Goldstein, D. B. & Kortüm, F., 06.10.2016, In: AM J HUM GENET. 99, 4, p. 991-999 9 p.Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
Indication of Horizontal DNA Gene Transfer by Extracellular Vesicles
Fischer, S., Cornils, K., Speiseder, T., Badbaran, A., Reimer, R., Indenbirken, D., Grundhoff, A., Brunswig-Spickenheier, B., Alawi, M. & Lange, C., 30.09.2016, In: PLOS ONE. 11, 9, p. e0163665Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
Correlation of somatic mutations with outcome after FLAMSA-busulfan sequential conditioning and allogeneic stem cell transplantation in patients with MDS
Christopeit, M., Badbaran, A., Alawi, M., Zabelina, T., Zeck, G., Wolschke, C., Ayuketang, F. A. & Kröger, N., 01.09.2016, In: EUR J HAEMATOL. 97, 3, p. 288-96Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
A novel multiple joint dislocation syndrome associated with a homozygous nonsense variant in the EXOC6B gene
Girisha, K. M., Kortüm, F., Shah, H., Alawi, M., Dalal, A., Bhavani, G. S. & Kutsche, K., 01.08.2016, In: EUR J HUM GENET. 24, 8, p. 1206-10Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
Homozygous HOXB1 loss-of-function mutation in a large family with hereditary congenital facial paresis
Vogel, M., Velleuer, E., Schmidt-Jiménez, L. F., Mayatepek, E., Borkhardt, A., Alawi, M., Kutsche, K. & Kortüm, F., 07.2016, In: AM J MED GENET A. 170, 7, p. 1813-9 7 p.Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
Pegivirus Infection in Domestic Pigs, Germany
Baechlein, C., Grundhoff, A., Fischer, N., Alawi, M., Hoeltig, D., Waldmann, K-H. & Becher, P., 07.2016, In: EMERG INFECT DIS. 22, 7, p. 1312-4 3 p.Research output: SCORING: Contribution to journal › Other (editorial matter etc.) › Research
Runx1 downregulates stem cell and megakaryocytic transcription programs that support niche interactions
Behrens, K., Triviai, I., Schwieger, M., Tekin, N., Alawi, M., Spohn, M., Indenbirken, D., Ziegler, M., Müller, U., Alexander, W. S. & Stocking, C., 30.06.2016, In: BLOOD. 127, 26, p. 3369-81 13 p.Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
A transplant “immunome” screening platform defines a targetable epitope fingerprint of multiple myeloma
Schieferdecker, A., Oberle, A., Thiele, B., Hofmann, F., Göthel, M., Miethe, S., Hust, M., Braig, F., Voigt, M., Pein, U-M., Nolte, F., Haag, F., Alawi, M., Indenbirken, D., Grundhoff, A., Bokemeyer, C., Bacher, U., Kröger, N. & Binder, M., 23.06.2016, In: BLOOD. 127, 25, p. 3202-14Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
Immunosuppressive Yersinia Effector YopM Binds DEAD Box Helicase DDX3 to Control Ribosomal S6 Kinase in the Nucleus of Host Cells
Berneking, L., Schnapp, M., Rumm, A., Trasak, C., Ruckdeschel, K., Alawi, M., Grundhoff, A., Kikhney, A. G., Nolte, F., Buck, F., Perbandt, M., Betzel, C., Svergun, D. I., Hentschke, M. & Aepfelbacher, M., 13.06.2016, In: PLOS PATHOG. 12, 6, p. e1005660Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
IL-23 prevents IL-13-dependent tissue repair associated with Ly6C(lo) monocytes in Entamoeba histolytica-induced liver damage
Noll, J., Helk, E., Fehling, H., Bernin, H., Marggraff, C., Jacobs, T., Huber, S., Pelczar, P., Ernst, T., Ittrich, H., Otto, B., Mittrücker, H-W., Hölscher, C., Tacke, F., Bruchhaus, I., Tannich, E. & Lotter, H., 05.2016, In: J HEPATOL. 64, 5, p. 1147-57Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
Functional dissection of an alternatively spliced herpesvirus gene by splice site mutagenesis
Schommartz, T., Loroch, S., Alawi, M., Grundhoff, A., Sickmann, A. & Brune, W., 14.04.2016, In: J VIROL. 90, 9, p. 4626-36Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
Rapid Capture Next-Generation Sequencing in Clinical Diagnostics of Kinase Pathway Aberrations in B-Cell Precursor ALL
Stadt, U. Z., Escherich, G., Indenbirken, D., Alawi, M., Adao, M. & Horstmann, M. A., 23.03.2016, In: PEDIATR BLOOD CANCER. 63, 7, p. 1283-6Research output: SCORING: Contribution to journal › Other (editorial matter etc.) › Research
Essential control of early B-cell development by Mef2 transcription factors
Herglotz, J., Unrau, L., Hauschildt, F., Fischer, M., Kriebitzsch, N., Alawi, M., Indenbirken, D., Spohn, M., Müller, U., Ziegler, M., Schuh, W., Jäck, H-M. & Stocking, C., 04.02.2016, In: BLOOD. 127, 5, p. 572-81 10 p.Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
Deep metagenome and metatranscriptome analyses of microbial communities affiliated with an industrial biogas fermenter, a cow rumen, and elephant feces reveal major differences in carbohydrate hydrolysis strategies
Güllert, S., Fischer, M. A., Turaev, D., Noebauer, B., Ilmberger, N., Wemheuer, B., Alawi, M., Rattei, T., Daniel, R., Schmitz, R. A., Grundhoff, A. & Streit, W. R., 2016, In: BIOTECHNOL BIOFUELS. 9, p. 121Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
Systems Medicine as an Emerging Tool for Cardiovascular Genetics
Haase, T., Börnigen, D., Müller, C. & Zeller, T., 2016, In: FRONT CARDIOVASC MED. 3, p. 27Research output: SCORING: Contribution to journal › SCORING: Review article › Research
- 2015
Emergence of daptomycin non-susceptibility in colonizing vancomycin-resistant Enterococcus faecium isolates during daptomycin therapy
Lellek, H., Franke, G. C., Ruckert, C., Wolters, M., Wolschke, C., Christner, M., Büttner, H., Alawi, M., Kröger, N. & Rohde, H., 12.09.2015, In: INT J MED MICROBIOL. 305, 8, p. 902-909Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
A Comprehensive Analysis of Replicating Merkel Cell Polyomavirus Genomes Delineates the Viral Transcription Program and Suggests a Role for mcv-miR-M1 in Episomal Persistence
Theiss, J. M., Günther, T., Alawi, M., Neumann, F., Tessmer, U., Fischer, N. & Grundhoff, A., 07.2015, In: PLOS PATHOG. 11, 7, p. e1004974Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
Evaluation of Unbiased Next-Generation Sequencing of RNA (RNA-seq) as a Diagnostic Method in Influenza Virus-Positive Respiratory Samples
Fischer, N., Indenbirken, D., Meyer, T., Lütgehetmann, M., Lellek, H., Spohn, M., Aepfelbacher, M., Alawi, M. & Grundhoff, A., 07.2015, In: J CLIN MICROBIOL. 53, 7, p. 2238-50 13 p.Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
Identification of a Novel Hepacivirus in Domestic Cattle from Germany
Fischer, N., Baechlein, C., Grundhoff, A., Alawi, M., Indenbirken, D., Postel, A., Baron, A. L., Offinger, J., Becker, K., Beineke, A., Rehage, J. & Becher, P., 07.2015, In: J VIROL. 89, 14, p. 7007-15 9 p.Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
Mutations in KCNH1 and ATP6V1B2 cause Zimmermann-Laband syndrome
Kortüm, F., Caputo, V., Bauer, C. K., Stella, L., Ciolfi, A., Alawi, M., Bocchinfuso, G., Flex, E., Paolacci, S., Dentici, M. L., Grammatico, P., Korenke, G. C., Leuzzi, V., Mowat, D., Nair, L. D. V., Nguyen, T. T. M., Thierry, P., White, S. M., Dallapiccola, B., Pizzuti, A., Campeau, P. M., Tartaglia, M. & Kutsche, K., 01.06.2015, In: NAT GENET. 47, 6, p. 661-7 7 p.Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
Epidermal growth factor receptor mutation mediates cross-resistance to panitumumab and cetuximab in gastrointestinal cancer
Braig, F., März, M., Schieferdecker, A., Schulte, A., Voigt, M., Stein, A., Grob, T., Alawi, M., Indenbirken, D., Kriegs, M., Engel, E., Vanhoefer, U., Grundhoff, A., Loges, S., Riecken, K., Fehse, B., Bokemeyer, C. & Binder, M., 20.05.2015, In: ONCOTARGET. 6, 14, p. 12035-47 13 p.Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
Mutations in NDUFB11, Encoding a Complex I Component of the Mitochondrial Respiratory Chain, Cause Microphthalmia with Linear Skin Defects Syndrome
van Rahden, V. A., Fernandez-Vizarra, E., Alawi, M., Brand, K., Fellmann, F., Horn, D., Zeviani, M. & Kutsche, K., 02.04.2015, In: AM J HUM GENET. 96, 4, p. 640-50 11 p.Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
Deciphering the microRNA signature of pathological cardiac hypertrophy by engineered heart tissue- and sequencing-technology
Hirt, M. N., Werner, T., Indenbirken, D., Alawi, M., Demin, P., Kunze, A-C., Stenzig, J., Starbatty, J., Hansen, A., Fiedler, J., Thum, T. & Eschenhagen, T., 01.04.2015, In: J MOL CELL CARDIOL. 81, p. 1-9 9 p.Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
Close relationship of ruminant pestiviruses and classical Swine Fever virus
Postel, A., Schmeiser, S., Oguzoglu, T. C., Indenbirken, D., Alawi, M., Fischer, N., Grundhoff, A. & Becher, P., 04.2015, In: EMERG INFECT DIS. 21, 4, p. 668-72 5 p.Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
SCNT-derived ESCs with mismatched mitochondria trigger an immune response in allogeneic hosts
Deuse, T., Wang, D., Stubbendorff, M., Itagaki, R., Grabosch, A., Greaves, L. C., Alawi, M., Grünewald, A., Hu, X., Hua, X., Velden, J., Reichenspurner, H., Robbins, R. C., Jaenisch, R., Weissman, I. L. & Schrepfer, S., 08.01.2015, In: CELL STEM CELL. 16, 1, p. 33-38 6 p.Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
An AP4B1 frameshift mutation in siblings with intellectual disability and spastic tetraplegia further delineates the AP-4 deficiency syndrome
Abdollahpour, H., Alawi, M., Kortüm, F., Beckstette, M., Seemanova, E., Komárek, V., Rosenberger, G. & Kutsche, K., 2015, In: EUR J HUM GENET. 23, 2, p. 256-259Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
- 2014
Bromodomain protein BRD4 is required for estrogen receptor-dependent enhancer activation and gene transcription
Nagarajan, S., Hossan, T., Alawi, M., Najafova, Z., Indenbirken, D., Bedi, U., Taipaleenmäki, H., Ben-Batalla, I., Scheller, M., Loges, S., Knapp, S., Hesse, E., Chiang, C-M., Grundhoff, A. & Johnsen, S. A., 24.07.2014, In: CELL REP. 8, 2, p. 459-468 10 p.Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
Next-generation sequencing of peripheral B-lineage cells pinpoints the circulating clonotypic cell pool in multiple myeloma
Thiele, B., Kloster, M., Alawi, M., Indenbirken, D., Trepel, M., Grundhoff, A. & Binder, M., 05.06.2014, In: BLOOD. 123, 23, p. 3618-21 4 p.Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
Rapid Metagenomic Diagnostics for Suspected Outbreak of Severe Pneumonia
Fischer, N., Rohde, H., Indenbirken, D., Günther, T., Reumann, K., Lütgehetmann, M., Meyer, T., Kluge, S., Aepfelbacher, M., Alawi, M. & Grundhoff, A., 01.06.2014, In: EMERG INFECT DIS. 20, 6, p. 1072-5 4 p.Research output: SCORING: Contribution to journal › Other (editorial matter etc.) › Research
A comparative metagenome survey of the fecal microbiota of a breast- and a plant-fed Asian elephant reveals an unexpectedly high diversity of glycoside hydrolase family enzymes
Ilmberger, N., Güllert, S., Dannenberg, J., Rabausch, U., Torres, J., Wemheuer, B., Alawi, M., Poehlein, A., Chow, J., Turaev, D., Rattei, T., Schmeisser, C., Salomon, J., Olsen, P. B., Daniel, R., Grundhoff, A., Borchert, M. S. & Streit, W. R., 2014, In: PLOS ONE. 9, 9, p. e106707Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
- 2013
Metagenome survey of a multispecies and alga-associated biofilm revealed key elements of bacterial-algal interactions in photobioreactors
Krohn-Molt, I., Wemheuer, B., Alawi, M., Poehlein, A., Güllert, S., Schmeisser, C., Pommerening-Röser, A., Grundhoff, A., Daniel, R., Hanelt, D. & Streit, W. R., 10.2013, In: APPL ENVIRON MICROB. 79, 20, p. 6196-6206 11 p.Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
Dual roles of the transcription factor grainyhead-like 2 (GRHL2) in breast cancer
Werner, S., Frey, S., Riethdorf, S., Schulze, C., Alawi, M., Kling, L., Vafaizadeh, V., Sauter, G., Terracciano, L., Schumacher, U., Pantel, K. & Assmann, V., 09.08.2013, In: J BIOL CHEM. 288, 32, p. 22993-3008 16 p.Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
Runx1 is essential at two stages of early murine B-cell development
Niebuhr, B., Kriebitzsch, N., Fischer, M., Behrens, K., Günther, T., Alawi, M., Bergholz, U., Müller, U., Roscher, S., Ziegler, M., Buchholz, F., Grundhoff, A. & Stocking, C., 18.07.2013, In: BLOOD. 122, 3, p. 413-23 11 p.Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review
- 2011
CASSys: an integrated software-system for the interactive analysis of ChIP-seq data
Alawi, M., Kurtz, S. & Beckstette, M., 2011, In: J INTEGR BIOINFORMAT. 8, 2, p. 155Research output: SCORING: Contribution to journal › SCORING: Journal article › Research › peer-review