Publications – Bioinformatics Core

2024

Apoptotic cell identity induces distinct functional responses to IL-4 in efferocytic macrophages. Liebold I, Al Jawazneh A, Casar C, Lanzloth C, Leyk S, Hamley M, Wong MN, Kylies D, Gräfe SK, Edenhofer I, Aranda-Pardos I, Kriwet M, Haas H, Krause J, Hadjilaou A, Schromm AB, Richardt U, Eggert P, Tappe D, Weidemann SA, Ghosh S, Krebs CF, A-Gonzalez N, Worthmann A, Lohse AW, Huber S, Rothlin CV, Puelles VG, Jacobs T, Gagliani N, Bosurgi L. Science. 2024 Apr 5;384(6691):eabo7027. doi: 10.1126/science.abo7027. PMID: 38574142

Antagonistic effects of the cytotoxic molecules granzyme B and TRAIL in the immunopathogenesis of sclerosing cholangitis. Kellerer M, Javed S, Casar C, Will N, Berkhout LK, Schwinge D, Krebs CF, Schramm C, Neumann K, Tiegs G. Hepatology. 2024 Mar 5. doi: 10.1097/HEP.0000000000000830. PMID: 38441998

SMARCA4 loss and mutated β-catenin induce proliferative lesions in the murine embryonic cerebellum. Göbel C, Schoof M, Holdhof D, Spohn M, Schüller U. J Neurosci. 2024 Feb 21:e1605232024. doi: 10.1523/JNEUROSCI.1605-23.2024. PMID: 38383496

The phosphodiesterase 2A controls lymphatic junctional maturation via cGMP-dependent notch signaling. Carlantoni C, Liekfeld LMH, Hemkemeyer SA, Schreier D, Saygi C, Kurelic R, Cardarelli S, Kalucka J, Schulte C, Beerens M, Mailer RK, Schäffer TE, Naro F, Pellegrini M, Nikolaev VO, Renné T, Frye M. Dev Cell. 2024 Feb 5;59(3):308-325.e11. doi: 10.1016/j.devcel.2023.12.002. PMID: 38159569

Intestinal epithelia and myeloid immune cells shape colitis severity and colorectal carcinogenesis via High-mobility group box protein 1. Foelsch K, Pelczar P, Zierz E, Kondratowicz S, Qi M, Müller C, Alawi M, Huebener S, Clauditz T, Gagliani N, Huber S, Huebener P. J Crohns Colitis. 2024 Jan 29:jjae017. doi: 10.1093/ecco-jcc/jjae017. PMID: 38285546

Variant ALK-fusion positive anaplastic large cell lymphoma (ALCL): A population-based paediatric study of the NHL-BFM study group. Luedersen J, Stadt UZ, Richter J, Oschlies I, Klapper W, Rosenwald A, Kalinova M, Simonitsch-Klupp I, Siebert R, Zimmermann M, Qi M, Nakel J, Scheinemann K, Knörr F, Attarbaschi A, Kabickova E, Woessmann W, Damm-Welk C. Br J Haematol. 2024 Jan 26. doi: 10.1111/bjh.19308. PMID: 38279625

CD301 and LSECtin glycan-binding receptors of innate immune cells serve as prognostic markers and potential predictors of immune response in breast cancer subtypes. Wegscheider AS, Wojahn I, Gottheil P, Spohn M, Käs JA, Rosin O, Ulm B, Nollau P, Wagener C, Niendorf A, Wolters-Eisfeld G. Glycobiology. 2024 Jan 11:cwae003. doi: 10.1093/glycob/cwae003. PMID: 38206856

New dienelactone hydrolase from microalgae bacterial community-Antibiofilm activity against fish pathogens and potential applications for aquaculture. Bergmann L, Balzer Le S, Hageskal G, Preuss L, Han Y, Astafyeva Y, Loevenich S, Emmann S, Perez-Garcia P, Indenbirken D, Katzowitsch E, Thümmler F, Alawi M, Wentzel A, Streit WR, Krohn I. Sci Rep. 2024 Jan 3;14(1):377. doi: 10.1038/s41598-023-50734-9. PMID: 38172513

2023

Neutrophil extracellular traps and DNases orchestrate formation of peritoneal adhesions. Elrod J, Heuer A, Knopf J, Schoen J, Schönfeld L, Trochimiuk M, Stiel C, Appl B, Raluy LP, Saygi C, Zlatar L, Hosari S, Royzman D, Winkler TH, Lochnit G, Leppkes M, Grützmann R, Schett G, Tomuschat C, Reinshagen K, Herrmann M, Fuchs TA, Boettcher M. iScience. 2023 Oct 27;26(12):108289. doi: 10.1016/j.isci.2023.108289. eCollection 2023 Dec 15. PMID: 38034352

EpCAM-positive circulating tumor cells and serum AFP levels predict outcome after curative resection of hepatocellular carcinoma. Kocheise L, Schoenlein M, Behrends B, Joerg V, Casar C, Fruendt TW, Renné T, Heumann A, Li J, Huber S, Lohse AW, Pantel K, Riethdorf S, Wege H, Schulze K, von Felden J. Sci Rep. 2023 Nov 27;13(1):20827. doi: 10.1038/s41598-023-47580-0. PMID: 38012205

Mouse models of pediatric high-grade gliomas with MYCN amplification reveal intratumoral heterogeneity and lineage signatures. Schoof M, Godbole S, Albert TK, Dottermusch M, Walter C, Ballast A, Qin N, Olivera MB, Göbel C, Neyazi S, Holdhof D, Kresbach C, Peter LS, Epplen GD, Thaden V, Spohn M, Blattner-Johnson M, Modemann F, Mynarek M, Rutkowski S, Sill M, Varghese J, Afflerbach AK, Eckhardt A, Münter D, Verma A, Struve N, Jones DTW, Remke M, Neumann JE, Kerl K, Schüller U. Nat Commun. 2023 Nov 24;14(1):7717. doi: 10.1038/s41467-023-43564-w. PMID: 38001143

Nmes1 is a novel regulator of mucosal response influencing intestinal healing potential. Hamley M, Leyk S, Casar C, Liebold I, Jawazneh AA, Lanzloth C, Böttcher M, Haas H, Richardt U, Rothlin CV, Jacobs T, Huber S, Adlung L, Pelczar P, Henao-Mejia J, Bosurgi L. Eur J Immunol. 2023 Nov 16:e2350434. doi: 10.1002/eji.202350434. PMID: 37971166

Stenotrophomonas maltophilia affects the gene expression profiles of the major pathogens Pseudomonas aeruginosa and Staphylococcus aureus in an in vitro multispecies biofilm model. Alio I, Moll R, Hoffmann T, Mamat U, Schaible UE, Pappenfort K, Alawi M, Schie M, Thünauer R, Stamm J, Rohde H, Streit WR. Microbiol Spectr. 2023 Dec 12;11(6):e0085923. doi: 10.1128/spectrum.00859-23. Epub 2023 Oct 11. PMID: 37819084

Immunosuppressive M2 TAMs represent a promising target population to enhance phagocytosis of ovarian cancer cells in vitro. Brauneck F, Oliveira-Ferrer L, Muschhammer J, Sturmheit T, Ackermann C, Haag F, Schulze Zur Wiesch J, Ding Y, Qi M, Hell L, Schmalfeldt B, Bokemeyer C, Fiedler W, Wellbrock J. Front Immunol. 2023 Oct 2;14:1250258. doi: 10.3389/fimmu.2023.1250258. eCollection 2023. PMID: 37876933

Short-term dietary changes can result in mucosal and systemic immune depression. Siracusa F, Schaltenberg N, Kumar Y, Lesker TR, Steglich B, Liwinski T, Cortesi F, Frommann L, Diercks BP, Bönisch F, Fischer AW, Scognamiglio P, Pauly MJ, Casar C, Cohen Y, Pelczar P, Agalioti T, Delfs F, Worthmann A, Wahib R, Jagemann B, Mittrücker HW, Kretz O, Guse AH, Izbicki JR, Lassen KG, Strowig T, Schweizer M, Villablanca EJ, Elinav E, Huber S, Heeren J, Gagliani N. Nat Immunol. 2023 Sep;24(9):1473-1486. doi: 10.1038/s41590-023-01587-x. PMID: 37580603

De novo PHF5A variants are associated with craniofacial abnormalities, developmental delay, and hypospadias. Harms FL, Dingemans AJM, Hempel M, Pfundt R, Bierhals T, Casar C, Müller C, Niermeijer JF, Fischer J, Jahn A, Hübner C, Majore S, Agolini E, Novelli A, van der Smagt J, Ernst R, van Binsbergen E, Mancini GMS, van Slegtenhorst M, Barakat TS, Wakeling EL, Kamath A, Downie L, Pais L, White SM, de Vries BBA, Kutsche K. Genet Med. 2023 Sep 19:100964. doi: 10.1016/j.gim.2023.100964. PMID: 37728613

Complete genome sequence of a Staphylococcus condimenti isolated from a port catheter-associated bloodstream infection. Berneking L, Büttner H, Qi M, Günther T, Lehnhoff D, Both A, Christner M, Wolters M, Alawi M, Aepfelbacher M, Rohde H. Microbiol Resour Announc. 2023 Sep 1:e0043823. doi: 10.1128/MRA.00438-23. PMID: 37655888

Classification of Brain Tumors by Nanopore Sequencing of Cell-Free DNA from Cerebrospinal Fluid. Afflerbach AK, Rohrandt C, Brändl B, Sönksen M, Hench J, Frank S, Börnigen D, Alawi M, Mynarek M, Winkler B, Ricklefs F, Synowitz M, Dührsen L, Rutkowski S, Wefers AK, Müller FJ, Schoof M, Schüller U. Clin Chem. 2023 Aug 25:hvad115. doi: 10.1093/clinchem/hvad115. PMID: 37624932

Human γδ T cell Identification from Single-cell RNA Sequencing Datasets by Modular TCR Expression. Song Z, Henze L, Casar C, Schwinge D, Schramm C, Fuss J, Tan L, Prinz I. J Leukoc Biol. 2023 Jul 12:qiad069. doi: 10.1093/jleuko/qiad069. PMID: 37437101

Impact of AKT1 on cell invasion and radiosensitivity in a triple negative breast cancer cell line developing brain metastasis. Kempska J, Oliveira-Ferrer L, Grottke A, Qi M, Alawi M, Meyer F, Borgmann K, Hamester F, Eylmann K, Rossberg M, Smit DJ, Jücker M, Laakmann E, Witzel I, Schmalfeldt B, Müller V, Legler K. Front Oncol. 2023 Jul 6;13:1129682. doi: 10.3389/fonc.2023.1129682. PMID: 37483521

de novo PHF5A variants are associated with craniofacial abnormalities, developmental delay, and hypospadias. Harms FL, Dingemans AJM, Hempel M, Pfundt R, Bierhals T, Casar C, Müller C, Niermeijer JF, Fischer J, Jahn A, Hübner C, Majore S, Agolini E, Novelli A, van der Smagt J, Ernst R, van Binsbergen E, Mancini GMS, van Slegtenhorst M, Barakat TS, Wakeling EL, Kamath A, Downie L, Pais L, White SM, de Vries BBA, Kutsche K. Genet Med. 2023 Jul 6:100927. doi: 10.1016/j.gim.2023.100927. PMID: 37422718

IRF4 is required for migration of CD4⁺ T cells to the intestine but not for Th2 and Th17 cell maintenance. Schmidt C, Harberts A, Reimers D, Bertram T, Voß LC, Schmid J, Lory NC, Spohn M, Koch-Nolte F, Huber S, Raczkowski F, Breloer M, Mittrücker HW. Front Immunol. 2023 Jul 3;14:1182502. doi: 10.3389/fimmu.2023.1182502. PMID: 37469513

A deep intronic variant in DNM1 in a patient with developmental and epileptic encephalopathy creates a splice acceptor site and affects only transcript variants including exon 10a. Harms FL, Weiss D, Lisfeld J, Alawi M, Kutsche K.Neurogenetics. 2023 Apr 11. doi: 10.1007/s10048-023-00716-w. PMID: 37039969

Craniofacial dysmorphism, skeletal anomalies, and impaired intellectual development syndrome-1 in two new patients with the same homozygous TMCO1 variant and review of the literature. Abdelrazek IM, Holling T, Harms FL, Alawi M, Omar T, Abdalla E, Kutsche K. Eur J Med Genet. 2023 Mar;66(3):104715. doi: 10.1016/j.ejmg.2023.104715. PMID: 36708876

Murine scald models characterize the role of neutrophils and neutrophil extracellular traps in severe burns. Elrod J, Lenz M, Kiwit A, Armbrust L, Schönfeld L, Reinshagen K, Pagerols Raluy L, Mohr C, Saygi C, Alawi M, Rohde H, Herrmann M, Boettcher M. Front Immunol. 2023 Feb 7;14:1113948. doi: 10.3389/fimmu.2023.1113948. PMID: 36825027

Risk prediction in early childhood SHH medulloblastoma treated with radiation-avoiding chemotherapy: Evidence for more than two subgroups. Tonn S, Korshunov A, Obrecht D, Sill M, Spohn M, von Hoff K, Milde T, Pietsch T, Goschzik T, Bison B, Juhnke BO, Struve N, Sturm D, Sahm F, Bockmayr M, Friedrich C, von Bueren AO, Gerber NU, Benesch M, Jones DTW, Kool M, Wefers AK, Schüller U, Pfister SM, Rutkowski S, Mynarek M. Neuro Oncol. 2023 Jan 30:noad027. doi: 10.1093/neuonc/noad027. PMID: 36715306

Preclinical patient-derived modelling of castration-resistant prostate cancer facilitates individualized assessment of homologous recombination repair deficient disease. Elsesy ME, Oh-Hohenhorst SJ, Oing C, Eckhardt A, Burdak-Rothkamm S, Alawi M, Müller C, Schüller U, Maurer T, von Amsberg G, Petersen C, Rothkamm K, Mansour WY. Mol Oncol. 2023 Jan 24. doi: 10.1002/1878-0261.13382. PMID: 36694344

Midgut Volvulus Adds a Murine, Neutrophil-Driven Model of Septic Condition to the Experimental Toolbox. Elrod J, Kiwit A, Lenz M, Rohde H, Börnigen D, Alawi M, Mohr C, Pagerols Raluy L, Trochimiuk M, Knopf J, Reinshagen K, Herrmann M, Boettcher M. Cells. 2023 Jan 19;12(3):366. doi: 10.3390/cells12030366. PMID: 36766707

INPP4A-related genetic and phenotypic spectrum and functional relevance of subcellular targeting of INPP4A isoforms. Hecher L, Harms FL, Lisfeld J, Alawi M, Denecke J, Kutsche K. Neurogenetics. 2023 Jan 19. doi: 10.1007/s10048-023-00709-9. PMID: 36653678

Multicytokine-producing CD4+ T cells characterize the livers of patients with NASH. Woestemeier A, Scognamiglio P, Zhao Y, Wagner J, Muscate F, Casar C, Siracusa F, Cortesi F, Agalioti T, Müller S, Sagebiel A, Konczalla L, Wahib R, Karstens KF, Giannou AD, Duprée A, Wolter S, Wong MN, Mühlig AK, Bielecka AA, Bansal V, Zhang T, Mann O, Puelles VG, Huber TB, Lohse AW, Izbicki JR, Palm NW, Bonn S, Huber S, Gagliani N. JCI Insight. 2023 Jan 10;8(1):e153831. doi: 10.1172/jci.insight.153831. PMID: 36625344

2022

Salvage Chemotherapy with Cisplatin, Ifosfamide, and Paclitaxel in Aggressive Variant of Metastatic Castration-Resistant Prostate Cancer. von Amsberg G, Zilles M, Mansour W, Gild P, Alsdorf W, Kaune M, Böckelmann L, Hauschild J, Krisp C, Rohlfing T, Saygi C, Alawi M, Zielinski A, Langebrake C, Oh-Hohenhorst SJ, Perner S, Tilki D, Schlüter H, Graefen M, Dyshlovoy SA, Bokemeyer C. Int J Mol Sci. 2022 Nov 29;23(23):14948. doi: 10.3390/ijms232314948.PMID: 36499277

Clinically Relevant KCNQ1 Variants Causing KCNQ1-KCNE2 Gain-of-Function Affect the Ca²⁺ Sensitivity of the Channel. Bauer CK, Holling T, Horn D, Laço MN, Abdalla E, Omar OM, Alawi M, Kutsche K. Int J Mol Sci. 2022 Aug 26;23(17):9690. doi: 10.3390/ijms23179690. PMID: 36077086

The Properties of Proinflammatory Ly6C^hi Monocytes Are Differentially Shaped by Parasitic and Bacterial Liver Infections. Hoenow S, Yan K, Noll J, Groneberg M, Casar C, Lory NC, Vogelsang M, Hansen C, Wolf V, Fehling H, Sellau J, Mittrücker HW, Lotter H. Cells. 2022 Aug 16;11(16):2539. doi: 10.3390/cells11162539. PMID: 36010615

Disease modeling of a mutation in α-actinin 2 guides clinical therapy in hypertrophic cardiomyopathy. Prondzynski M, Lemoine MD, Zech AT, Horváth A, Di Mauro V, Koivumäki JT, Kresin N, Busch J, Krause T, Krämer E, Schlossarek S, Spohn M, Friedrich FW, Münch J, Laufer SD, Redwood C, Volk AE, Hansen A, Mearini G, Catalucci D, Meyer C, Christ T, Patten M, Eschenhagen T, Carrier L.EMBO Mol Med. 2022 Aug 8;14(8):e16423. doi: 10.15252/emmm.202216423. PMID: 35938313

Pregnancy-induced maternal microchimerism shapes neurodevelopment and behavior in mice. Schepanski S, Chini M, Sternemann V, Urbschat C, Thiele K, Sun T, Zhao Y, Poburski M, Woestemeier A, Thieme MT, Zazara DE, Alawi M, Fischer N, Heeren J, Vladimirov N, Woehler A, Puelles VG, Bonn S, Gagliani N, Hanganu-Opatz IL, Arck PC. Nat Commun. 2022 Aug 5;13(1):4571. doi: 10.1038/s41467-022-32230-2. PMID: 35931682

Microalgae and Bacteria Interaction-Evidence for Division of Diligence in the Alga Microbiota. Astafyeva Y, Gurschke M, Qi M, Bergmann L, Indenbirken D, de Grahl I, Katzowitsch E, Reumann S, Hanelt D, Alawi M, Streit WR, Krohn I. Microbiol Spectr. 2022 Aug 1:e0063322. doi: 10.1128/spectrum.00633-22. PMID: 35913168

Persistence of MERS-CoV-spike-specific B cells and antibodies after late third immunization with the MVA-MERS-S vaccine. Weskamm LM, Fathi A, Raadsen MP, Mykytyn AZ, Koch T, Spohn M, Friedrich M; MVA-MERS-S Study Group, Haagmans BL, Becker S, Sutter G, Dahlke C, Addo MM. Cell Rep Med. 2022 Jul 19;3(7):100685. doi: 10.1016/j.xcrm.2022.100685. PMID: 35858586

Characterization of IG-MYC-breakpoints and their application for quantitative minimal disease monitoring in high-risk pediatric Burkitt-lymphoma and -leukemia. Möker P, Zur Stadt U, Zimmermann M, Alawi M, Mueller S, Finger J, Knörr F, Riquelme A, Oschlies I, Klapper W, Bradtke J, Burkhardt B, Woessmann W, Damm-Welk C. Leukemia. 2022 Sep;36(9):2343-2346. doi: 10.1038/s41375-022-01626-w. Epub 2022 Jul 5. PMID: 35790817

Inflammatory type 2 conventional dendritic cells contribute to murine and human cholangitis. Müller AL, Casar C, Preti M, Krzikalla D, Gottwick C, Averhoff P, Rosenstiel P, Gelderblom M, Altfeld M, Lohse AW, Steinmann S, Sebode M, Krause J, Schwinge D, Schramm C, Carambia A, Herkel J. J Hepatol. 2022 Jul 5:S0168-8278(22)02923-3. doi: 10.1016/j.jhep.2022.06.025. PMID: 35798133

Multiplexed mRNA analysis of brain-derived extracellular vesicles upon experimental stroke in mice reveals increased mRNA content with potential relevance to inflammation and recovery processes. Bub A, Brenna S, Alawi M, Kügler P, Gui Y, Kretz O, Altmeppen H, Magnus T, Puig B. Cell Mol Life Sci. 2022 May 31;79(6):329. doi: 10.1007/s00018-022-04357-4. PMID: 35639208

Diagnostic potential of extracellular vesicles in meningioma patients. Ricklefs FL, Maire CL, Wollmann K, Dührsen L, Fita KD, Sahm F, Herold-Mende C, von Deimling A, Kolbe K, Holz M, Bergmann L, Fuh MM, Schlüter H, Alawi M, Reimer R, Sven P, Glatzel M, Westphal M, Lamszus K. Neuro Oncol. 2022 May 12:noac127. doi: 10.1093/neuonc/noac127. PMID: 35551407

Cardiofacioneurodevelopmental syndrome: Report of a novel patient and expansion of the phenotype. Abdalla E, Alawi M, Meinecke P, Kutsche K, Harms FL. Am J Med Genet A. 2022 Apr 22. doi: 10.1002/ajmg.a.62762. PMID: 35451546

Comprehensive profiling of myxopapillary ependymomas identifies a distinct molecular subtype with relapsing disease. Bockmayr M, Harnisch K, Pohl LC, Schweizer L, Mohme T, Körner M, Alawi M, Suwala AK, Dorostkar MM, Monoranu CM, Hasselblatt M, Wefers AK, Capper D, Hench J, Frank S, Richardson TE, Tran I, Liu E, Snuderl M, Engertsberger L, Benesch M, von Deimling A, Obrecht D, Mynarek M, Rutkowski S, Glatzel M, Neumann JE, Schüller U. Neuro Oncol. 2022 Apr 5:noac088. doi: 10.1093/neuonc/noac088. PMID: 35380708

Primary central nervous system sarcoma with DICER1 mutation-treatment results of a novel molecular entity in pediatric Peruvian patients. Diaz Coronado RY, Mynarek M, Koelsche C, Mora Alferez P, Casavilca Zambrano S, Wachtel Aptowitzer A, Sahm F, von Deimling A, Schüller U, Spohn M, Sturm D, Pfister SM, Morales La Madrid A, Sernaque Quintana R, Sarria Bardales G, Negreiros Chinchihuara T, Ojeda Medina L, Garcia-Corrochano Medina P, Campos Sanchez DA, Ponce Farfan J, Rutkowski S, Garcia Leon JL. Cancer. 2022 Feb 15;128(4):697-707. doi: 10.1002/cncr.33977. PMID: 34674226

Insights into the Steps of Breast Cancer-Brain Metastases Development: Tumor Cell Interactions with the Blood-Brain Barrier. Hamester F, Stürken C, Saygi C, Qi M, Legler K, Gorzelanny C, Robador JR, Schmalfeldt B, Laakmann E, Müller V, Witzel I, Oliveira-Ferrer L. Int J Mol Sci. 2022 Feb 8;23(3):1900. doi: 10.3390/ijms23031900. PMID: 35163822

Equal Efficacy and Safety Profile in Elderly Patients with Hepatocellular Carcinoma Receiving Palliative Treatment. Fründt TW, Casar C, von Felden J, Schöler U, Priebe M, Kraczyk J, Ahrend H, Salamon J, Adam G, Huber S, Lohse AW, Wege H, Schulze K. Cancers (Basel). 2022 Feb 1;14(3):768. doi: 10.3390/cancers14030768. PMID: 35159035

Novel biallelic variants expand the SLC5A6-related phenotypic spectrum. Holling T, Nampoothiri S, Tarhan B, Schneeberger PE, Vinayan KP, Yesodharan D, Roy AG, Radhakrishnan P, Alawi M, Rhodes L, Girisha KM, Kang PB, Kutsche K. Eur J Hum Genet. 2022 Jan 11:1-11. doi: 10.1038/s41431-021-01033-2. PMID: 35013551

2021

Transcriptome Analysis in Vulvar Squamous Cell Cancer. Prieske K, Alawi M, Jaeger A, Wankner MC, Eylmann K, Reuter S, Lebok P, Burandt E, Blessin NC, Schmalfeldt B, Oliveira-Ferrer L, Joosse SA, Woelber L. Cancers (Basel). 2021 Dec 19;13(24):6372. doi: 10.3390/cancers13246372. PMID: 34944992

Biallelic FRA10AC1 variants cause a neurodevelopmental disorder with growth retardation. von Elsner L, Chai G, Schneeberger PE, Harms FL, Casar C, Qi M, Alawi M, Abdel-Salam GMH, Zaki MS, Arndt F, Yang X, Stanley V, Hempel M, Gleeson JG, Kutsche K. Brain. 2021 Oct 25:awab403. doi: 10.1093/brain/awab403. PMID: 34694367

COVID19 Disease Map, a computational knowledge repository of virus-host interaction mechanisms. Ostaszewski M, Niarakis A, Mazein A, Kuperstein I, Phair R, Orta-Resendiz A, Singh V, Aghamiri SS, Acencio ML, Glaab E, Ruepp A, Fobo G, Montrone C, Brauner B, Frishman G, Monraz Gómez LC, Somers J, Hoch M, Kumar Gupta S, Scheel J, Borlinghaus H, Czauderna T, Schreiber F, Montagud A, Ponce de Leon M, Funahashi A, Hiki Y, Hiroi N, Yamada TG, Dräger A, Renz A, Naveez M, Bocskei Z, Messina F, Börnigen D, Fergusson L, Conti M, Rameil M, Nakonecnij V, Vanhoefer J, Schmiester L, Wang M, Ackerman EE, Shoemaker JE, Zucker J, Oxford K, Teuton J, Kocakaya E, Summak GY, Hanspers K, Kutmon M, Coort S, Eijssen L, Ehrhart F, Rex DAB, Slenter D, Martens M, Pham N, Haw R, Jassal B, Matthews L, Orlic-Milacic M, Senff Ribeiro A, Rothfels K, Shamovsky V, Stephan R, Sevilla C, Varusai T, Ravel JM, Fraser R, Ortseifen V, Marchesi S, Gawron P, Smula E, Heirendt L, Satagopam V, Wu G, Riutta A, Golebiewski M, Owen S, Goble C, Hu X, Overall RW, Maier D, Bauch A, Gyori BM, Bachman JA, Vega C, Grouès V, Vazquez M, Porras P, Licata L, Iannuccelli M, Sacco F, Nesterova A, Yuryev A, de Waard A, Turei D, Luna A, Babur O, Soliman S, Valdeolivas A, Esteban-Medina M, Peña-Chilet M, Rian K, Helikar T, Puniya BL, Modos D, Treveil A, Olbei M, De Meulder B, Ballereau S, Dugourd A, Naldi A, Noël V, Calzone L, Sander C, Demir E, Korcsmaros T, Freeman TC, Augé F, Beckmann JS, Hasenauer J, Wolkenhauer O, Wilighagen EL, Pico AR, Evelo CT, Gillespie ME, Stein LD, Hermjakob H, D’Eustachio P, Saez-Rodriguez J, Dopazo J, Valencia A, Kitano H, Barillot E, Auffray C, Balling R, Schneider R; COVID-19 Disease Map Community. Mol Syst Biol. 2021 Oct;17(10):e10387. doi: 10.15252/msb.202110387. PMID: 34664389

Deep (Meta)genomics and (Meta)transcriptome Analyses of Fungal and Bacteria Consortia From Aircraft Tanks and Kerosene Identify Key Genes in Fuel and Tank Corrosion. Krohn I, Bergmann L, Qi M, Indenbirken D, Han Y, Perez-Garcia P, Katzowitsch E, Hägele B, Lübcke T, Siry C, Riemann R, Alawi M, Streit WR. Front Microbiol. 2021 Oct 1;12:722259. doi: 10.3389/fmicb.2021.722259. PMID: 34675897

Clofarabine increases the eradication of minimal residual disease of primary Bprecursor acute lymphoblastic leukemia compared to high-dose cytarabine without improvement of outcome. Escherich G, Zur Stadt U, Borkhardt A, Dilloo D, Faber J, Feuchtinger T, Imschweiler T, Jorch N, Pekrun A, Schmid I, Schramm F, Spohn M, Zimmermann M, Horstmann MA. Haematologica. 2021 Aug 5. doi: 10.3324/haematol.2021.279357. PMID: 34348455

Vertically transferred maternal immune cells promote neonatal immunity against early life infections. Stelzer IA, Urbschat C, Schepanski S, Thiele K, Triviai I, Wieczorek A, Alawi M, Ohnezeit D, Kottlau J, Huang J, Fischer N, Mittrücker HW, Solano ME, Fehse B, Diemert A, Stahl FR, Arck PC. Nat Commun. 2021 Aug 4;12(1):4706. doi: 10.1038/s41467-021-24719-z. PMID: 34349112

Single-cell atlas of hepatic T cells reveals expansion of liver-resident naive-like CD4⁺ T cells in primary sclerosing cholangitis. Poch T, Krause J, Casar C, Liwinski T, Glau L, Kaufmann M, Ahrenstorf AE, Hess LU, Ziegler AE, Martrus G, Lunemann S, Sebode M, Li J, Schwinge D, Krebs CF, Franke A, Friese MA, Oldhafer KJ, Fischer L, Altfeld M, Lohse AW, Huber S, Tolosa E, Gagliani N, Schramm C. J Hepatol. 2021 Aug;75(2):414-423. doi: 10.1016/j.jhep.2021.03.016. PMID: 33774059

Risk prediction in early childhood sonic hedgehog medulloblastoma treated with radiation-avoiding chemotherapy: Evidence for more than 2 subgroups. Tonn S, Korshunov A, Obrecht D, Sill M, Spohn M, von Hoff K, Milde T, Pietsch T, Goschzik T, Bison B, Juhnke BO, Struve N, Sturm D, Sahm F, Bockmayr M, Friedrich C, von Bueren AO, Gerber NU, Benesch M, Jones DTW, Kool M, Wefers AK, Schüller U, Pfister SM, Rutkowski S, Mynarek M.Neuro Oncol. 2023 Aug 3;25(8):1518-1529. doi: 10.1093/neuonc/noad027. PMID: 36715306

Leukocyte-Derived High-Mobility Group Box 1 Governs Hepatic Immune Responses to Listeria monocytogenes. Volmari A, Foelsch K, Zierz E, Yan K, Qi M, Bartels K, Kondratowicz S, Boettcher M, Reimers D, Nishibori M, Liu K, Schwabe RF, Lohse AW, Huber S, Mittruecker HW, Huebener P. Hepatol Commun. 2021 Jul 28. doi: 10.1002/hep4.1777. PMID: 34558858 Free article.

Hypoimmune induced pluripotent stem cell-derived cell therapeutics treat cardiovascular and pulmonary diseases in immunocompetent allogeneic mice. Deuse T, Tediashvili G, Hu X, Gravina A, Tamenang A, Wang D, Connolly A, Mueller C, Mallavia B, Looney MR, Alawi M, Lanier LL, Schrepfer S. Proc Natl Acad Sci U S A. 2021 Jul 13;118(28):e2022091118. doi: 10.1073/pnas.2022091118. PMID: 34244428

A polymorphism in the promoter of FRAS1 is a candidate SNP associated with metastatic prostate cancer. Wang V, Geybels MS, Jordahl KM, Gerke T, Hamid A, Penney KL, Markt SC, Freedman M, Pomerantz M, Lee GM, Rana H, Börnigen D, Rebbeck TR, Huttenhower C, Eeles RA, Stanford JL, Consortium P, Berndt SI, Claessens F, Sørensen KD, Park JY, Vega A, Usmani N, Mucci L, Sweeney CJ. Prostate. 2021 Jul;81(10):683-693. doi: 10.1002/pros.24148. PMID: 33956343

Genetic Variation and Cardiovascular Risk Factors: A Cohort Study on Migrants from the Former Soviet Union and a Native German Population. Huebner M, Börnigen D, Deckert A, Holle R, Meisinger C, Müller-Nurasyid M, Peters A, Rathmann W, Becher H. Int J Environ Res Public Health. 2021 Jun 8;18(12):6215. doi: 10.3390/ijerph18126215. PMID: 34201265

Molecular characteristics and tumorigenicity of ascites-derived tumor cells: mitochondrial oxidative phosphorylation as a novel therapy target in ovarian cancer. Ding Y, Labitzky V, Legler K, Qi M, Schumacher U, Schmalfeldt B, Stürken C, Oliveira-Ferrer L. Mol Oncol. 2021 Jun 1. doi: 10.1002/1878-0261.13028. PMID: 34060699

Brahma-related gene 1 has time-specific roles during brain and eye development. Holdhof D, Schoof M, Al-Kershi S, Spohn M, Kresbach C, Göbel C, Hellwig M, Indenbirken D, Moreno N, Kerl K, Schüller U. Development. 2021 May 15;148(10):dev196147. doi: 10.1242/dev.196147. Epub 2021 May 27. PMID: 34042968

Biallelic variants in VPS50 cause a neurodevelopmental disorder with neonatal cholestasis. Schneeberger PE, Nampoothiri S, Holling T, Yesodharan D, Alawi M, Knisely AS, Müller T, Plecko B, Janecke AR, Kutsche K. Brain. 2021 May 26:awab206. doi: 10.1093/brain/awab206. PMID: 34037727

Neurofibromatosis type 2 predisposes to ependymomas of various localization, histology, and molecular subtype. Kresbach C, Dorostkar MM, Suwala AK, Wefers AK, Schweizer L, Engertsberger L, Bison B, Mynarek M, Kloth-Stachnau K, Spohn M, von Deimling A, Benesch M, Hagel C, Mautner VF, Rutkowski S, Schüller U. Acta Neuropathol. 2021 Apr 12. doi: 10.1007/s00401-021-02304-4. PMID: 33844070

Single-cell atlas of hepatic T cells reveals expansion of liver-resident naive-like CD4⁺ T cells in primary sclerosing cholangitis. Poch T, Krause J, Casar C, Liwinski T, Glau L, Kaufmann M, Ahrenstorf AE, Hess LU, Ziegler AE, Martrus G, Lunemann S, Sebode M, Li J, Schwinge D, Krebs CF, Franke A, Friese MA, Oldhafer KJ, Fischer L, Altfeld M, Lohse AW, Huber S, Tolosa E, Gagliani N, Schramm C.J Hepatol. 2021 Mar 24:S0168-8278(21)00219-1. doi: 10.1016/j.jhep.2021.03.016. PMID: 33774059

Genome-wide interference of ZNF423 with B-lineage transcriptional circuitries in acute lymphoblastic leukemia. Iglesias P, Puller AC, Seoane M, Spohn M, Raasch S, Klokow M, Müller J, Burkhardt L, Indenbirken D, Horstmann MA. Blood Adv. 2021 Mar 9;5(5):1209-1223. doi: 10.1182/bloodadvances.2020001844. PMID: 33646306

The SIRPα-CD47 immune checkpoint in NK cells. Deuse T, Hu X, Agbor-Enoh S, Jang MK, Alawi M, Saygi C, Gravina A, Tediashvili G, Nguyen VQ, Liu Y, Valantine H, Lanier LL, Schrepfer S. J Exp Med. 2021 Mar 1;218(3):e20200839. doi: 10.1084/jem.20200839. PMID: 33416832

Distinct clonal lineages and within-host diversification shape invasive Staphylococcus epidermidis populations. Both A, Huang J, Qi M, Lausmann C, Weißelberg S, Büttner H, Lezius S, Failla AV, Christner M, Stegger M, Gehrke T, Baig S, Citak M, Alawi M, Aepfelbacher M, Rohde H. PLoS Pathog. 2021 Feb 5;17(2):e1009304. doi: 10.1371/journal.ppat.1009304. PMID: 33544760

Infant immunity against viral infections is advanced by the placenta-dependent vertical transfer of maternal antibodies. Albrecht M, Pagenkemper M, Wiessner C, Spohn M, Lütgehetmann M, Jacobsen H, Gabriel G, Zazara DE, Haertel C, Hecher K, Diemert A, Arck PC. Vaccine. 2021 Jan 8:S0264-410X(20)31629-7. doi: 10.1016/j.vaccine.2020.12.049. PMID: 33431223

2020

Hepatocellular carcinoma: Intratumoral EpCAM-positive cancer stem cell heterogeneity identifies high-risk tumor subtype. Krause J, von Felden J, Casar C, Fründt TW, Galaski J, Schmidt C, Jung C, Ittrich H, Weidemann SA, Krech T, Heumann A, Li J, Fischer L, Sauter G, Lohse AW, Wege H, Schulze K. BMC Cancer. 2020 Nov 23;20(1):1130. doi: 10.1186/s12885-020-07580-z. PMID: 33225916

Bi-allelic Pathogenic Variants in HS2ST1 Cause a Syndrome Characterized by Developmental Delay and Corpus Callosum, Skeletal, and Renal Abnormalities. Schneeberger PE, von Elsner L, Barker EL, Meinecke P, Marquardt I, Alawi M, Steindl K, Joset P, Rauch A, Zwijnenburg PJG, Weiss MM, Merry CLR, Kutsche K. Am J Hum Genet. 2020 Nov 3:S0002-9297(20)30365-7. doi: 10.1016/j.ajhg.2020.10.007. PMID: 33159882

Differential regulation of extracellular matrix proteins in three recurrent liver metastases of a single patient with colorectal cancer. Voß H, Wurlitzer M, Smit DJ, Ewald F, Alawi M, Spohn M, Indenbirken D, Omidi M, David K, Juhl H, Simon R, Sauter G, Fischer L, Izbicki JR, Molloy MP, Nashan B, Schlüter H, Jücker M. Clin Exp Metastasis. 2020 Oct 24. doi: 10.1007/s10585-020-10058-8. PMID: 33099724

Exploration of the sputum methylome and omics deconvolution by quadratic programming in molecular profiling of asthma and COPD: the road to sputum omics 2.0. Groth EE, Weber M, Bahmer T, Pedersen F, Kirsten A, Börnigen D, Rabe KF, Watz H, Ammerpohl O, Goldmann T. Respir Res. 2020 Oct 19;21(1):274. doi: 10.1186/s12931-020-01544-4. PMID: 33076907

Deep amoA amplicon sequencing reveals community partitioning within ammonia-oxidizing bacteria in the environmentally dynamic estuary of the River Elbe. Malinowski M, Alawi M, Krohn I, Ruff S, Indenbirken D, Alawi M, Karrasch M, Lüschow R, Streit WR, Timmermann G, Pommerening-Röser A. Sci Rep. 2020 Oct 13;10(1):17165. doi: 10.1038/s41598-020-74163-0. PMID: 33051504

Glioma escape signature and clonal development under immune pressure. Maire CL, Mohme M, Bockmayr M, Fita KD, Riecken K, Börnigen D, Alawi M, Failla A, Kolbe K, Zapf S, Holz M, Neumann K, Dührsen L, Lange T, Fehse B, Westphal M, Lamszus K. J Clin Invest. 2020 Oct 1;130(10):5257-5271. doi: 10.1172/JCI138760. PMID: 32603315

Retrospective evaluation of whole exome and genome mutation calls in 746 cancer samples. Bailey MH, Meyerson WU, Dursi LJ, Wang LB, Dong G, Liang WW, Weerasinghe A, Li S, Kelso S; MC3 Working Group; PCAWG novel somatic mutation calling methods working group, Saksena G, Ellrott K, Wendl MC, Wheeler DA, Getz G, Simpson JT, Gerstein MB, Ding L; PCAWG Consortium. Nat Commun. 2020 Sep 21;11(1):4748. doi: 10.1038/s41467-020-18151-y. PMID: 32958763

Sex differences in oncogenic mutational processes. Li CH, Prokopec SD, Sun RX, Yousif F, Schmitz N; PCAWG Tumour Subtypes and Clinical Translation, Boutros PC; PCAWG Consortium. Nat Commun. 2020 Aug 28;11(1):4330. doi: 10.1038/s41467-020-17359-2. PMID: 32859912

High-resolution analysis of Merkel Cell Polyomavirus in Merkel Cell Carcinoma reveals distinct integration patterns and suggests NHEJ and MMBIR as underlying mechanisms. Czech-Sioli M, Günther T, Therre M, Spohn M, Indenbirken D, Theiss J, Riethdorf S, Qi M, Alawi M, Wülbeck C, Fernandez-Cuesta I, Esmek F, Becker JC, Grundhoff A, Fischer N. PLoS Pathog. 2020 Aug 24;16(8):e1008562. doi: 10.1371/journal.ppat.1008562. PMID: 32833988

Biallelic MADD variants cause a phenotypic spectrum ranging from developmental delay to a multisystem disorder. Schneeberger PE, Kortüm F, Korenke GC, Alawi M, Santer R, Woidy M, Buhas D, Fox S, Juusola J, Alfadhel M, Webb BD, Coci EG, Abou Jamra R, Siekmeyer M, Biskup S, Heller C, Maier EM, Javaher-Haghighi P, Bedeschi MF, Ajmone PF, Iascone M, Peeters H, Ballon K, Jaeken J, Rodríguez Alonso A, Palomares-Bralo M, Santos-Simarro F, Meuwissen MEC, Beysen D, Kooy RF, Houlden H, Murphy D, Doosti M, Karimiani EG, Mojarrad M, Maroofian R, Noskova L, Kmoch S, Honzik T, Cope H, Sanchez-Valle A; Undiagnosed Diseases Network, Gelb BD, Kurth I, Hempel M, Kutsche K. Brain. 2020 Aug 6:awaa204. doi: 10.1093/brain/awaa204. PMID: 32761064

Ependymoma relapse goes along with a relatively stable epigenome, but a severely altered tumor morphology. Yang D, Holsten T, Börnigen D, Frank S, Mawrin C, Glatzel M, Schüller U. Brain Pathol. 2020 Jul 6. doi: 10.1111/bpa.12875. PMID: 32633004

Biallelic loss-of-function variants in TBC1D2B cause a neurodevelopmental disorder with seizures and gingival overgrowth. Harms FL, Parthasarathy P, Zorndt D, Alawi M, Fuchs S, Halliday BJ, McKeown C, Sampaio H, Radhakrishnan N, Radhakrishnan SK, Gorce M, Navet B, Ziegler A, Sachdev R, Robertson SP, Nampoothiri S, Kutsche K. Hum Mutat. 2020 Jul 5. doi: 10.1002/humu.24071. PMID: 32623794

Genomic characterization of vulvar squamous cell carcinoma. Prieske K, Alawi M, Oliveira-Ferrer L, Jaeger A, Eylmann K, Burandt E, Schmalfeldt B, Joosse SA, Woelber L. Gynecol Oncol. 2020 Jun 24:S0090-8258(20)32297-6. doi: 10.1016/j.ygyno.2020.06.482. PMID: 32591094

Draft Genome Sequence of the Green Alga Scenedesmus acuminatus SAG 38.81. Astafyeva Y, Alawi M, Indenbirken D, Danso D, Grundhoff A, Hanelt D, Streit WR, Krohn I. Microbiol Resour Announc. 2020 Jun 11;9(24):e01278-19. doi: 10.1128/MRA.01278-19. PMID: 32527781

Exome sequencing in 38 patients with intracranial aneurysms and subarachnoid hemorrhage. Sauvigny T, Alawi M, Krause L, Renner S, Spohn M, Busch A, Kolbe V, Altmüller J, Löscher BS, Franke A, Brockmann C, Lieb W, Westphal M, Schmidt NO, Regelsberger J, Rosenberger G. J Neurol. 2020 May 4. doi: 10.1007/s00415-020-09865-6. PMID: 32367296

Cellular Importin-α3 Expression Dynamics in the Lung Regulate Antiviral Response Pathways against Influenza A Virus Infection. Thiele S, Stanelle-Bertram S, Beck S, Kouassi NM, Zickler M, Müller M, Tuku B, Resa-Infante P, van Riel D, Alawi M, Günther T, Rother F, Hügel S, Reimering S, McHardy A, Grundhoff A, Brune W, Osterhaus A, Bader M, Hartmann E, Gabriel G. Cell Rep. 2020 Apr 21;31(3):107549. doi: 10.1016/j.celrep.2020.107549. PMID: 32320654

A prenatally disrupted airway epithelium orchestrates the fetal origin of asthma in mice. Zazara DE, Wegmann M, Giannou AD, Hierweger AM, Alawi M, Thiele K, Huber S, Pincus M, Muntau AC, Solano ME, Arck PC. J Allergy Clin Immunol. 2020 Apr 9. pii: S0091-6749(20)30335-3. doi: 10.1016/j.jaci.2020.01.050. PMID: 32305348

Influence of anti-thymocyte globulin plasma levels on outcome parameters in stem cell transplanted children. Vogelsang V, Kruchen A, Wustrau K, Spohn M, Müller I. Int Immunopharmacol. 2020 Mar 17;83:106371. doi: 10.1016/j.intimp.2020.106371. PMID: 32197227

Molecular profiling of an osseous metastasis in glioblastoma during checkpoint inhibition: potential mechanisms of immune escape. Mohme M, Maire CL, Schliffke S, Joosse SA, Alawi M, Matschke J, Schüller U, Dierlamm J, Martens T, Pantel K, Riethdorf S, Lamszus K, Westphal M. Acta Neuropathol Commun. 2020 Mar 9;8(1):28. doi: 10.1186/s40478-020-00906-9. PMID: 32151286

Clonal evolution after allogeneic stem cell transplantation: the case of myelofibrosis. Christopeit M, Badbaran A, Alawi M, Flach J, Fehse B, Kröger N. Biol Blood Marrow Transplant. 2020 Mar 5. pii: S1083-8791(20)30107-5. doi: 10.1016/j.bbmt.2020.02.021. PMID: 32147533

Zapatka M, Borozan I, Brewer DS, Iskar M, Grundhoff A, Alawi M, Desai N, Sültmann H, Moch H; PCAWG Pathogens, Cooper CS, Eils R, Ferretti V, Lichter P; PCAWG Consortium. The landscape of viral associations in human cancers. Nat Genet. 2020 Feb 5. doi: 10.1038/s41588-019-0558-9. PMID: 32025001

Pan-cancer analysis of whole genomes. ICGC/TCGA Pan-Cancer Analysis of Whole Genomes Consortium. Nature. 2020. PMID: 32025007

Horváth A, Christ T, Koivumäki JT, Prondzynski M, Zech ATL, Spohn M, Saleem U, Mannhardt I, Ulmer B, Girdauskas E, Meyer C, Hansen A, Eschenhagen T, Lemoine MD. Case Report on: Very Early Afterdepolarizations in HiPSC-Cardiomyocytes-An Artifact by Big Conductance Calcium Activated Potassium Current (I_bk,Ca). Cells. 2020 Jan 20;9(1). pii: E253. doi: 10.3390/cells9010253. PMID: 31968557

2019

Schoof M, Launspach M, Holdhof D, Nguyen L, Engel V, Filser S, Peters F, Immenschuh J, Hellwig M, Niesen J, Mall V, Ertl-Wagner B, Hagel C, Spohn M, Lutz B, Sedlacik J, Indenbirken D, Merk DJ, Schüller U. The transcriptional coactivator and histone acetyltransferase CBP regulates neural precursor cell development and migration. Acta Neuropathol Commun. 2019 Dec 5;7(1):199. doi: 10.1186/s40478-019-0849-5. PMID: 31806049

Zur Stadt U, Alawi M, Adao M, Indenbirken D, Escherich G, Horstmann MA. Characterization of novel, recurrent genomic rearrangements as sensitive MRD targets in childhood B-cell precursor ALL. Blood Cancer J. 2019 Nov 29;9(12):96. doi: 10.1038/s41408-019-0257-x. PMID: 31784504

Alawi M, Burkhardt L, Indenbirken D, Reumann K, Christopeit M, Kröger N, Lütgehetmann M, Aepfelbacher M, Fischer N, Grundhoff A. DAMIAN: an open source bioinformatics tool for fast, systematic and cohort based analysis of microorganisms in diagnostic samples. Sci Rep. 2019 Nov 14;9(1):16841. doi: 10.1038/s41598-019-52881-4. PMID: 31727957

Prondzynski M, Lemoine MD, Zech AT, Horváth A, Di Mauro V, Koivumäki JT, Kresin N, Busch J, Krause T, Krämer E, Schlossarek S, Spohn M, Friedrich FW, Münch J, Laufer SD, Redwood C, Volk AE, Hansen A, Mearini G, Catalucci D, Meyer C, Christ T, Patten M, Eschenhagen T, Carrier L. Disease modeling of a mutation in α-actinin 2 guides clinical therapy in hypertrophic cardiomyopathy. EMBO Mol Med. 2019 Nov 3:e11115. doi: 10.15252/emmm.201911115. PMID: 31680489

Spieck E, Spohn M, Wendt K, Bock E, Shively J, Frank J, Indenbirken D, Alawi M, Lücker S, Hüpeden J. Extremophilic nitrite-oxidizing Chloroflexi from Yellowstone hot springs. ISME J. 2019 Oct 17. doi: 10.1038/s41396-019-0530-9. PMID: 31624340

Simnica D, Schliffke S, Schultheiß C, Bonzanni N, Fanchi LF, Akyüz N, Gösch B, Casar C, Thiele B, Schlüter J, Lohse AW, Binder M. High-Throughput Immunogenetics Reveals a Lack of Physiological T Cell Clusters in Patients With Autoimmune Cytopenias. Front Immunol. 2019 Aug 21;10:1897. doi: 10.3389/fimmu.2019.01897. eCollection 2019. PMID: 31497012

Deuse T, Hu X, Agbor-Enoh S, Koch M, Spitzer MH, Gravina A, Alawi M, Marishta A, Peters B, Kosaloglu-Yalcin Z, Yang Y, Rajalingam R, Wang D, Nashan B, Kiefmann R, Reichenspurner H, Valantine H, Weissman IL, Schrepfer S. De novo mutations in mitochondrial DNA of iPSCs produce immunogenic neoepitopes in mice and humans. Nat Biotechnol. 2019 Aug 19. doi: 10.1038/s41587-019-0227-7. PMID: 31427818

Karaca E, Posey JE, Bostwick B, Liu P, Gezdirici A, Yesil G, Coban Akdemir Z, Bayram Y, Harms FL, Meinecke P, Alawi M, Bacino CA, Sutton VR, Kortüm F, Lupski JR. Biallelic and De Novo Variants in DONSON Reveal a Clinical Spectrum of Cell Cycle-opathies with Microcephaly, Dwarfism and Skeletal Abnormalities. Am J Med Genet A. 2019 Aug 13. doi: 10.1002/ajmg.a.61315. PMID: 31407851

Schmidt T, Schmidt C, Strahl A, Mussawy H, Rolvien T, Jandl NM, Casar C, Oheim R, Schinke T, Lohse AW, Amling M, Schramm C, Barvencik F. A System to Determine Risk of Osteoporosis in Patients With Autoimmune Hepatitis. Clin Gastroenterol Hepatol. 2019 Jun 1. pii: S1542-3565(19)30593-2. doi: 10.1016/j.cgh.2019.05.043. PMID:31163277

Resa‐Infante, P. , Bonet, J. , Thiele, S. , Alawi, M. , Stanelle‐Bertram, S. , Tuku, B. , Beck, S. , Oliva, B. and Gabriel, G. Alternative interaction sites in the influenza A virus nucleoprotein mediate viral escape from the importin‐α7 mediated nuclear import pathway. FEBS J. 2019 May 1. doi:10.1111/febs.14868. PMID: 31044563

Hellwig M, Lauffer MC, Bockmayr M, Spohn M, Merk DJ, Harrison L, Ahlfeld J, Kitowski A, Neumann JE, Ohli J, Holdhof D, Niesen J, Schoof M, Kool M, Kraus C, Zweier C, Holmberg D, Schüller U. TCF4 (E2-2) harbors tumor suppressive functions in SHH medulloblastoma. Acta Neuropathol. 2019 Apr 1. doi: 10.1007/s00401-019-01982-5. PubMed PMID: 30830316

Renner S, Schüler H, Alawi M, Kolbe V, Rybczynski M, Woitschach R, Sheikhzadeh S, Stark VC, Olfe J, Roser E, Seggewies FS, Mahlmann A, Hempel M, Hartmann MJ, Hillebrand M, Wieczorek D, Volk AE, Kloth K, Koch-Hogrebe M, Abou Jamra R, Mitter D, Altmüller J, Wey-Fabrizius A, Petersen C, Rau I, Borck G, Kubisch C, Mir TS, von Kodolitsch Y, Kutsche K, Rosenberger G. Next-generation sequencing of 32 genes associated with hereditary aortopathies and related disorders of connective tissue in a cohort of 199 patients. Genet Med. 2019 Jan 24. doi: 10.1038/s41436-019-0435-z. PubMed PMID: 30675029

Seoane M, Buhs S, Iglesias P, Strauss J, Puller AC, Müller J, Gerull H, Feldhaus S, Alawi M, Brandner JM, Eggert D, Du J, Thomale J, Wild PJ, Zimmermann M, Sternsdorf T, Schumacher U, Nollau P, Fisher DE, Horstmann MA. Lineage-specific control of TFIIH by MITF determines transcriptional homeostasis and DNA repair. Oncogene. 2019 Jan 16. doi: 10.1038/s41388-018-0661-x. PubMed PMID: 30651597.

2018

Neelagandan N, Gonnella G, Dang S, Janiesch PC, Miller KK, Küchler K, Marques RF, Indenbirken D, Alawi M, Grundhoff A, Kurtz S, Duncan KE. TDP-43 enhances translation of specific mRNAs linked to neurodegenerative disease. Nucleic Acids Res. 2018 Oct 24. doi: 10.1093/nar/gky972. PubMed PMID: 30357366.

Guo L, Huang J, Chen M, Piotrowski E, Song N, Zahner G, Paust HJ, Alawi M, Geffers R, Thaiss F. T-lymphocyte-specific knockout of IKK-2 or NEMO induces Th17 cells in an experimental nephrotoxic nephritis mouse model. FASEB J. 2018 Oct 4:fj201800485RR. doi: 10.1096/fj.201800485RR. PubMed PMID: 30285578.

Harms FL, Nampoothiri S, Kortüm F, Thomas J, Panicker VV, Alawi M, Altmüller J, Yesodharan D, Kutsche K. Coinheritance of biallelic SLURP1 and SLC39A4 mutations cause a severe genodermatosis with skin peeling and hair loss all over the body. Br J Dermatol. 2018 Jun 27. doi: 10.1111/bjd.16912. PubMed PMID: 29947416.

Piard J, Essien Umanah GK, Harms FL, Abalde-Atristain L, Amram D, Chang M, Chen R, Alawi M, Salpietro V, Rees MI, Chung SK, Houlden H, Verloes A, Dawson TM, Dawson VL, Van Maldergem L, Kutsche K. Reply: ATAD1 encephalopathy and stiff baby syndrome: a recognizable clinical presentation. Brain. 2018 Apr 12. doi: 10.1093/brain/awy100. PubMed PMID: 29659731.

Kortüm F, Jamra RA, Alawi M, Berry SA, Borck G, Helbig KL, Tang S, Huhle D, Korenke GC, Hebbar M, Shukla A, Girisha KM, Steinlin M, Waldmeier-Wilhelm S, Montomoli M, Guerrini R, Lemke JR, Kutsche K. Clinical and genetic spectrum of AMPD2-related pontocerebellar hypoplasia type 9. Eur J Hum Genet. 2018 Feb 20. doi: 10.1038/s41431-018-0098-2. PubMed PMID: 29463858.

Harms FL, Alawi M, Amor DJ, Tan TY, Cuturilo G, Lissewski C, Brinkmann J, Schanze D, Kutsche K, Zenker M. The novel RAF1 mutation p.(Gly361Ala) located outside the kinase domain of the CR3 region in two patients with Noonan syndrome, including one with a rare brain tumor. Am J Med Genet A. 2018 Feb;176(2):470-476. doi: 10.1002/ajmg.a.38569. Epub 2017 Dec 22. PubMed PMID: 29271604.

Harms FL, Nampoothiri S, Anazi S, Yesodharan D, Alawi M, Kutsche K, Alkuraya FS. Elsahy-Waters syndrome is caused by biallelic mutations in CDH11. Am J Med Genet A. 2018 Feb;176(2):477-482. doi: 10.1002/ajmg.a.38568. Epub 2017 Dec 22. PubMed PMID: 29271567.

Piard J, Umanah GKE, Harms FL, Abalde-Atristain L, Amram D, Chang M, Chen R, Alawi M, Salpietro V, Rees MI, Chung SK, Houlden H, Verloes A, Dawson TM, Dawson VL, Van Maldergem L, Kutsche K. A homozygous ATAD1 mutation impairs postsynaptic AMPA receptor trafficking and causes a lethal encephalopathy. Brain. 2018 Jan 30. doi: 10.1093/brain/awx377. PubMed PMID: 29390050; PubMed Central PMCID: PMC5837721.

2017

Krohn-Molt I, Alawi M, Förstner KU, Wiegandt A, Burkhardt L, Indenbirken D, Thieß M, Grundhoff A, Kehr J, Tholey A, Streit WR. Insights into Microalga and Bacteria Interactions of Selected Phycosphere Biofilms Using Metagenomic, Transcriptomic, and Proteomic Approaches. Front Microbiol. 2017 Oct 10;8:1941. doi: 10.3389/fmicb.2017.01941. eCollection 2017. PubMed PMID: 29067007; PubMed Central PMCID: PMC5641341.

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. Long-term CD38 saturation by daratumumab interferes with diagnostic myeloma cell detection. Haematologica. 2017 Sep;102(9):e368-e370. doi: 10.3324/haematol.2017.169235. Epub 2017 May 18. PubMed PMID: 28522580; PubMed Central PMCID: PMC5685239.

Körbelin J, Hunger A, Alawi M, Sieber T, Binder M, Trepel M. Optimization of design and production strategies for novel adeno-associated viral display peptide libraries. Gene Ther. 2017 Aug;24(8):470-481. doi: 10.1038/gt.2017.51. Epub 2017 Jul 13. PubMed PMID: 28622288.

Günther T, Haas L, Alawi M, Wohlsein P, Marks J, Grundhoff A, Becher P, Fischer N. Recovery of the first full-length genome sequence of a parapoxvirus directly from a clinical sample. Sci Rep. 2017 Jun 16;7(1):3734. doi: 10.1038/s41598-017-03997-y. PubMed PMID: 28623312; PubMed Central PMCID: PMC5473882.

Oberle A, Brandt A, Voigtlaender M, Thiele B, Radloff J, Schulenkorf A, Alawi M, Akyüz N, März M, Ford CT, Krohn-Grimberghe A, Binder M. Monitoring multiple myeloma by next-generation sequencing of V(D)J rearrangements from circulating myeloma cells and cell-free myeloma DNA. Haematologica. 2017 Jun;102(6):1105-1111. doi: 10.3324/haematol.2016.161414. Epub 2017 Feb 9. PubMed PMID: 28183851; PubMed Central PMCID: PMC5451343.

Nagarajan S, Bedi U, Budida A, Hamdan FH, Mishra VK, Najafova Z, Xie W, Alawi M, Indenbirken D, Knapp S, Chiang CM, Grundhoff A, Kari V, Scheel CH, Wegwitz F, Johnsen SA. BRD4 promotes p63 and GRHL3 expression downstream of FOXO in mammary epithelial cells. Nucleic Acids Res. 2017 Apr 7;45(6):3130-3145. doi: 10.1093/nar/gkw1276. PubMed PMID: 27980063; PubMed Central PMCID: PMC5389510.

Engels G, Hierweger AM, Hoffmann J, Thieme R, Thiele S, Bertram S, Dreier C, Resa-Infante P, Jacobsen H, Thiele K, Alawi M, Indenbirken D, Grundhoff A, Siebels S, Fischer N, Stojanovska V, Muzzio D, Jensen F, Karimi K, Mittrücker HW, Arck PC, Gabriel G. Pregnancy-Related Immune Adaptation Promotes the Emergence of Highly Virulent H1N1 Influenza Virus Strains in Allogenically Pregnant Mice. Cell Host Microbe. 2017 Mar 8;21(3):321-333. doi: 10.1016/j.chom.2017.02.020. PubMed PMID: 28279344.

Coronado L, Liniger M, Muñoz-González S, Postel A, Pérez LJ, Pérez-Simó M, Perera CL, Frías-Lepoureau MT, Rosell R, Grundhoff A, Indenbirken D, Alawi M, Fischer N, Becher P, Ruggli N, Ganges L. Novel poly-uridine insertion in the 3’UTR and E2 amino acid substitutions in a low virulent classical swine fever virus. Vet Microbiol. 2017 Mar;201:103-112. doi: 10.1016/j.vetmic.2017.01.013. Epub 2017 Jan 17. PubMed PMID: 28284595.

Rossi A, Voigtlaender 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. Mutational landscape reflects the biological continuum of plasma cell dyscrasias. Blood Cancer J. 2017 Feb 24;7(2):e537. doi: 10.1038/bcj.2017.19. PubMed PMID: 28234344; PubMed Central PMCID: PMC5386334.

2016

Harms FL, Girisha KM, Hardigan AA, Kortüm F, Shukla A, Alawi M, Dalal A, Brady L, Tarnopolsky M, Bird LM, Ceulemans S, Bebin M, Bowling KM, Hiatt SM, Lose EJ, Primiano M, Chung WK, Juusola J, Akdemir ZC, Bainbridge M, Charng WL, Drummond-Borg M, Eldomery MK, El-Hattab AW, Saleh MAM, Bézieau S, Cogné B, Isidor B, Küry S, Lupski JR, Myers RM, Cooper GM, Kutsche K. Mutations in EBF3 Disturb Transcriptional Profiles and Cause Intellectual Disability, Ataxia, and Facial Dysmorphism. Am J Hum Genet. 2017 Jan 5;100(1):117-127. doi: 10.1016/j.ajhg.2016.11.012. Epub 2016 Dec 22. PubMed PMID: 28017373; PubMed Central PMCID: PMC5223027.

Kortüm F, Marquardt I, Alawi M, Korenke GC, Spranger S, Meinecke P, Kutsche K. Acute Liver Failure Meets SOPH Syndrome: A Case Report on an Intermediate Phenotype. Pediatrics. 2017 Jan;139(1). pii: e20160550. doi: 10.1542/peds.2016-0550. PubMed PMID: 28031453.

Shashi V, Pena LD, Kim K, Burton B, Hempel M, Schoch K, Walkiewicz M, McLaughlin HM, Cho M, Stong N, Hickey SE, Shuss CM; Undiagnosed Diseases Network, Freemark MS, Bellet JS, Keels MA, Bonner MJ, El-Dairi M, Butler M, Kranz PG, Stumpel CT, Klinkenberg S, Oberndorff K, Alawi M, Santer R, Petrovski S, Kuismin O, Korpi-Heikkilä S, Pietilainen O, Aarno P, Kurki MI, Hoischen A, Need AC, Goldstein DB, Kortüm F. De Novo Truncating Variants in ASXL2 Are Associated with a Unique and Recognizable Clinical Phenotype. Am J Hum Genet. 2016 Oct 6;99(4):991-999. doi: 10.1016/j.ajhg.2016.08.017. Epub 2016 Sep 29. Erratum in: Am J Hum Genet. 2017 Jan 5;100(1):179. PubMed PMID: 27693232; PubMed Central PMCID: PMC5065681.

Schaeffer CR, Hoang TN, Sudbeck CM, Alawi M, Tolo IE, Robinson DA, Horswill AR, Rohde H, Fey PD. Versatility of Biofilm Matrix Molecules in Staphylococcus epidermidis Clinical Isolates and Importance of Polysaccharide Intercellular Adhesin Expression during High Shear Stress. mSphere. 2016 Oct 5;1(5). pii: e00165-16. eCollection 2016 Sep-Oct. PubMed PMID: 27747298; PubMed Central PMCID: PMC5064449.

Fischer S, Cornils K, Speiseder T, Badbaran A, Reimer R, Indenbirken D, Grundhoff A, Brunswig-Spickenheier B, Alawi M, Lange C. Indication of Horizontal DNA Gene Transfer by Extracellular Vesicles. PLoS One. 2016 Sep 29;11(9):e0163665. doi: 10.1371/journal.pone.0163665. eCollection 2016. PubMed PMID: 27684368; PubMed Central PMCID: PMC5042424.

Pegivirus Infection in Domestic Pigs, Germany. Baechlein C, Grundhoff A, Fischer N, Alawi M, Hoeltig D, Waldmann KH, Becher P. Emerg Infect Dis. 2016 Jul;22(7):1312-4. doi: 10.3201/eid2207.160024. PMID: 27314228

Christopeit M, Badbaran A, Alawi M, Zabelina T, Zeck G, Wolschke C, Ayuk F, Kröger N. Correlation of somatic mutations with outcome after FLAMSA-busulfan sequential conditioning and allogeneic stem cell transplantation in patients with myelodysplastic syndromes. Eur J Haematol. 2016 Sep;97(3):288-96. doi: 10.1111/ejh.12724. Epub 2016 Feb 15. PubMed PMID: 26680262.

Girisha KM, Kortüm F, Shah H, Alawi M, Dalal A, Bhavani GS, Kutsche K. A novel multiple joint dislocation syndrome associated with a homozygous nonsense variant in the EXOC6B gene. Eur J Hum Genet. 2016 Aug;24(8):1206-10. doi: 10.1038/ejhg.2015.261. Epub 2015 Dec 16. PubMed PMID: 26669664; PubMed Central PMCID: PMC4970677.

Babayan A, Alawi M, Gormley M, Müller V, Wikman H, McMullin RP, Smirnov DA, Li W, Geffken M, Pantel K, Joosse SA. Comparative study of whole genome amplification and next generation sequencing performance of single cancer cells. Oncotarget. 2016 Jul 19;8(34):56066-56080. doi: 10.18632/oncotarget.10701. eCollection 2017 Aug 22. PubMed PMID: 28915574; PubMed Central PMCID: PMC5593545.

Vogel M, Velleuer E, Schmidt-Jiménez LF, Mayatepek E, Borkhardt A, Alawi M, Kutsche K, Kortüm F. Homozygous HOXB1 loss-of-function mutation in a large family with hereditary congenital facial paresis. Am J Med Genet A. 2016 Jul;170(7):1813-9. doi: 10.1002/ajmg.a.37682. Epub 2016 May 4. PubMed PMID: 27144914.

Stadt UZ, Escherich G, Indenbirken D, Alawi M, Adao M, Horstmann MA. Rapid Capture Next-Generation Sequencing in Clinical Diagnostics of Kinase Pathway Aberrations in B-Cell Precursor ALL. Pediatr Blood Cancer. 2016 Jul;63(7):1283-6. doi: 10.1002/pbc.25975. Epub 2016 Mar 23. PubMed PMID: 27007619.

Behrens K, Triviai I, Schwieger M, Tekin N, Alawi M, Spohn M, Indenbirken D, Ziegler M, Müller U, Alexander WS, Stocking C. Runx1 downregulates stem cell and megakaryocytic transcription programs that support niche interactions. Blood. 2016 Jun 30;127(26):3369-81. doi: 10.1182/blood-2015-09-668129. Epub 2016 Apr 13. PubMed PMID: 27076172.

Schieferdecker A, Oberle A, Thiele B, Hofmann F, Göthel M, Miethe S, Hust M, Braig F, Voigt M, von Pein UM, Koch-Nolte F, Haag F, Alawi M, Indenbirken D, Grundhoff A, Bokemeyer C, Bacher U, Kröger N, Binder M. A transplant “immunome” screening platform defines a targetable epitope fingerprint of multiple myeloma. Blood. 2016 Jun 23;127(25):3202-14. doi: 10.1182/blood-2015-10-676536. Epub 2016 Mar 31. PubMed PMID: 27034429.

Berneking L, Schnapp M, Rumm A, Trasak C, Ruckdeschel K, Alawi M, Grundhoff A, Kikhney AG, Koch-Nolte F, Buck F, Perbandt M, Betzel C, Svergun DI, Hentschke M, Aepfelbacher M. Immunosuppressive Yersinia Effector YopM Binds DEAD Box Helicase DDX3 to Control Ribosomal S6 Kinase in the Nucleus of Host Cells. PLoS Pathog. 2016 Jun 14;12(6):e1005660. doi: 10.1371/journal.ppat.1005660. eCollection 2016 Jun. PubMed PMID: 27300509; PubMed Central PMCID: PMC4907486.

Postel A, Hansmann F, Baechlein C, Fischer N, Alawi M, Grundhoff A, Derking S, Tenhündfeld J, Pfankuche VM, Herder V, Baumgärtner W, Wendt M, Becher P. Presence of atypical porcine pestivirus (APPV) genomes in newborn piglets correlates with congenital tremor. Sci Rep. 2016 Jun 13;6:27735. doi: 10.1038/srep27735. PubMed PMID: 27292119; PubMed Central PMCID: PMC4904412.

Güllert S, Fischer MA, Turaev D, Noebauer B, Ilmberger N, Wemheuer B, Alawi M, Rattei T, Daniel R, Schmitz RA, Grundhoff A, Streit WR. 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. Biotechnol Biofuels. 2016 Jun 7;9:121. doi: 10.1186/s13068-016-0534-x. eCollection 2016. PubMed PMID: 27279900; PubMed Central PMCID: PMC4897800.

Körbelin J, Sieber T, Michelfelder S, Lunding L, Spies E, Hunger A, Alawi M, Rapti K, Indenbirken D, Müller OJ, Pasqualini R, Arap W, Kleinschmidt JA, Trepel M. Pulmonary Targeting of Adeno-associated Viral Vectors by Next-generation Sequencing-guided Screening of Random Capsid Displayed Peptide Libraries. Mol Ther. 2016 Jun;24(6):1050-1061. doi: 10.1038/mt.2016.62. Epub 2016 Mar 28. PubMed PMID: 27018516; PubMed Central PMCID: PMC4923327.

Schommartz T, Loroch S, Alawi M, Grundhoff A, Sickmann A, Brune W. Functional Dissection of an Alternatively Spliced Herpesvirus Gene by Splice Site Mutagenesis. J Virol. 2016 Apr 14;90(9):4626-4636. doi: 10.1128/JVI.02987-15. Print 2016 May. PubMed PMID: 26912612; PubMed Central PMCID: PMC4836318.

Herglotz J, Unrau L, Hauschildt F, Fischer M, Kriebitzsch N, Alawi M, Indenbirken D, Spohn M, Müller U, Ziegler M, Schuh W, Jäck HM, Stocking C. Essential control of early B-cell development by Mef2 transcription factors. Blood. 2016 Feb 4;127(5):572-81. doi: 10.1182/blood-2015-04-643270. Epub 2015 Dec 10. PubMed PMID: 26660426.

2015

Lellek H, Franke GC, Ruckert C, Wolters M, Wolschke C, Christner M, Büttner H, Alawi M, Kröger N, Rohde H. Emergence of daptomycin non-susceptibility in colonizing vancomycin-resistant Enterococcus faecium isolates during daptomycin therapy. Int J Med Microbiol. 2015 Dec;305(8):902-9. doi: 10.1016/j.ijmm.2015.09.005. Epub 2015 Sep 12. PubMed PMID: 26454536.

Theiss JM, Günther T, Alawi M, Neumann F, Tessmer U, Fischer N, Grundhoff A. 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. PLoS Pathog. 2015 Jul 28;11(7):e1004974. doi: 10.1371/journal.ppat.1004974. eCollection 2015 Jul. PubMed PMID: 26218535; PubMed Central PMCID: PMC4517807.

Fischer N, Indenbirken D, Meyer T, Lütgehetmann M, Lellek H, Spohn M, Aepfelbacher M, Alawi M, Grundhoff A. Evaluation of Unbiased Next-Generation Sequencing of RNA (RNA-seq) as a Diagnostic Method in Influenza Virus-Positive Respiratory Samples. J Clin Microbiol. 2015 Jul;53(7):2238-50. doi: 10.1128/JCM.02495-14. Epub 2015 May 13. PubMed PMID: 25972420; PubMed Central PMCID: PMC4473199.

Baechlein C, Fischer N, Grundhoff A, Alawi M, Indenbirken D, Postel A, Baron AL, Offinger J, Becker K, Beineke A, Rehage J, Becher P. Identification of a Novel Hepacivirus in Domestic Cattle from Germany. J Virol. 2015 Jul;89(14):7007-15. doi: 10.1128/JVI.00534-15. Epub 2015 Apr 29. PubMed PMID: 25926652; PubMed Central PMCID: PMC4473572.

Kortüm F, Caputo V, Bauer CK, Stella L, Ciolfi A, Alawi M, Bocchinfuso G, Flex E, Paolacci S, Dentici ML, Grammatico P, Korenke GC, Leuzzi V, Mowat D, Nair LD, Nguyen TT, Thierry P, White SM, Dallapiccola B, Pizzuti A, Campeau PM, Tartaglia M, Kutsche K. Mutations in KCNH1 and ATP6V1B2 cause Zimmermann-Laband syndrome. Nat Genet. 2015 Jun;47(6):661-7. doi: 10.1038/ng.3282. Epub 2015 Apr 27. PubMed PMID: 25915598.

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. Epidermal growth factor receptor mutation mediates cross-resistance to panitumumab and cetuximab in gastrointestinal cancer. Oncotarget. 2015 May 20;6(14):12035-47. PubMed PMID: 26059438; PubMed Central PMCID: PMC4494921.

van Rahden VA, Fernandez-Vizarra E, Alawi M, Brand K, Fellmann F, Horn D, Zeviani M, Kutsche K. Mutations in NDUFB11, encoding a complex I component of the mitochondrial respiratory chain, cause microphthalmia with linear skin defects syndrome. Am J Hum Genet. 2015 Apr 2;96(4):640-50. doi: 10.1016/j.ajhg.2015.02.002. Epub 2015 Mar 12. PubMed PMID: 25772934; PubMed Central PMCID: PMC4385192.

Hirt MN, Werner T, Indenbirken D, Alawi M, Demin P, Kunze AC, Stenzig J, Starbatty J, Hansen A, Fiedler J, Thum T, Eschenhagen T. Deciphering the microRNA signature of pathological cardiac hypertrophy by engineered heart tissue- and sequencing-technology. J Mol Cell Cardiol. 2015 Apr;81:1-9. doi: 10.1016/j.yjmcc.2015.01.008. Epub 2015 Jan 26. PubMed PMID: 25633833.

2014

Abdollahpour H, Alawi M, Kortüm F, Beckstette M, Seemanova E, Komárek V, Rosenberger G, Kutsche K. An AP4B1 frameshift mutation in siblings with intellectual disability and spastic tetraplegia further delineates the AP-4 deficiency syndrome. Eur J Hum Genet. 2015 Feb;23(2):256-9. doi: 10.1038/ejhg.2014.73. Epub 2014 Apr 30. PubMed PMID: 24781758; PubMed Central PMCID: PMC4297901.

Deuse T, Wang D, Stubbendorff M, Itagaki R, Grabosch A, Greaves LC, Alawi M, Grünewald A, Hu X, Hua X, Velden J, Reichenspurner H, Robbins RC, Jaenisch R, Weissman IL, Schrepfer S. SCNT-derived ESCs with mismatched mitochondria trigger an immune response in allogeneic hosts. Cell Stem Cell. 2015 Jan 8;16(1):33-8. doi: 10.1016/j.stem.2014.11.003. Epub 2014 Nov 20. PubMed PMID: 25465116.

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 PB, Daniel R, Grundhoff A, Borchert MS, Streit WR. 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. PLoS One. 2014 Sep 10;9(9):e106707. doi: 10.1371/journal.pone.0106707. eCollection 2014. PubMed PMID: 25208077; PubMed Central PMCID: PMC4160196.

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 CM, Grundhoff A, Johnsen SA. Bromodomain protein BRD4 is required for estrogen receptor-dependent enhancer activation and gene transcription. Cell Rep. 2014 Jul 24;8(2):460-9. doi: 10.1016/j.celrep.2014.06.016. Epub 2014 Jul 10. PubMed PMID: 25017071; PubMed Central PMCID: PMC4747248.

Thiele B, Kloster M, Alawi M, Indenbirken D, Trepel M, Grundhoff A, Binder M. Next-generation sequencing of peripheral B-lineage cells pinpoints the circulating clonotypic cell pool in multiple myeloma. Blood. 2014 Jun 5;123(23):3618-21. doi: 10.1182/blood-2014-02-556746. Epub 2014 Apr 21. PubMed PMID: 24753536.

2013

Krohn-Molt I, Wemheuer B, Alawi M, Poehlein A, Güllert S, Schmeisser C, Pommerening-Röser A, Grundhoff A, Daniel R, Hanelt D, Streit WR. Metagenome survey of a multispecies and alga-associated biofilm revealed key elements of bacterial-algal interactions in photobioreactors. Appl Environ Microbiol. 2013 Oct;79(20):6196-206. doi: 10.1128/AEM.01641-13. Epub 2013 Aug 2. PubMed PMID: 23913425; PubMed Central PMCID: PMC3811195.

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. Runx1 is essential at two stages of early murine B-cell development. Blood. 2013 Jul 18;122(3):413-23. doi: 10.1182/blood-2013-01-480244. Epub 2013 May 23. PubMed PMID: 23704093.

2012

Werner S, Frey S, Riethdorf S, Schulze C, Alawi M, Kling L, Vafaizadeh V, Sauter G, Terracciano L, Schumacher U, Pantel K, Assmann V. Dual roles of the transcription factor grainyhead-like 2 (GRHL2) in breast cancer. J Biol Chem. 2013 Aug 9;288(32):22993-3008. doi: 10.1074/jbc.M113.456293. Epub 2013 Jun 29. PubMed PMID: 23814079; PubMed Central PMCID: PMC3743475.

2011

Alawi M, Kurtz S, Beckstette M. CASSys: an integrated software-system for the interactive analysis of ChIP-seq data. J Integr Bioinform. 2011 Jun 21;8(2):155. doi: 10.2390/biecoll-jib-2011-155. PubMed PMID: 21690655.