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Chemically defined and xenogeneic-free differentiation of human pluripotent stem cells into definitive endoderm in 3D culture.

Diekmann U, Wolling H, Dettmer R, Niwolik I, Naujok O, Buettner FFR.

Sci Rep. 2019 Jan 30;9(1):996. doi: 10.1038/s41598-018-37650-z.


RapidFire BLAZE-Mode Is Boosting ESI-MS Toward High-Throughput-Screening.

Bretschneider T, Ozbal C, Holstein M, Winter M, Buettner FH, Thamm S, Bischoff D, Luippold AH.

SLAS Technol. 2019 Jan 30:2472630318822449. doi: 10.1177/2472630318822449. [Epub ahead of print]


Ano-rectal wall dose-surface maps localize the dosimetric benefit of hydrogel rectum spacers in prostate cancer radiotherapy.

Vanneste BGL, Buettner F, Pinkawa M, Lambin P, Hoffmann AL.

Clin Transl Radiat Oncol. 2018 Nov 3;14:17-24. doi: 10.1016/j.ctro.2018.10.006. eCollection 2019 Jan.


Metabolic regulation of pluripotency and germ cell fate through α-ketoglutarate.

Tischler J, Gruhn WH, Reid J, Allgeyer E, Buettner F, Marr C, Theis F, Simons BD, Wernisch L, Surani MA.

EMBO J. 2019 Jan 3;38(1). pii: e99518. doi: 10.15252/embj.201899518. Epub 2018 Sep 26.


Sensitized genetic backgrounds reveal differential roles for EGF repeat xylosyltransferases in Drosophila Notch signaling.

Pandey A, Li-Kroeger D, Sethi MK, Lee TV, Buettner FF, Bakker H, Jafar-Nejad H.

Glycobiology. 2018 Nov 1;28(11):849-859. doi: 10.1093/glycob/cwy080.


A patient-specific induced pluripotent stem cell model for West syndrome caused by ST3GAL3 deficiency.

van Diepen L, Buettner FFR, Hoffmann D, Thiesler CT, von Bohlen Und Halbach O, von Bohlen Und Halbach V, Jensen LR, Steinemann D, Edvardson S, Elpeleg O, Schambach A, Gerardy-Schahn R, Kuss AW.

Eur J Hum Genet. 2018 Dec;26(12):1773-1783. doi: 10.1038/s41431-018-0220-5. Epub 2018 Aug 8.


Multi-Omics Factor Analysis-a framework for unsupervised integration of multi-omics data sets.

Argelaguet R, Velten B, Arnol D, Dietrich S, Zenz T, Marioni JC, Buettner F, Huber W, Stegle O.

Mol Syst Biol. 2018 Jun 20;14(6):e8124. doi: 10.15252/msb.20178124.


Quantitative Secretomics Reveals Extrinsic Signals Involved in Human Pluripotent Stem Cell Cardiomyogenesis.

Wolling H, Konze SA, Höfer A, Erdmann J, Pich A, Zweigerdt R, Buettner FFR.

Proteomics. 2018 Jul;18(14):e1800102. doi: 10.1002/pmic.201800102. Epub 2018 Jun 27.


A single-step transconjugation system for gene deletion in Aggregatibacter actinomycetemcomitans.

Stumpp NS, Konze SA, Gerardy-Schahn R, Stiesch M, Buettner FFR.

J Microbiol Methods. 2018 May;148:74-77. doi: 10.1016/j.mimet.2018.04.002. Epub 2018 Apr 5.


Design and Selection of Machine Learning Methods Using Radiomics and Dosiomics for Normal Tissue Complication Probability Modeling of Xerostomia.

Gabryś HS, Buettner F, Sterzing F, Hauswald H, Bangert M.

Front Oncol. 2018 Mar 5;8:35. doi: 10.3389/fonc.2018.00035. eCollection 2018.


Apicomplexan C-Mannosyltransferases Modify Thrombospondin Type I-containing Adhesins of the TRAP Family.

Hoppe CM, Albuquerque-Wendt A, Bandini G, Leon DR, Shcherbakova A, Buettner FFR, Izquierdo L, Costello CE, Bakker H, Routier FH.

Glycobiology. 2018 May 1;28(5):333-343. doi: 10.1093/glycob/cwy013.


Quantitative examination of isometric tongue protrusion forces in children with oro-facial dysfunctions or myofunctional disorders.

Rohrbach S, Buettner F, Pollex D, Mathmann P, Weinhold L, Schubert R, Reilmann R.

J Oral Rehabil. 2018 Mar;45(3):228-234. doi: 10.1111/joor.12598. Epub 2018 Jan 18.


f-scLVM: scalable and versatile factor analysis for single-cell RNA-seq.

Buettner F, Pratanwanich N, McCarthy DJ, Marioni JC, Stegle O.

Genome Biol. 2017 Nov 7;18(1):212. doi: 10.1186/s13059-017-1334-8.


Quantitative Assessment of Sialo-Glycoproteins and N-Glycans during Cardiomyogenic Differentiation of Human Induced Pluripotent Stem Cells.

Konze SA, Cajic S, Oberbeck A, Hennig R, Pich A, Rapp E, Buettner FFR.

Chembiochem. 2017 Jul 4;18(13):1317-1331. doi: 10.1002/cbic.201700100. Epub 2017 Jun 13.


Parotid gland mean dose as a xerostomia predictor in low-dose domains.

Gabryś HS, Buettner F, Sterzing F, Hauswald H, Bangert M.

Acta Oncol. 2017 Sep;56(9):1197-1203. doi: 10.1080/0284186X.2017.1324209. Epub 2017 May 13.


Vitamin A-Retinoic Acid Signaling Regulates Hematopoietic Stem Cell Dormancy.

Cabezas-Wallscheid N, Buettner F, Sommerkamp P, Klimmeck D, Ladel L, Thalheimer FB, Pastor-Flores D, Roma LP, Renders S, Zeisberger P, Przybylla A, Schönberger K, Scognamiglio R, Altamura S, Florian CM, Fawaz M, Vonficht D, Tesio M, Collier P, Pavlinic D, Geiger H, Schroeder T, Benes V, Dick TP, Rieger MA, Stegle O, Trumpp A.

Cell. 2017 May 18;169(5):807-823.e19. doi: 10.1016/j.cell.2017.04.018. Epub 2017 May 4.


An oral multispecies biofilm model for high content screening applications.

Kommerein N, Stumpp SN, Müsken M, Ehlert N, Winkel A, Häussler S, Behrens P, Buettner FF, Stiesch M.

PLoS One. 2017 Mar 15;12(3):e0173973. doi: 10.1371/journal.pone.0173973. eCollection 2017.


A divergent population of autoantigen-responsive CD4+ T cells in infants prior to β cell autoimmunity.

Heninger AK, Eugster A, Kuehn D, Buettner F, Kuhn M, Lindner A, Dietz S, Jergens S, Wilhelm C, Beyerlein A, Ziegler AG, Bonifacio E.

Sci Transl Med. 2017 Feb 22;9(378). pii: eaaf8848. doi: 10.1126/scitranslmed.aaf8848.


Prospective identification of hematopoietic lineage choice by deep learning.

Buggenthin F, Buettner F, Hoppe PS, Endele M, Kroiss M, Strasser M, Schwarzfischer M, Loeffler D, Kokkaliaris KD, Hilsenbeck O, Schroeder T, Theis FJ, Marr C.

Nat Methods. 2017 Apr;14(4):403-406. doi: 10.1038/nmeth.4182. Epub 2017 Feb 20.


Distinct C-mannosylation of netrin receptor thrombospondin type 1 repeats by mammalian DPY19L1 and DPY19L3.

Shcherbakova A, Tiemann B, Buettner FF, Bakker H.

Proc Natl Acad Sci U S A. 2017 Mar 7;114(10):2574-2579. doi: 10.1073/pnas.1613165114. Epub 2017 Feb 15.


cgCorrect: a method to correct for confounding cell-cell variation due to cell growth in single-cell transcriptomics.

Blasi T, Buettner F, Strasser MK, Marr C, Theis FJ.

Phys Biol. 2017 May 11;14(3):036001. doi: 10.1088/1478-3975/aa609a.


Proteomic Analysis of Human Pluripotent Stem Cell Cardiomyogenesis Revealed Altered Expression of Metabolic Enzymes and PDLIM5 Isoforms.

Konze SA, Werneburg S, Oberbeck A, Olmer R, Kempf H, Jara-Avaca M, Pich A, Zweigerdt R, Buettner FF.

J Proteome Res. 2017 Mar 3;16(3):1133-1149. doi: 10.1021/acs.jproteome.6b00534. Epub 2017 Feb 14.


Antibody formation towards porcine tissue in patients implanted with crosslinked heart valves is directed to antigenic tissue proteins and αGal epitopes and is reduced in healthy vegetarian subjects.

Böer U, Buettner FFR, Schridde A, Klingenberg M, Sarikouch S, Haverich A, Wilhelmi M.

Xenotransplantation. 2017 Mar;24(2). doi: 10.1111/xen.12288. Epub 2017 Jan 18.


Bulk cell density and Wnt/TGFbeta signalling regulate mesendodermal patterning of human pluripotent stem cells.

Kempf H, Olmer R, Haase A, Franke A, Bolesani E, Schwanke K, Robles-Diaz D, Coffee M, Göhring G, Dräger G, Pötz O, Joos T, Martinez-Hackert E, Haverich A, Buettner FF, Martin U, Zweigerdt R.

Nat Commun. 2016 Dec 9;7:13602. doi: 10.1038/ncomms13602.


Diffusion pseudotime robustly reconstructs lineage branching.

Haghverdi L, Büttner M, Wolf FA, Buettner F, Theis FJ.

Nat Methods. 2016 Oct;13(10):845-8. doi: 10.1038/nmeth.3971. Epub 2016 Aug 29.


Polysialylation and lipopolysaccharide-induced shedding of E-selectin ligand-1 and neuropilin-2 by microglia and THP-1 macrophages.

Werneburg S, Buettner FF, Erben L, Mathews M, Neumann H, Mühlenhoff M, Hildebrandt H.

Glia. 2016 Aug;64(8):1314-30. doi: 10.1002/glia.23004. Epub 2016 May 9.


Localisation and protein-protein interactions of the Helicobacter pylori taxis sensor TlpD and their connection to metabolic functions.

Behrens W, Schweinitzer T, McMurry JL, Loewen PC, Buettner FF, Menz S, Josenhans C.

Sci Rep. 2016 Apr 5;6:23582. doi: 10.1038/srep23582.


Unbiased Prediction and Feature Selection in High-Dimensional Survival Regression.

Laimighofer M, Krumsiek J, Buettner F, Theis FJ.

J Comput Biol. 2016 Apr;23(4):279-90. doi: 10.1089/cmb.2015.0192. Epub 2016 Feb 19.


Glycomic Characterization of Induced Pluripotent Stem Cells Derived from a Patient Suffering from Phosphomannomutase 2 Congenital Disorder of Glycosylation (PMM2-CDG).

Thiesler CT, Cajic S, Hoffmann D, Thiel C, van Diepen L, Hennig R, Sgodda M, Weiβmann R, Reichl U, Steinemann D, Diekmann U, Huber NM, Oberbeck A, Cantz T, Kuss AW, Körner C, Schambach A, Rapp E, Buettner FF.

Mol Cell Proteomics. 2016 Apr;15(4):1435-52. doi: 10.1074/mcp.M115.054122. Epub 2016 Jan 19.


Correction: Depletion of UDP-Glucose and UDP-Galactose Using a Degron System Leads to Growth Cessation of Leishmania major.

Damerow S, Hoppe C, Bandini G, Zarnovican P, Buettner FF, Lüder CG, Ferguson MA, Routier FH.

PLoS Negl Trop Dis. 2016 Jan 6;10(1):e0004372. doi: 10.1371/journal.pntd.0004372. eCollection 2016 Jan.


destiny: diffusion maps for large-scale single-cell data in R.

Angerer P, Haghverdi L, Büttner M, Theis FJ, Marr C, Buettner F.

Bioinformatics. 2016 Apr 15;32(8):1241-3. doi: 10.1093/bioinformatics/btv715. Epub 2015 Dec 14.


Depletion of UDP-Glucose and UDP-Galactose Using a Degron System Leads to Growth Cessation of Leishmania major.

Damerow S, Hoppe C, Bandini G, Zarnovican P, Buettner FF, Lüder CG, Ferguson MA, Routier FH.

PLoS Negl Trop Dis. 2015 Nov 3;9(11):e0004205. doi: 10.1371/journal.pntd.0004205. eCollection 2015 Nov. Erratum in: PLoS Negl Trop Dis. 2016 Jan;10(1):e0004372. Buettner, Falk R [corrected to Buettner, Falk F R].


Single-cell transcriptomic reconstruction reveals cell cycle and multi-lineage differentiation defects in Bcl11a-deficient hematopoietic stem cells.

Tsang JC, Yu Y, Burke S, Buettner F, Wang C, Kolodziejczyk AA, Teichmann SA, Lu L, Liu P.

Genome Biol. 2015 Sep 21;16:178. doi: 10.1186/s13059-015-0739-5.


Aspergillus fumigatus Cap59-like protein A is involved in α1,3-mannosylation of GPI-anchors.

Krüger AT, Engel J, Buettner FF, Routier FH.

Glycobiology. 2016 Jan;26(1):30-8. doi: 10.1093/glycob/cwv078. Epub 2015 Sep 14.


Exclusive Decoration of Simian Immunodeficiency Virus Env with High-Mannose Type N-Glycans Is Not Compatible with Mucosal Transmission in Rhesus Macaques.

Karsten CB, Buettner FF, Cajic S, Nehlmeier I, Neumann B, Klippert A, Sauermann U, Reichl U, Gerardy-Schahn R, Rapp E, Stahl-Hennig C, Pöhlmann S.

J Virol. 2015 Nov;89(22):11727-33. doi: 10.1128/JVI.01358-15. Epub 2015 Sep 9.


Characterization of an N-acetylglucosaminyltransferase involved in Aspergillus fumigatus zwitterionic glycoinositolphosphoceramide biosynthesis.

Engel J, Schmalhorst PS, Krüger AT, Müller CT, Buettner FF, Routier FH.

Glycobiology. 2015 Dec;25(12):1423-30. doi: 10.1093/glycob/cwv059. Epub 2015 Aug 24.


Leishmania major UDP-sugar pyrophosphorylase salvages galactose for glycoconjugate biosynthesis.

Damerow S, Hoppe C, Bandini G, Zarnovican P, Buettner FF, Ferguson MA, Routier FH.

Int J Parasitol. 2015 Oct;45(12):783-90. doi: 10.1016/j.ijpara.2015.06.004. Epub 2015 Jul 26.


9-O-Acetylation of sialic acids is catalysed by CASD1 via a covalent acetyl-enzyme intermediate.

Baumann AM, Bakkers MJ, Buettner FF, Hartmann M, Grove M, Langereis MA, de Groot RJ, Mühlenhoff M.

Nat Commun. 2015 Jul 14;6:7673. doi: 10.1038/ncomms8673.


Computational assignment of cell-cycle stage from single-cell transcriptome data.

Scialdone A, Natarajan KN, Saraiva LR, Proserpio V, Teichmann SA, Stegle O, Marioni JC, Buettner F.

Methods. 2015 Sep 1;85:54-61. doi: 10.1016/j.ymeth.2015.06.021. Epub 2015 Jul 2.


Combined Single-Cell Functional and Gene Expression Analysis Resolves Heterogeneity within Stem Cell Populations.

Wilson NK, Kent DG, Buettner F, Shehata M, Macaulay IC, Calero-Nieto FJ, Sánchez Castillo M, Oedekoven CA, Diamanti E, Schulte R, Ponting CP, Voet T, Caldas C, Stingl J, Green AR, Theis FJ, Göttgens B.

Cell Stem Cell. 2015 Jun 4;16(6):712-24. doi: 10.1016/j.stem.2015.04.004. Epub 2015 May 21.


Diffusion maps for high-dimensional single-cell analysis of differentiation data.

Haghverdi L, Buettner F, Theis FJ.

Bioinformatics. 2015 Sep 15;31(18):2989-98. doi: 10.1093/bioinformatics/btv325. Epub 2015 May 21.


Effects of high-dose oral insulin on immune responses in children at high risk for type 1 diabetes: the Pre-POINT randomized clinical trial.

Bonifacio E, Ziegler AG, Klingensmith G, Schober E, Bingley PJ, Rottenkolber M, Theil A, Eugster A, Puff R, Peplow C, Buettner F, Lange K, Hasford J, Achenbach P; Pre-POINT Study Group.

JAMA. 2015 Apr 21;313(15):1541-9. doi: 10.1001/jama.2015.2928.


Polysialic acid modification of the synaptic cell adhesion molecule SynCAM 1 in human embryonic stem cell-derived oligodendrocyte precursor cells.

Werneburg S, Buettner FF, Mühlenhoff M, Hildebrandt H.

Stem Cell Res. 2015 May;14(3):339-46. doi: 10.1016/j.scr.2015.03.001. Epub 2015 Mar 21.


Decoding the regulatory network of early blood development from single-cell gene expression measurements.

Moignard V, Woodhouse S, Haghverdi L, Lilly AJ, Tanaka Y, Wilkinson AC, Buettner F, Macaulay IC, Jawaid W, Diamanti E, Nishikawa SI, Piterman N, Kouskoff V, Theis FJ, Fisher J, Göttgens B.

Nat Biotechnol. 2015 Mar;33(3):269-276. doi: 10.1038/nbt.3154. Epub 2015 Feb 9.


Computational analysis of cell-to-cell heterogeneity in single-cell RNA-sequencing data reveals hidden subpopulations of cells.

Buettner F, Natarajan KN, Casale FP, Proserpio V, Scialdone A, Theis FJ, Teichmann SA, Marioni JC, Stegle O.

Nat Biotechnol. 2015 Feb;33(2):155-60. doi: 10.1038/nbt.3102. Epub 2015 Jan 19.


Erratum to: Feature ranking of type 1 diabetes susceptibility genes improves prediction of type 1 diabetes.

Winkler C, Krumsiek J, Buettner F, Angermüller C, Giannopoulou EZ, Theis FJ, Ziegler AG, Bonifacio E.

Diabetologia. 2015 Jan;58(1):206. doi: 10.1007/s00125-014-3435-1. No abstract available.


RAMONA: a Web application for gene set analysis on multilevel omics data.

Sass S, Buettner F, Mueller NS, Theis FJ.

Bioinformatics. 2015 Jan 1;31(1):128-30. doi: 10.1093/bioinformatics/btu610. Epub 2014 Sep 18.


Molecular phenotypic profiling of a Saccharomyces cerevisiae strain at the single-cell level.

Schmidt AM, Fagerer SR, Jefimovs K, Buettner F, Marro C, Siringil EC, Boehlen KL, Pabst M, Ibáñez AJ.

Analyst. 2014 Nov 21;139(22):5709-17. doi: 10.1039/c4an01119h.


Feature ranking of type 1 diabetes susceptibility genes improves prediction of type 1 diabetes.

Winkler C, Krumsiek J, Buettner F, Angermüller C, Giannopoulou EZ, Theis FJ, Ziegler AG, Bonifacio E.

Diabetologia. 2014 Dec;57(12):2521-9. doi: 10.1007/s00125-014-3362-1. Epub 2014 Sep 4. Erratum in: Diabetologia. 2015 Jan;58(1):206.


Immunogenicity of intensively decellularized equine carotid arteries is conferred by the extracellular matrix protein collagen type VI.

Boeer U, Buettner FF, Klingenberg M, Antonopoulos GC, Meyer H, Haverich A, Wilhelmi M.

PLoS One. 2014 Aug 26;9(8):e105964. doi: 10.1371/journal.pone.0105964. eCollection 2014.

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