2019

Bluhm A, Viceconte N, Li F, Rane G, Ritz S, Wang S, Levin M, Shi Y, Kappei D# and Butter F#. (2019). ZBTB10 binds the telomeric variant repeat TTGGGG and interacts with TRF2. Nucleic Acids Res, gky1289; doi: 10.1093/nar/gky1289. (#indicates joint correspondence) Link

Goos C, Dejung M, Wehman AM, M-Natus E, Schmidt J, Sunter J, Engstler M, Butter F# and Kramer S#. (2019). Trypanosomes can initiate nuclear export co-transcriptionally. Nucleic Acids Res, 47: 266–282. (#indicates joint correspondence) Link

Wohlfahrt T, Rauber S, Uebe S, Luber M, Soare A, Ekici A, Weber S, Matei AE, Chen CW, Maier C, Karouzakis E, Kiener HP, Pachera E, Dees C, Beyer C, Daniel C, Gelse K, Kremer AE, Naschberger E, Stürzl M, Butter F, Sticherling M, Finotto S, Kreuter A, Kaplan MH, Jüngel A, Gay S, Nutt SL, Boykin DW, Poon GMK, Distler O, Schett G, Distler JHW and Ramming A. (2019). PU.1 controls fibroblast polarization and tissue fibrosis. Nature, doi: 10.1038/s41586-019-0896-x. Link

2018

Almeida MV, Dietz S, Redl S, Karaulanov E, Hildebrandt A, Renz C, Ulrich HD, König J, Butter F and Ketting RF. (2018). GTSF‐1 is required for formation of a functional RNA‐dependent RNA Polymerase complex in Caenorhabditis elegans. EMBO J, 37: e99325. Link

Baldi S, Jain DS, Harpprecht L, Zabel A, Scheibe M, Butter F, Straub T and Becker PB. (2018). Genome-wide rules of nucleosome phasing in Drosophila. Mol Cell, 72: 661–672.e4. Link

Becker K, Bluhm A*, Casas-Vila N*, Dinges N*, Dejung M, Sayols S, Kreutz C, Roignant JY, Butter F# and Legewie S#. (2018). Quantifying post-transcriptional regulation in the development of Drosophila melanogaster. Nat Commun, 9: 4970. (*indicates joint contribution, #indicates joint correspondence) Link

Charbonnel C, Rymarenko O, Da Ines O, Benyahya F, White CI, Butter F and Amiard S. (2018). The linker histone GH1-HMGA1 is involved in telomere stability and DNA damage repair. Plant Physiol, 177: 311–327. Link

Dal Magro C, Keller P, Kotter A, Werner S, Duarte V, Marchand V, Ignarski M, Freiwald A, Müller RU, Dieterich C, Motorin Y, Butter F, Atta M and Helm M. (2018). A vastly increased chemical variety of RNA modifications containing a thioacetal structure. Angew Chemie Int Ed, 57: 7893–7897. Link

Harris CJ*, Scheibe M*, Wongpalee SP, Liu W, Cornett EM, Vaughan RM, Li X, Chen W, Xue Y, Zhong Z, Yen L, Barshop WD, Rayatpisheh S, Gallego-Bartolome J, Groth M, Wohlschlegel JA,  Du J, Rothbart SB, Butter F# and Jacobsen SE#. (2018). A DNA methylation reader complex that enhances gene transcription. Science, 362: 1182–1186. (*indicates joint contribution, #indicates joint correspondence) Link

Kiweler N, Brill B, Wirth M, Breuksch I, Laguna T, Dietrich C, Strand S, Schneider G, Groner B, Butter F, Heinzel T, Brenner W and Krämer OH. (2018). The histone deacetylases HDAC1 and HDAC2 are required for the growth and survival of renal carcinoma cells. Arch Toxicol, 92: 2227–2243. Link

Pons M, Reichardt CM, Hennig D, Nathan A, Kiweler N, Stocking C, Wichmann C, Christmann M, Butter F, Reichardt S, Schneider G, Heinzel T, Englert C, Hartkamp J, Krämer OH and Mahendrarajah N. (2018). Loss of Wilms tumor 1 protein is a marker for apoptosis in response to replicative stress in leukemic cells. Arch Toxicol, 92: 2119–2135. Link

Reis H, Schwebs M, Dietz S, Janzen CJ and Butter F. (2018). TelAP1 links telomere complexes with developmental expression site silencing in African trypanosomes. Nucleic Acids Res, 46: 2820–2833. Link

Roovers EF, Kaaij LJT, Redl S, Bronkhorst AW, Wiebrands K, de Jesus Domingues AM, Huang HY, Han CT, Riemer S, Dosch R, Salvenmoser W, Grün D, Butter F, van Oudenaarden A and Ketting RF. (2018). Tdrd6a regulates the aggregation of Buc into functional subcellular compartments that drive germ cell specification. Dev Cell, 46: 285–301.e9. Link

Winzi M, Casas Vila N, Paszkowski-Rogacz M, Ding L, Noack S, Theis M, Butter F and Buchholz F. (2018). The long noncoding RNA lncR492 inhibits neural differentiation of murine embryonic stem cells. PLoS One, 13: e0191682. Link

2017

Casas-Vila N*, Bluhm A*, Sayols S*, Dinges N, Dejung M, Altenhein T, Kappei D, Altenhein B, Roignant JY and Butter F. (2017). The developmental proteome of Drosophila melanogaster. Genome Res, 27: 1273–1285. (*indicates joint contribution) Link

Despic V, Dejung M, Butter F and Neugebauer KM. (2017). Analysis of RNA-protein interactions in vertebrate embryos using UV crosslinking approaches. Methods, 126: 44–53. Link

Despic V, Dejung M, Gu M, Krishnan J, Zhang J, Herzel L, Straube K, Gerstein MB, Butter F and Neugebauer KM. (2017). Dynamic RNA-protein interactions underlie the zebrafish maternal-to-zygotic transition. Genome Res, 27: 1184–1194. Link

Goos C, Dejung M, Janzen CJ, Butter F and Kramer S. (2017). The nuclear proteome of Trypanosoma brucei. PLoS One, 12: e0181884. Link

Jahn A*, Rane G*, Paszkowski‐Rogacz M, Sayols S, Bluhm A, Han CT, Draškovič I, Londoño‐Vallejo JA, Kumar AP, Buchholz F#, Butter F# and Kappei D#. (2017). ZBTB48 is both a vertebrate telomere‐binding protein and a transcriptional activator. EMBO Rep, 18: 929–946. (*indicates joint contribution, #indicates joint correspondence) Link

Kappei D*, Scheibe M*, Paszkowski-Rogacz M, Bluhm A, Gossmann TI, Dietz S, Dejung M, Herlyn H, Buchholz F#, Mann M# and Butter F#. (2017). Phylointeractomics reconstructs functional evolution of protein binding. Nat Commun, 8: 14334. (*indicates joint contribution, #indicates joint correspondence) Link

Lebedeva S, de Jesus Domingues AM, Butter F and Ketting RF. (2017). Characterization of genetic loss-of-function of Fus in zebrafish. RNA Biol, 14: 29–35. Link

Oswald F, Klöble P, Ruland A, Rosenkranz D, Hinz B, Butter F, Ramljak S, Zechner U and Herlyn H. (2017). The FOXP2-driven network in developmental disorders and neurodegeneration. Front Cell Neurosci, 11: 212. Link

2016

Bluhm A, Casas-Vila N, Scheibe M and Butter F. (2016). Reader interactome of epigenetic histone marks in birds. Proteomics, 16: 427–436. Link

Cicova Z, Dejung M, Skalicky T, Eisenhuth N, Hanselmann S, Morriswood B, Figueiredo LM, Butter F# and Janzen CJ#. (2016). Two flagellar BAR domain proteins in Trypanosoma brucei with stage-specific regulation. Sci Rep, 6: 35826. (#indicates joint correspondence) Link

Dejung M, Subota I, Bucerius F, Dindar G, Freiwald A, Engstler M, Boshart M, Butter F# and Janzen CJ#. (2016). Quantitative proteomics uncovers novel factors involved in developmental differentiation of Trypanosoma brucei. PLOS Pathog, 12: e1005439. (#indicates joint correspondence) Link

Klassen R, Ciftci A, Funk J, Bruch A, Butter F and Schaffrath R. (2016). tRNA anticodon loop modifications ensure protein homeostasis and cell morphogenesis in yeast. Nucleic Acids Res, 44: 10946–10959. Link

2015

Casas-Vila N, Scheibe M, Freiwald A, Kappei D and Butter F. (2015). Identification of TTAGGG-binding proteins in Neurospora crassa, a fungus with vertebrate-like telomere repeats. BMC Genomics, 16: 965. Link

Roovers EF, Rosenkranz D, Mahdipour M, Han CT, He N, Chuva de Sousa Lopes SM, van der Westerlaken LAJ, Zischler H, Butter F, Roelen BAJ and Ketting RF. (2015). Piwi proteins and piRNAs in mammalian oocytes and early embryos. Cell Rep, 10: 2069–2082. Link

2014

Ericson M, Janes MA, Butter F, Mann M, Ullu E and Tschudi C. (2014). On the extent and role of the small proteome in the parasitic eukaryote Trypanosoma brucei. BMC Biol, 12: 14. Link

Hornburg D, Drepper C, Butter F, Meissner F, Sendtner M and Mann M. (2014). Deep proteomic evaluation of primary and cell line motoneuron disease models delineates major differences in neuronal characteristics. Mol Cell Proteomics, 13: 3410–3420. Link

Machyna M, Kehr S, Straube K, Kappei D, Buchholz F, Butter F, Ule J, Hertel J, Stadler PF and Neugebauer KM. (2014). The coilin interactome identifies hundreds of small noncoding RNAs that traffic through cajal bodies. Mol Cell, 56: 389–399. Link

Sharma NL, Massie CE, Butter F, Mann M, Bon H, Ramos-Montoya A, Menon S, Stark R, Lamb AD, Scott HE, Warren AY, Neal DE and Mills IG. (2014). The ETS family member GABPα modulates androgen receptor signalling and mediates an aggressive phenotype in prostate cancer. Nucleic Acids Res, 42: 6256–6269. Link

2013

Butter F, Bucerius F, Michel M, Cicova Z, Mann M and Janzen CJ. (2013). Comparative proteomics of two life cycle stages of stable isotope-labeled Trypanosoma brucei reveals novel components of the parasite’s host adaptation machinery. Mol Cell Proteomics, 12: 172–179. Link

Kappei D*, Butter F*, Benda C, Scheibe M, Draškovič I, Stevense M, Novo CL, Basquin C, Araki M, Araki K, Krastev DB, Kittler R, Jessberger R, Londoño-Vallejo JA, Mann M and Buchholz F. (2013). HOT1 is a mammalian direct telomere repeat-binding protein contributing to telomerase recruitment. EMBO J, 32: 1681–1701. (*indicates joint contribution) Link

Klass DM, Scheibe M, Butter F, Hogan GJ, Mann M and Brown PO. (2013). Quantitative proteomic analysis reveals concurrent RNA-protein interactions and identifies new RNA-binding proteins in Saccharomyces cerevisiae. Genome Res, 23: 1028–1038. Link

Powers NR, Eicher JD, Butter F, Kong Y, Miller LL, Ring SM, Mann M and Gruen JR. (2013). Alleles of a polymorphic ETV6 binding site in DCDC2 confer risk of reading and language impairment. Am J Hum Genet, 93: 19–28. Link

Scheibe M, Arnoult N, Kappei D, Buchholz F, Decottignies A, Butter F# and Mann M#. (2013). Quantitative interaction screen of telomeric repeatcontaining RNA reveals novel TERRA regulators. Genome Res, 23: 2149–2157. (#indicates joint correspondence) Link

Viturawong T, Meissner F, Butter F# and Mann M#. (2013). A DNA-centric protein interaction map of ultraconserved elements reveals contribution of transcription factor binding hubs to conservation. Cell Rep, 5: 531–545. (#indicates joint correspondence) Link

2012

Butter F, Davison L, Viturawong T, Scheibe M, Vermeulen M, Todd JA and Mann M. (2012). Proteome-wide analysis of disease-associated SNPs that show allele-specific transcription factor binding. PLoS Genet, 8: e1002982. Link

Gregory AP, Dendrou CA, Attfield KE, Haghikia A, Xifara DK, Butter F, Poschmann G, Kaur G, Lambert L, Leach OA, Prömel S, Punwani D, Felce JH, Davis SJ, Gold R, Nielsen FC, Siegel RM, Mann M, Bell JI, McVean G and Fugger L. (2012). TNF receptor 1 genetic risk mirrors outcome of anti-TNF therapy in multiple sclerosis. Nature, 488: 508–511. Link

Scheibe M, Butter F, Hafner M, Tuschl T and Mann M. (2012). Quantitative mass spectrometry and PAR-CLIP to identify RNA-protein interactions. Nucleic Acids Res, 40: 9897–9902. Link

2010

Butter F, Kappei D, Buchholz F, Vermeulen M and Mann M. (2010). A domesticated transposon mediates the effects of a single-nucleotide polymorphism responsible for enhanced muscle growth. EMBO Rep, 11: 305–311. Link

Vermeulen M, Eberl HC, Matarese F, Marks H, Denissov S, Butter F, Lee KK, Olsen JV., Hyman AA, Stunnenberg HG and Mann M. (2010). Quantitative interaction proteomics and genome-wide profiling of epigenetic histone marks and their readers. Cell, 142: 967–980. Link

2009

Butter F, Scheibe M, Mörl M and Mann M. (2009). Unbiased RNA-protein interaction screen by quantitative proteomics. Proc Natl Acad Sci USA, 106: 10626–10631. Link

2008

Mittler G, Butter F and Mann M. (2008). A SILAC-based DNA protein interaction screen that identifies candidate binding proteins to functional DNA elements. Genome Res, 19: 284–293. Link

Just A, Butter F, Trenkmann M, Heitkam T, Mörl M and Betat H. (2008). A comparative analysis of two conserved motifs in bacterial poly(A) polymerase and CCA-adding enzyme. Nucleic Acids Res, 36: 5212–5220. Link