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Items: 1 to 50 of 204

1.

Borealin-nucleosome interaction secures chromosome association of the chromosomal passenger complex.

Abad MA, Ruppert JG, Buzuk L, Wear M, Zou J, Webb KM, Kelly DA, Voigt P, Rappsilber J, Earnshaw WC, Jeyaprakash AA.

J Cell Biol. 2019 Sep 30. pii: jcb.201905040. doi: 10.1083/jcb.201905040. [Epub ahead of print]

PMID:
31570499
2.

Assessment of chemical-crosslink-assisted protein structure modeling in CASP13.

Fajardo JE, Shrestha R, Gil N, Belsom A, Crivelli SN, Czaplewski C, Fidelis K, Grudinin S, Karasikov M, Karczyńska AS, Kryshtafovych A, Leitner A, Liwo A, Lubecka EA, Monastyrskyy B, Pagès G, Rappsilber J, Sieradzan AK, Sikorska C, Trabjerg E, Fiser A.

Proteins. 2019 Sep 30. doi: 10.1002/prot.25816. [Epub ahead of print]

PMID:
31569265
3.

An integrated workflow for crosslinking mass spectrometry.

Mendes ML, Fischer L, Chen ZA, Barbon M, O'Reilly FJ, Giese SH, Bohlke-Schneider M, Belsom A, Dau T, Combe CW, Graham M, Eisele MR, Baumeister W, Speck C, Rappsilber J.

Mol Syst Biol. 2019 Sep;15(9):e8994. doi: 10.15252/msb.20198994.

4.

Lamin A molecular compression and sliding as mechanisms behind nucleoskeleton elasticity.

Makarov AA, Zou J, Houston DR, Spanos C, Solovyova AS, Cardenal-Peralta C, Rappsilber J, Schirmer EC.

Nat Commun. 2019 Jul 11;10(1):3056. doi: 10.1038/s41467-019-11063-6.

5.

Reconstitution of Microtubule Nucleation In Vitro Reveals Novel Roles for Mzt1.

Leong SL, Lynch EM, Zou J, Tay YD, Borek WE, Tuijtel MW, Rappsilber J, Sawin KE.

Curr Biol. 2019 Jul 8;29(13):2199-2207.e10. doi: 10.1016/j.cub.2019.05.058.

6.

Quantitative Photo-crosslinking Mass Spectrometry Revealing Protein Structure Response to Environmental Changes.

Müller F, Graziadei A, Rappsilber J.

Anal Chem. 2019 Jul 16;91(14):9041-9048. doi: 10.1021/acs.analchem.9b01339. Epub 2019 Jul 5.

7.

Loss of 5-methylcytosine alters the biogenesis of vault-derived small RNAs to coordinate epidermal differentiation.

Sajini AA, Choudhury NR, Wagner RE, Bornelöv S, Selmi T, Spanos C, Dietmann S, Rappsilber J, Michlewski G, Frye M.

Nat Commun. 2019 Jun 11;10(1):2550. doi: 10.1038/s41467-019-10020-7.

8.

First Community-Wide, Comparative Cross-Linking Mass Spectrometry Study.

Iacobucci C, Piotrowski C, Aebersold R, Amaral BC, Andrews P, Bernfur K, Borchers C, Brodie NI, Bruce JE, Cao Y, Chaignepain S, Chavez JD, Claverol S, Cox J, Davis T, Degliesposti G, Dong MQ, Edinger N, Emanuelsson C, Gay M, Götze M, Gomes-Neto F, Gozzo FC, Gutierrez C, Haupt C, Heck AJR, Herzog F, Huang L, Hoopmann MR, Kalisman N, Klykov O, Kukačka Z, Liu F, MacCoss MJ, Mechtler K, Mesika R, Moritz RL, Nagaraj N, Nesati V, Neves-Ferreira AGC, Ninnis R, Novák P, O'Reilly FJ, Pelzing M, Petrotchenko E, Piersimoni L, Plasencia M, Pukala T, Rand KD, Rappsilber J, Reichmann D, Sailer C, Sarnowski CP, Scheltema RA, Schmidt C, Schriemer DC, Shi Y, Skehel JM, Slavin M, Sobott F, Solis-Mezarino V, Stephanowitz H, Stengel F, Stieger CE, Trabjerg E, Trnka M, Vilaseca M, Viner R, Xiang Y, Yilmaz S, Zelter A, Ziemianowicz D, Leitner A, Sinz A.

Anal Chem. 2019 Jun 4;91(11):6953-6961. doi: 10.1021/acs.analchem.9b00658. Epub 2019 May 22.

9.

The molecular basis of monopolin recruitment to the kinetochore.

Plowman R, Singh N, Tromer EC, Payan A, Duro E, Spanos C, Rappsilber J, Snel B, Kops GJPL, Corbett KD, Marston AL.

Chromosoma. 2019 Apr 30. doi: 10.1007/s00412-019-00700-0. [Epub ahead of print]

PMID:
31037469
10.

Reductional Meiosis I Chromosome Segregation Is Established by Coordination of Key Meiotic Kinases.

Galander S, Barton RE, Borek WE, Spanos C, Kelly DA, Robertson D, Rappsilber J, Marston AL.

Dev Cell. 2019 May 20;49(4):526-541.e5. doi: 10.1016/j.devcel.2019.04.003. Epub 2019 Apr 25.

11.

Defining the RNA interactome by total RNA-associated protein purification.

Shchepachev V, Bresson S, Spanos C, Petfalski E, Fischer L, Rappsilber J, Tollervey D.

Mol Syst Biol. 2019 Apr 8;15(4):e8689. doi: 10.15252/msb.20188689.

12.

A folded conformation of MukBEF and cohesin.

Bürmann F, Lee BG, Than T, Sinn L, O'Reilly FJ, Yatskevich S, Rappsilber J, Hu B, Nasmyth K, Löwe J.

Nat Struct Mol Biol. 2019 Mar;26(3):227-236. doi: 10.1038/s41594-019-0196-z. Epub 2019 Mar 4.

13.

Sequential Digestion with Trypsin and Elastase in Cross-Linking Mass Spectrometry.

Dau T, Gupta K, Berger I, Rappsilber J.

Anal Chem. 2019 Apr 2;91(7):4472-4478. doi: 10.1021/acs.analchem.8b05222. Epub 2019 Mar 13.

14.

Fission Yeast NDR/LATS Kinase Orb6 Regulates Exocytosis via Phosphorylation of the Exocyst Complex.

Tay YD, Leda M, Spanos C, Rappsilber J, Goryachev AB, Sawin KE.

Cell Rep. 2019 Feb 5;26(6):1654-1667.e7. doi: 10.1016/j.celrep.2019.01.027.

15.

Molecular interactions between Hel2 and RNA supporting ribosome-associated quality control.

Winz ML, Peil L, Turowski TW, Rappsilber J, Tollervey D.

Nat Commun. 2019 Feb 4;10(1):563. doi: 10.1038/s41467-019-08382-z.

16.

Posttranscriptional Regulation of 14q32 MicroRNAs by the CIRBP and HADHB during Vascular Regeneration after Ischemia.

Downie Ruiz Velasco A, Welten SMJ, Goossens EAC, Quax PHA, Rappsilber J, Michlewski G, Nossent AY.

Mol Ther Nucleic Acids. 2019 Mar 1;14:329-338. doi: 10.1016/j.omtn.2018.11.017. Epub 2018 Dec 6.

17.

Data-independent Acquisition Improves Quantitative Cross-linking Mass Spectrometry.

Müller F, Kolbowski L, Bernhardt OM, Reiter L, Rappsilber J.

Mol Cell Proteomics. 2019 Apr;18(4):786-795. doi: 10.1074/mcp.TIR118.001276. Epub 2019 Jan 16.

18.

Noncovalently Associated Peptides Observed during Liquid Chromatography-Mass Spectrometry and Their Effect on Cross-Link Analyses.

Giese SH, Belsom A, Sinn L, Fischer L, Rappsilber J.

Anal Chem. 2019 Feb 19;91(4):2678-2685. doi: 10.1021/acs.analchem.8b04037. Epub 2019 Feb 1.

19.

Proteome Analysis of Human Neutrophil Granulocytes From Patients With Monogenic Disease Using Data-independent Acquisition.

Grabowski P, Hesse S, Hollizeck S, Rohlfs M, Behrends U, Sherkat R, Tamary H, Ünal E, Somech R, Patıroğlu T, Canzar S, van der Werff Ten Bosch J, Klein C, Rappsilber J.

Mol Cell Proteomics. 2019 Apr;18(4):760-772. doi: 10.1074/mcp.RA118.001141. Epub 2019 Jan 10.

20.

A programmed wave of uridylation-primed mRNA degradation is essential for meiotic progression and mammalian spermatogenesis.

Morgan M, Kabayama Y, Much C, Ivanova I, Di Giacomo M, Auchynnikava T, Monahan JM, Vitsios DM, Vasiliauskaitė L, Comazzetto S, Rappsilber J, Allshire RC, Porse BT, Enright AJ, O'Carroll D.

Cell Res. 2019 Mar;29(3):221-232. doi: 10.1038/s41422-018-0128-1. Epub 2019 Jan 7.

21.

The depolymerase activity of MCAK shows a graded response to Aurora B kinase phosphorylation through allosteric regulation.

McHugh T, Zou J, Volkov VA, Bertin A, Talapatra SK, Rappsilber J, Dogterom M, Welburn JPI.

J Cell Sci. 2019 Jan 14;132(4). pii: jcs228353. doi: 10.1242/jcs.228353.

22.

Quantitative cross-linking/mass spectrometry to elucidate structural changes in proteins and their complexes.

Chen ZA, Rappsilber J.

Nat Protoc. 2019 Jan;14(1):171-201. doi: 10.1038/s41596-018-0089-3.

PMID:
30559374
23.

A Primer on Data Analytics in Functional Genomics: How to Move from Data to Insight?

Grabowski P, Rappsilber J.

Trends Biochem Sci. 2019 Jan;44(1):21-32. doi: 10.1016/j.tibs.2018.10.010. Epub 2018 Dec 3. Review.

24.

Gain-of-function DNMT3A mutations cause microcephalic dwarfism and hypermethylation of Polycomb-regulated regions.

Heyn P, Logan CV, Fluteau A, Challis RC, Auchynnikava T, Martin CA, Marsh JA, Taglini F, Kilanowski F, Parry DA, Cormier-Daire V, Fong CT, Gibson K, Hwa V, Ibáñez L, Robertson SP, Sebastiani G, Rappsilber J, Allshire RC, Reijns MAM, Dauber A, Sproul D, Jackson AP.

Nat Genet. 2019 Jan;51(1):96-105. doi: 10.1038/s41588-018-0274-x. Epub 2018 Nov 26.

25.

The kinetochore module Okp1CENP-Q/Ame1CENP-U is a reader for N-terminal modifications on the centromeric histone Cse4CENP-A.

Anedchenko EA, Samel-Pommerencke A, Tran Nguyen TM, Shahnejat-Bushehri S, Pöpsel J, Lauster D, Herrmann A, Rappsilber J, Cuomo A, Bonaldi T, Ehrenhofer-Murray AE.

EMBO J. 2019 Jan 3;38(1). pii: e98991. doi: 10.15252/embj.201898991. Epub 2018 Nov 2.

PMID:
30389668
26.

Cross-linking mass spectrometry: methods and applications in structural, molecular and systems biology.

O'Reilly FJ, Rappsilber J.

Nat Struct Mol Biol. 2018 Nov;25(11):1000-1008. doi: 10.1038/s41594-018-0147-0. Epub 2018 Oct 29. Review.

PMID:
30374081
27.

Protein Dynamics in Solution by Quantitative Crosslinking/Mass Spectrometry.

Chen ZA, Rappsilber J.

Trends Biochem Sci. 2018 Nov;43(11):908-920. doi: 10.1016/j.tibs.2018.09.003. Epub 2018 Oct 11. Review.

28.

In-Search Assignment of Monoisotopic Peaks Improves the Identification of Cross-Linked Peptides.

Lenz S, Giese SH, Fischer L, Rappsilber J.

J Proteome Res. 2018 Nov 2;17(11):3923-3931. doi: 10.1021/acs.jproteome.8b00600. Epub 2018 Oct 24.

29.

Quantitative Proteomics of the Mitotic Chromosome Scaffold Reveals the Association of BAZ1B with Chromosomal Axes.

Ohta S, Taniguchi T, Sato N, Hamada M, Taniguchi H, Rappsilber J.

Mol Cell Proteomics. 2019 Feb;18(2):169-181. doi: 10.1074/mcp.RA118.000923. Epub 2018 Sep 28.

PMID:
30266865
30.

Heterologous Biosynthesis, Modifications and Structural Characterization of Ruminococcin-A, a Lanthipeptide From the Gut Bacterium Ruminococcus gnavus E1, in Escherichia coli.

Ongey EL, Giessmann RT, Fons M, Rappsilber J, Adrian L, Neubauer P.

Front Microbiol. 2018 Jul 26;9:1688. doi: 10.3389/fmicb.2018.01688. eCollection 2018.

31.

Epigenetic Variability Confounds Transcriptome but Not Proteome Profiling for Coexpression-based Gene Function Prediction.

Grabowski P, Kustatscher G, Rappsilber J.

Mol Cell Proteomics. 2018 Nov;17(11):2082-2090. doi: 10.1074/mcp.RA118.000935. Epub 2018 Jul 24.

32.

Exportin Crm1 is repurposed as a docking protein to generate microtubule organizing centers at the nuclear pore.

Bao XX, Spanos C, Kojidani T, Lynch EM, Rappsilber J, Hiraoka Y, Haraguchi T, Sawin KE.

Elife. 2018 May 29;7. pii: e33465. doi: 10.7554/eLife.33465.

33.

False discovery rate estimation and heterobifunctional cross-linkers.

Fischer L, Rappsilber J.

PLoS One. 2018 May 10;13(5):e0196672. doi: 10.1371/journal.pone.0196672. eCollection 2018.

34.

xiSPEC: web-based visualization, analysis and sharing of proteomics data.

Kolbowski L, Combe C, Rappsilber J.

Nucleic Acids Res. 2018 Jul 2;46(W1):W473-W478. doi: 10.1093/nar/gky353.

35.

JAMI: a Java library for molecular interactions and data interoperability.

Sivade Dumousseau M, Koch M, Shrivastava A, Alonso-López D, De Las Rivas J, Del-Toro N, Combe CW, Meldal BHM, Heimbach J, Rappsilber J, Sullivan J, Yehudi Y, Orchard S.

BMC Bioinformatics. 2018 Apr 11;19(1):133. doi: 10.1186/s12859-018-2119-0.

36.

Peptide Retention in Hydrophilic Strong Anion Exchange Chromatography Is Driven by Charged and Aromatic Residues.

Giese SH, Ishihama Y, Rappsilber J.

Anal Chem. 2018 Apr 3;90(7):4635-4640. doi: 10.1021/acs.analchem.7b05157. Epub 2018 Mar 21.

37.

Protein Tertiary Structure by Crosslinking/Mass Spectrometry.

Schneider M, Belsom A, Rappsilber J.

Trends Biochem Sci. 2018 Mar;43(3):157-169. doi: 10.1016/j.tibs.2017.12.006. Epub 2018 Jan 31. Review.

38.

Small angle X-ray scattering and cross-linking for data assisted protein structure prediction in CASP 12 with prospects for improved accuracy.

Ogorzalek TL, Hura GL, Belsom A, Burnett KH, Kryshtafovych A, Tainer JA, Rappsilber J, Tsutakawa SE, Fidelis K.

Proteins. 2018 Mar;86 Suppl 1:202-214. doi: 10.1002/prot.25452. Epub 2018 Feb 7.

39.

Genes Important for Schizosaccharomyces pombe Meiosis Identified Through a Functional Genomics Screen.

Blyth J, Makrantoni V, Barton RE, Spanos C, Rappsilber J, Marston AL.

Genetics. 2018 Feb;208(2):589-603. doi: 10.1534/genetics.117.300527. Epub 2017 Dec 19.

40.

On the Reproducibility of Label-Free Quantitative Cross-Linking/Mass Spectrometry.

Müller F, Fischer L, Chen ZA, Auchynnikava T, Rappsilber J.

J Am Soc Mass Spectrom. 2018 Feb;29(2):405-412. doi: 10.1007/s13361-017-1837-2. Epub 2017 Dec 18.

41.

Comprehensive identification of proteins binding to RNA G-quadruplex motifs in the 5' UTR of tumor-associated mRNAs.

Serikawa T, Spanos C, von Hacht A, Budisa N, Rappsilber J, Kurreck J.

Biochimie. 2018 Jan;144:169-184. doi: 10.1016/j.biochi.2017.11.003. Epub 2017 Nov 10.

PMID:
29129743
42.

RNA-binding activity of TRIM25 is mediated by its PRY/SPRY domain and is required for ubiquitination.

Choudhury NR, Heikel G, Trubitsyna M, Kubik P, Nowak JS, Webb S, Granneman S, Spanos C, Rappsilber J, Castello A, Michlewski G.

BMC Biol. 2017 Nov 8;15(1):105. doi: 10.1186/s12915-017-0444-9.

43.

Architecture of TAF11/TAF13/TBP complex suggests novel regulation properties of general transcription factor TFIID.

Gupta K, Watson AA, Baptista T, Scheer E, Chambers AL, Koehler C, Zou J, Obong-Ebong I, Kandiah E, Temblador A, Round A, Forest E, Man P, Bieniossek C, Laue ED, Lemke EA, Rappsilber J, Robinson CV, Devys D, Tora L, Berger I.

Elife. 2017 Nov 7;6. pii: e30395. doi: 10.7554/eLife.30395.

44.

ComplexViewer: visualization of curated macromolecular complexes.

Combe CW, Sivade MD, Hermjakob H, Heimbach J, Meldal BHM, Micklem G, Orchard S, Rappsilber J.

Bioinformatics. 2017 Nov 15;33(22):3673-3675. doi: 10.1093/bioinformatics/btx497.

45.

RNA polymerase II stalling at pre-mRNA splice sites is enforced by ubiquitination of the catalytic subunit.

Milligan L, Sayou C, Tuck A, Auchynnikava T, Reid JE, Alexander R, Alves FL, Allshire R, Spanos C, Rappsilber J, Beggs JD, Kudla G, Tollervey D.

Elife. 2017 Oct 13;6. pii: e27082. doi: 10.7554/eLife.27082.

46.

14-3-3 regulation of Ncd reveals a new mechanism for targeting proteins to the spindle in oocytes.

Beaven R, Bastos RN, Spanos C, Romé P, Cullen CF, Rappsilber J, Giet R, Goshima G, Ohkura H.

J Cell Biol. 2017 Oct 2;216(10):3029-3039. doi: 10.1083/jcb.201704120. Epub 2017 Aug 31.

47.

Pervasive coexpression of spatially proximal genes is buffered at the protein level.

Kustatscher G, Grabowski P, Rappsilber J.

Mol Syst Biol. 2017 Aug 23;13(8):937. doi: 10.15252/msb.20177548.

48.

Phosphorylation of SOS1 on tyrosine 1196 promotes its RAC GEF activity and contributes to BCR-ABL leukemogenesis.

Gerboth S, Frittoli E, Palamidessi A, Baltanas FC, Salek M, Rappsilber J, Giuliani C, Troglio F, Rolland Y, Pruneri G, Kreutmair S, Pallavicini I, Zobel M, Cinquanta M, Minucci S, Gomez C, Santos E, Illert AL, Scita G.

Leukemia. 2018 Mar;32(3):820-827. doi: 10.1038/leu.2017.267. Epub 2017 Aug 18.

49.

Capturing protein communities by structural proteomics in a thermophilic eukaryote.

Kastritis PL, O'Reilly FJ, Bock T, Li Y, Rogon MZ, Buczak K, Romanov N, Betts MJ, Bui KH, Hagen WJ, Hennrich ML, Mackmull MT, Rappsilber J, Russell RB, Bork P, Beck M, Gavin AC.

Mol Syst Biol. 2017 Jul 25;13(7):936. doi: 10.15252/msb.20167412.

50.

The mzIdentML Data Standard Version 1.2, Supporting Advances in Proteome Informatics.

Vizcaíno JA, Mayer G, Perkins S, Barsnes H, Vaudel M, Perez-Riverol Y, Ternent T, Uszkoreit J, Eisenacher M, Fischer L, Rappsilber J, Netz E, Walzer M, Kohlbacher O, Leitner A, Chalkley RJ, Ghali F, Martínez-Bartolomé S, Deutsch EW, Jones AR.

Mol Cell Proteomics. 2017 Jul;16(7):1275-1285. doi: 10.1074/mcp.M117.068429. Epub 2017 May 17.

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