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Stress-induced host membrane remodeling protects from infection by non-motile bacterial pathogens
Publication
Tawk C,
Nigro G,
Rodrigues Lopes I,
Aguilar C,
Lisowski C,
Mano M,
Sansonetti P,
Vogel J,
Eulalio A
(2018)
The EMBO Journal, 37, 23, pii: e98529, 10.15252/embj.201798529, 30389666
The EMBO Journal, 37, 23, pii: e98529, 10.15252/embj.201798529, 30389666
APRICOT: an integrated computational pipeline for the sequence-based identification and characterization of RNA-binding proteins
Publication
Sharan M,
Förstner KU,
Eulalio A,
Vogel J
(2017)
Nucleic Acids Research, 45, 11, e96, 10.1093/nar/gkx137, 28334975
Nucleic Acids Research, 45, 11, e96, 10.1093/nar/gkx137, 28334975
A systematic analysis of the RNA-targeting potential of secreted bacterial effector proteins
Publication
Tawk C,
Sharan M,
Eulalio A,
Vogel J
(2017)
Scientific Reports, 7, 1, 9328, 10.1038/s41598-017-09527-0, 28839189
Scientific Reports, 7, 1, 9328, 10.1038/s41598-017-09527-0, 28839189
Molecular mechanism of mRNA repression in trans by a ProQ‐dependent small RNA
Publication
Smirnov A,
Wang C,
Drewry LL,
Vogel J
(2017)
The EMBO Journal, 36, 8, 1029-45, 10.15252/embj.201696127, 28336682
The EMBO Journal, 36, 8, 1029-45, 10.15252/embj.201696127, 28336682
Structure of the Escherichia coli ProQ RNA-binding protein
Publication
Gonzalez GM,
Hardwick SW,
Maslen SL,
Skehel JM,
Holmqvist E,
Vogel J,
Bateman A,
Luisi BF,
Broadhurst RW
(2017)
RNA, 23, 5, 696-711, 10.1261/rna.060343.116, 28193673
RNA, 23, 5, 696-711, 10.1261/rna.060343.116, 28193673
In Vivo Cleavage Map Illuminates the Central Role of RNase E in Coding and Non-coding RNA Pathways
Publication
Chao Y,
Li L,
Girodat D,
Förstner KU,
Said N,
Corcoran C,
Smiga M,
Papenfort K,
Reinhardt R,
Wieden H,
Luisi BF,
Vogel J
(2017)
Molecular Cell, 65, 1, 39-51, 10.1016/j.molcel.2016.11.002, 28061332
Molecular Cell, 65, 1, 39-51, 10.1016/j.molcel.2016.11.002, 28061332
Natural mutations in a Staphylococcus aureus virulence regulator attenuate cytotoxicity but permit bacteremia and abscess formation
Publication
Das S,
Lindemann C,
Young BC,
Muller J,
Österreich B,
Ternette N,
Winkler A,
Paprotka K,
Reinhardt R,
Förstner KU,
Allen E,
Flaxman A,
Yamaguchi Y,
Rollier CS,
van Diemen P,
Blättner S,
Remmele CW,
Selle M,
Dittrich M,
Müller T,
Vogel J,
Ohlsen K,
Crook DW,
Massey R,
Wilson DJ,
Rudel T,
Wyllie DH,
Fraunholz MJ
(2016)
PNAS, 113, 22, E3101-10, 10.1073/pnas.1520255113, 27185949
PNAS, 113, 22, E3101-10, 10.1073/pnas.1520255113, 27185949
Grad-seq guides the discovery of ProQ as a major small RNA-binding protein
Publication
Smirnov A,
Förstner KU,
Holmqvist E,
Otto A,
Günster R,
Becher D,
Reinhardt R,
Vogel J
(2016)
PNAS, 113, 41, 11591-11596, 10.1073/pnas.1609981113, 27671629
PNAS, 113, 41, 11591-11596, 10.1073/pnas.1609981113, 27671629
An expanded evaluation of protein function prediction methods shows an improvement in accuracy
Publication
Jiang Y,
Oron TR,
Clark WT,
Bankapur AR,
D'Andrea D,
Lepore R,
Funk CS,
Kahanda I,
Verspoor KM,
Ben-Hur A,
Koo DC,
Penfold-Brown D,
Shasha D,
Youngs N,
Bonneau R,
Lin A,
Sahraeian SM,
Martelli PL,
Profiti G,
Casadio R,
Cao R,
Zhong Z,
Cheng J,
Altenhoff A,
Skunca N,
Dessimoz C,
Dogan T,
Hakala K,
Kaewphan S,
Mehryary F,
Salakoski T,
Ginter F,
Fang H,
Smithers B,
Oates M,
Gough J,
Törönen P,
Koskinen P,
Holm L,
Chen C,
Hsu W,
Bryson K,
Cozzetto D,
Minneci F,
Jones DT,
Chapman S,
Bkc D,
Khan IK,
Kihara D,
Ofer D,
Rappoport N,
Stern A,
Cibrian-Uhalte E,
Denny P,
Foulger RE,
Hieta R,
Legge D,
Lovering RC,
Magrane M,
Melidoni AN,
Mutowo-Meullenet P,
Pichler K,
Shypitsyna A,
Li B,
Zakeri P,
ElShal S,
Tranchevent L,
Das S,
Dawson NL,
Lee D,
Lees JG,
Sillitoe I,
Bhat P,
Nepusz T,
Romero AE,
Sasidharan R,
Yang H,
Paccanaro A,
Gillis J,
Sedeño-Cortés AE,
Pavlidis P,
Feng S,
Cejuela JM,
Goldberg T,
Hamp T,
Richter L,
Salamov A,
Gabaldon T,
Marcet-Houben M,
Supek F,
Gong Q,
Ning W,
Zhou Y,
Tian W,
Falda M,
Fontana P,
Lavezzo E,
Toppo S,
Ferrari C,
Giollo M,
Piovesan D,
Tosatto SC,
Del Pozo A,
Fernández JM,
Maietta P,
Valencia A,
Tress ML,
Benso A,
Di Carlo S,
Politano G,
Savino A,
Rehman HU,
Re M,
Mesiti M,
Valentini G,
Bargsten JW,
van Dijk AD,
Gemovic B,
Glisic S,
Perovic V,
Veljkovic V,
Veljkovic N,
Almeida-E-Silva DC,
Vencio RZ,
Sharan M,
Vogel J,
Kansakar L,
Zhang S,
Vucetic S,
Wang Z,
Sternberg MJ,
Wass MN,
Huntley RP,
Martin MJ,
O'Donovan C,
Robinson PN,
Moreau Y,
Tramontano A,
Babbitt PC,
Brenner SE,
Linial M,
Orengo CA,
Rost B,
Greene CS,
Mooney SD,
Friedberg I,
Radivojac P
(2016)
Genome Biology, 17, 1, 184, 10.1186/s13059-016-1037-6, 27604469
Genome Biology, 17, 1, 184, 10.1186/s13059-016-1037-6, 27604469
The target spectrum of SdsR small RNA in Salmonella
Publication
Fröhlich KS,
Haneke K,
Papenfort K,
Vogel J
(2016)
Nucleic Acids Research, 44, 21, 10406-22, 10.1093/nar/gkw632, 27407104
Nucleic Acids Research, 44, 21, 10406-22, 10.1093/nar/gkw632, 27407104