Publikationen
2012
Friedlaender MR; Mackowiak SD; Li N; Chen W; Rajewsky N
miRDeep2 accurately identifies known and hundreds of novel microRNA genes in seven animal clades
Nucleic Acids Research 40 (1): 37-52 (2012-01-01)
Song JL; Stoeckius M; Maaskola J; Friedlaender M; Stepicheva N; Juliano C; Lebedeva S; Thompson W; Rajewsky N; Wessel GM
Select microRNAs are essential for early development in the sea urchin
Developmental Biology 362 (1): 104-113 (2012-02-01)
Onal P; Gruen D; Adamidi C; Rybak A; Solana J; Mastrobuoni G; Wang Y; Rahn HP; Chen W; Kempa S; Ziebold U; Rajewsky N
Gene expression of pluripotency determinants is conserved between mammalian and planarian stem cells
EMBO Journal : (2012-04-27)
Anders G; Mackowiak SD; Jens M; Maaskola J; Kuntzagk A; Rajewsky N; Landthaler M; Dieterich C
doRiNA: a database of RNA interactions in post-transcriptional regulation
Nucleic Acids Research 40 (1): D180-D186 (2012-01)
2011
von Eyss B; Maaskola J; Memczak S; Moellmann K; Schuetz A; Loddenkemper C; Tanh MD; Otto A; Muegge K; Heinemann U; Rajewsky N; Ziebold U
The SNF2-like helicase HELLS mediates E2F3-dependent transcription and cellular transformation
EMBO Journal 31 (4): 972-985 (2011-12-13)
Fang Z; Rajewsky N
The impact of miRNA target sites in coding sequences and in 3'UTRs
PLoS ONE 6 (3): e18067 (2011-03-22)
Jungkamp AC; Stoeckius M; Mecenas D; Gruen D; Mastrobuoni G; Kempa S; Rajewsky N
In vivo and transcriptome-wide identification of RNA binding protein target sites
Molecular Cell 44 (5): 828-840 (2011-12-09)
Adamidi C; Wang Y; Gruen D; Mastrobuoni G; You X; Tolle D; Dodt M; Mackowiak SD; Gogol-Doering A; Oenal P; Rybak A; Ross E; Alvarado AS; Kempa S; Dieterich C; Rajewsky N; Chen W
De novo assembly and validation of planaria transcriptome by massive parallel sequencing and shotgun proteomics
Genome Research 21 (7): 1193-1200 (2011-07)
Lebedeva S; Jens M; Theil K; Schwanhaeusser B; Selbach M; Landthaler M; Rajewsky N
Transcriptome-wide analysis of regulatory interactions of the RNA-binding protein HuR
Molecular Cell 43 (3): 340-352 (2011-08-05)
Rajewsky N
microRNAs and the Operon paper
Journal of Molecular Biology 409 (1): 70-75 (2011-05-27)
2010
Mangone M; Manoharan AP; Thierry-Mieg D; Thierry-Mieg J; Han T; Mackowiak S; Mis E; Zegar C; Gutwein MR; Khivansara V; Attie O; Chen K; Salehi-Ashtiani K; Vidal M; Harkins TT; Bouffard P; Suzuki Y; Sugano S; Kohara Y; Rajewsky N; Piano F; Gunsalus KC; Kim JK
The Landscape of C. elegans 3'UTRs
Science 329 (5990): 432-435 (2010-07-23)
Stittrich AB; Haftmann C; Sgouroudis E; Kuehl AA; Hegazy AN; Panse I; Riedel R; Flossdorf M; Dong J; Fuhrmann F; Heinz GA; Fang Z; Li N; Bissels U; Hatam F; Jahn A; Hammoud B; Matz M; Schulze FM; Baumgrass R; Bosio A; Mollenkopf HJ; Gruen J; Thiel A; Chen W; Hoefer T; Loddenkemper C; Loehning M; Chang HD; Rajewsky N; Radbruch A; Mashreghi MF
The microRNA miR-182 is induced by IL-2 and promotes clonal expansion of activated helper T lymphocytes
Nature Immunology 11 (11): 1057-1062 (2010-11)
Chen K; van Nimwegen E; Rajewsky N; Siegal ML
Correlating gene expression variation with cis-regulatory polymorphism in Saccharomyces cerevisiae
Genome Biology and Evolution 2: 697-707 (2010-09-09)
Sharbati S; Friedlaender MR; Sharbati J; Hoeke L; Chen W; Keller A; Stahler PF; Rajewsky N; Einspanier R
Deciphering the porcine intestinal microRNA transcriptome
BMC Genomics 11 (1): 275 (2010-04-30)
Gerstein MB; Lu ZJ; Van Nostrand EL; Cheng C; Arshinoff BI; Liu T; Yip KY; Robilotto R; Rechtsteiner A; Ikegami K; Alves P; Chateigner A; Perry M; Morris M; Auerbach RK; Feng X; Leng J; Vielle A; Niu W; Rhrissorrakrai K; Agarwal A; Alexander RP; Barber G; Brdlik CM; Brennan J; Brouillet JJ; Carr A; Cheung MS; Clawson H; Contrino S; Dannenberg LO; Dernburg AF; Desai A; Dick L; Dose AC; Du J; Egelhofer T; Ercan S; Euskirchen G; Ewing B; Feingold EA; Gassmann R; Good PJ; Green P; Gullier F; Gutwein M; Guyer MS; Habegger L; Han T; Henikoff JG; Henz SR; Hinrichs A; Holster H; Hyman T; Iniguez AL; Janette J; Jensen M; Kato M; Kent WJ; Kephart E; Khivansara V; Khurana E; Kim JK; Kolasinska-Zwierz P; Lai EC; Latorre I; Leahey A; Lewis S; Lloyd P; Lochovsky L; Lowdon RF; Lubling Y; Lyne R; Maccoss M; Mackowiak SD; Mangone M; McKay S; Mecenas D; Merrihew G; Miller DM; Muroyama A; Murray JI; Ooi SL; Pham H; Phippen T; Preston EA; Rajewsky N; Raetsch G; Rosenbaum H; Rozowsky J; Rutherford K; Ruzanov P; Sarov M; Sasidharan R; Sboner A; Scheid P; Segal E; Shin H; Shou C; Slack FJ; Slightam C; Smith R; Spencer WC; Stinson EO; Taing S; Takasaki T; Vafeados D; Voronina K; Wang G; Washington NL; Whittle CM; Wu B; Yan KK; Zeller G; Zha Z; Zhong M; Zhou X; Ahringer J; Strome S; Gunsalus KC; Micklem G; Liu XS; Reinke V; Kim SK; Hillier LW; Henikoff S; Piano F; Snyder M; Stein L; Lieb JD; Waterston RH
Integrative analysis of the caenorhabditis elegans genome by the modENCODE project
Science 330 (6012): 1775-1787 (2010-12-24)
2009
Stoeckius M; Maaskola J; Colombo T; Rahn HP; Friedlaender MR; Li N; Chen W; Piano F; Rajewsky N
Large-scale sorting of C. elegans embryos reveals the dynamics of small RNA expression
Nature Methods 6 (10): 745-751 (2009-10)
Friedlaender MR; Adamidi C; Han T; Lebedeva S; Isenbarger TA; Hirst M; Marra M; Nusbaum C; Lee WL; Jenkin JC; Alvarado AS; Kim JK; Rajewsky N
High-resolution profiling and discovery of planarian small RNAs
Proceedings of the National Academy of Sciences of the United States of America 106 (28): 11546-11551 (2009-07-14)
Chen K; Maaskola J; Siegal ML; Rajewsky N
Reexamining microRNA site accessibility in Drosophila: a population genomics study
PLoS ONE 4 (5): e5681 (2009)
2008
Selbach M; Schwanhaeusser B; Thierfelder N; Fang Z; Khanin R; Rajewsky N
Widespread changes in protein synthesis induced by microRNAs
Nature 455 (7209): 58-63 (2008-09-04)
Koralov SB; Muljo SA; Galler GR; Krek A; Chakraborty T; Kanellopoulou C; Jensen K; Cobb BS; Merkenschlager M; Rajewsky N; Rajewsky K
Dicer ablation affects antibody diversity and cell survival in the B lymphocyte lineage
Cell 132 (5): 860-874 (2008-03-07)
Ender C; Krek A; Friedlaender MR; Beitzinger M; Weinmann L; Chen W; Pfeffer S; Rajewsky N; Meister G
A human snoRNA with microRNA-like functions
Molecular Cell 32 (4): 519-528 (2008-11-21)
Friedlaender MR; Chen W; Adamidi C; Maaskola J; Einspanier R; Knespel S; Rajewsky N
Discovering microRNAs from deep sequencing data using miRDeep
Nature Biotechnology 26 (4): 407-415 (2008-04)
Gruen D; Rajewsky N
Computational prediction of microRNA targets in vertebrates, fruitflies and nematodes
MicroRNAs: From Basic Science to Disease Biology : 172-186 (2008-02-01)
2007
Xiao C; Calado DP; Galler G; Thai TH; Patterson HC; Wang J; Rajewsky N; Bender TP; Rajewsky K
MiR-150 Controls B Cell Differentiation by Targeting the Transcription Factor c-Myb
Cell 131: 146-159 (2007-10-05)
Thai TH; Calado DP; Casola S; Ansel KM; Xiao C; Xue Y; Murphy A; Frendewey D; Valenzuela D; Kutok JL; Schmidt-Supprian M; Rajewsky N; Yancopoulos G; Rao A; Rajewsky K
Regulation of the germinal center response by microRNA-155
Science 316 (5824): 604-608 (2007-04-27)
Chen K; Rajewsky N
The evolution of gene regulation by transcription factors and microRNAs
Nature Reviews Genetics 8 (2): 93-103 (2007-02-08)
2006
Sood P; Krek A; Zavolan M; Macino G; Rajewsky N
Cell type specific signatures of microRNAs on target mRNA expression
Proceedings of the National Academy of Sciences of the United States of America 103 (8): 2746-2751 (2006-02-21)
Rajewsky N
microRNA target predictions in animals
Nature Genetics 38 (Suppl.): S8-S13 (2006-06)
Lall S; Grun D; Krek A; Chen K; Wang YL; Dewey CN; Sood P; Colombo T; Bray N; Macmenamin P; Kao HL; Gunsalus KC; Pachter L; Piano F; Rajewsky N
A genome-wide map of conserved microRNA targets in C. elegans
Current Biology 16 (5): 460-471 (2006-03-07)
Chen K; Rajewsky N
Deep conservation of microRNA-target relationships and 3'UTR motifs in vertebrates, flies, and nematodes
Cold Spring Harbor Symposia on Quantitative Biology 71: 149-156 (2006-12-12)
Rajewsky N
L(ou)sy miRNA targets?
Nature Structural & Molecular Biology 13 (9): 754-755 (2006-09)
Chen K; Rajewsky N
Natural selection on human microRNA binding sites inferred from SNP data
Nature Genetics 38: 1452-1456 (2006-12-01)
2005
Krek A; Gruen D; Poy MN; Wolf R; Rosenberg L; Epstein EJ; MacMenamin P; da Piedade I; Gunsalus KC; Stoffel M; Rajewsky N
Combinatorial microRNA target predictions
Nature Genetics 37 (5): 495-500 (2005-05)
Gruen D; Wang YL; Langenberger D; Gunsalus KC; Rajewsky N
microRNA target predictions across seven Drosophila species and comparison to mammalian targets
PLoS Computational Biology 1 (1): e13 (2005-06)
Monticelli S; Ansel KM; Xiao C; Socci ND; Krichevsky AM; Thai TH; Rajewsky N; Marks DS; Sander C; Rajewsky K; Rao A; Kosik KS
MicroRNA profiling of the murine hematopoietic system
Genome Biology 6 (8): R71 (2005)
Krutzfeldt J; Rajewsky N; Braich R; Rajeev KG; Tuschl T; Manoharan M; Stoffel M
Silencing of microRNAs in vivo with 'antagomirs'
Nature 438 (7068): 685-689 (2005-12-01)
2004
Yannoutsos N; Barreto V; Misulovin Z; Gazumyan A; Yu W; Rajewsky N; Peixoto BR; Eisenreich T; Nussenzweig MC
A cis element in the recombination activating gene locus regulates gene expression by counteracting a distant silencer
Nature Immunology 5 (4): 443-450 (2004-04)
Rajewsky N; Socci ND
Computational identification of microRNA targets
Developmental Biology 267 (2): 529-535 (2004-03-15)
Poy MN; Eliasson L; Krutzfeldt J; Kuwajima S; Ma X; Macdonald PE; Pfeffer S; Tuschl T; Rajewsky N; Rorsman P; Stoffel M
A pancreatic islet-specific microRNA regulates insulin secretion
Nature 432 (7014): 226-230 (2004-11-11)
Kraus M; Alimzhanov MB; Rajewsky N; Rajewsky K
Survival of resting mature B lymphocytes depends on BCR signaling via the Igalpha/beta heterodimer
Cell 117 (6): 787-800 (2004-06-11)
Schroeder MD; Pearce M; Fak J; Fan H; Unnerstall U; Emberly E; Rajewsky N; Siggia ED; Gaul U
Transcriptional control in the segmentation gene network of Drosophila
PLoS Biology 2 (9): E271 (2004-09)
2003
Zavolan M; Socci ND; Rajewsky N; Gaasterlamd T
SMASHing regulatory sites in DNA by human-mouse sequence comparisons
Proceedings of the IEEE Computer Society Bioinformatics Conference 2: 277-286 (2003)
Yang E; van Nimwegen E; Zavolan M; Rajewsky N; Schroeder M; Magnasco M; Darnell JE
Decay rates of human mRNAs: correlation with functional characteristics and sequence attributes
Genome Research 13 (8): 1863-1872 (2003-08)
Emberly E; Rajewsky N; Siggia ED
Conservation of regulatory elements between two species of Drosophila
BMC Bioinformatics 4: 57 (2003-11-20)
2002
van Nimwegen E; Zavolan M; Rajewsky N; Siggia ED
Probabilistic clustering of sequences: inferring new bacterial regulons by comparative genomics
Proceedings of the National Academy of Sciences of the United States of America 99 (11): 7323-7328 (2002-05-28)
Rajewsky N; Vergassola M; Gaul U; Siggia ED
Computational detection of genomic cis-regulatory modules applied to body patterning in the early Drosophila embryo
BMC Bioinformatics 3: 30 (2002-10-24)
Rajewsky N; Socci ND; Zapotocky M; Siggia ED
The evolution of DNA regulatory regions for proteo-gamma bacteria by interspecies comparisons
Genome Research 12 (2): 298-308 (2002-02)
2001
Claridge-Chang A; Wijnen H; Naef F; Boothroyd C; Rajewsky N; Young MW
Circadian regulation of gene expression systems in the Drosophila head
Neuron 32 (4): 657-671 (2001-11-20)
2000
Luebeck S; Rajewsky N; Wolf DE
A deterministic sandpile automaton revisited
European Physical Journal B 13 (4): 715-721 (2000-02)
Rajewsky N; Sasamoto T; Speer ER
Spatial particle condensation for an exclusion process on a ring
Physica A: Statistical Mechanics and its Applications 279 (1-4): 123-142 (2000-05-01)
1999
Evans MR; Rajewsky N; Speer ER
Exact solution of a cellular automaton for traffic
Journal of Statistical Physics 95 (1-2): 45-96 (1999-04)
Mallick K; Mallick S; Rajewsky N
Exact solution of an exclusion process with three classes of particles and vacancies
Journal of Physics A 32 (48): 8399-8410 (1999-12-03)
1998
Rajewsky N
The asymmetric exclusion model with different types of update
Traffic and Granular Flow '97 : 399-418 (1998-12)
Rajewsky N; Santen L; Schadschneider A; Schreckenberg M
The asymmetric exclusion process: Comparison of update procedures
Journal of Statistical Physics 92 (1-2): 151-194 (1998-07)
1997
Rajewsky N; Schreckenberg M
Exact results for one-dimensional cellular automata with different types of updates
Physica A: Statistical Mechanics and its Applications 245 (1-2): 139-144 (1997-10-15)
1996
Rajewsky N; Schadschneider A; Schreckenberg M
The asymmetric exclusion model with sequential update
Journal of Physics A 29 (12): L305-L309 (1996-06-21)
Rajewsky N; Santen L; Schadschneider A; Schreckenberg M
The asymmetric exclusion model with time continous and time non-continous update
: (1996)
1995
Rajewsky N; Schreckenberg M
A probabilistic cellular-automaton for evolution
Journal de Physique I 5 (9): 1129-1134 (1995-09)
1990
Lehner C; Rajewsky N; Wolf DE; Kertesz J
Anomalous roughening in 3-dimensional polynucleation growth
Physica A: Statistical Mechanics and its Applications 164 (1): 81-90 (1990-03-15)
1987
Allen D; Cumano A; Dildrop R; Kocks C; Rajewsky K; Rajewsky N; Roes J; Sablitzky F; Siekevitz M
Timing, genetic requirements and functional consequences of somatic hypermutation during B-cell development
Immunological Reviews 96: 5-22 (1987-04)