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1

Sociality Is Linked to Rates of Protein Evolution in a Highly Social Insect

Hunt, B. G., Wyder, S., Elango, N., Werren, J. H., Zdobnov, E. M., Yi, S. V., Goodisman, M. A.D.

Journal:

Molecular Biology and Evolution

Year:

2010

Language:

english

File:

PDF, 208 KB

english, 2010

2

BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs

Simao, F. A., Waterhouse, R. M., Ioannidis, P., Kriventseva, E. V., Zdobnov, E. M.

Journal:

Year:

2015

Language:

english

File:

PDF, 375 KB

english, 2015

3

The Aedes aegypti genome: a comparative perspective

R. M. Waterhouse, S. Wyder, E. M. Zdobnov

Journal:

Insect Molecular Biology

Year:

2008

Language:

english

File:

PDF, 616 KB

english, 2008

4

Mapping of Small RNAs in the Human ENCODE Regions

Christelle Borel, Maryline Gagnebin, Corinne Gehrig, Evgenia V. Kriventseva, Evgeny M. Zdobnov, Stylianos E. Antonarakis

Journal:

The American Journal of Human Genetics

Year:

2008

Language:

english

File:

PDF, 1.23 MB

english, 2008

5

Quantification of insect genome divergence

Evgeny M. Zdobnov, Peer Bork

Journal:

Trends in Genetics

Year:

2007

Language:

english

File:

PDF, 454 KB

english, 2007

6

A remarkably stableTipEgene cluster: evolution of insect Para sodium channel auxiliary subunits

Jia Li, Robert M Waterhouse, Evgeny M Zdobnov

Journal:

BMC Evolutionary Biology

Year:

2011

Language:

english

File:

PDF, 281 KB

english, 2011

7

Expression profiles of urbilaterian genes uniquely shared between honey bee and vertebrates

Toshiaki Matsui, Toshiyuki Yamamoto, Stefan Wyder, Evgeny M Zdobnov, Tatsuhiko Kadowaki

Journal:

Year:

2009

Language:

english

File:

PDF, 785 KB

english, 2009

8

New complete genome sequences of human rhinoviruses shed light on their phylogeny and genomic features

Caroline Tapparel, Thomas Junier, Daniel Gerlach, Samuel Cordey, Sandra Van Belle, Luc Perrin, Evgeny M Zdobnov, Laurent Kaiser

Journal:

Year:

2007

Language:

english

File:

PDF, 1.24 MB

english, 2007

9

Consistency of genome-based methods in measuring Metazoan evolution

Evgeny M. Zdobnov, Christian von Mering, Ivica Letunic, Peer Bork

Journal:

Year:

2005

Language:

english

File:

PDF, 300 KB

english, 2005

10

Overgrowth caused by misexpression of a microRNA with dispensable wild-type function

Knud Nairz, Carmen Rottig, Felix Rintelen, Evgeny Zdobnov, Martin Moser, Ernst Hafen

Journal:

Developmental Biology

Year:

2006

Language:

english

File:

PDF, 628 KB

english, 2006

11

Sertoli cell Dicer is essential for spermatogenesis in mice

Marilena D. Papaioannou, Jean-Luc Pitetti, Seungil Ro, Chanjae Park, Florence Aubry, Olivier Schaad, Charles E. Vejnar, Francoise Kühne, Patrick Descombes, Evgeny M. Zdobnov, Michael T. McManus, Flori

Journal:

Developmental Biology

Year:

2009

Language:

english

File:

PDF, 2.35 MB

english, 2009

12

A pseudoknot-compatible universal site is located in the large ribosomal RNA in the peptidyltransferase center

V.I Ivanov, S.A Bondarenko, E.M Zdobnov, A.D Beniaminov, E.E Minyat, N.B Ulyanov

Journal:

Year:

1999

Language:

english

File:

PDF, 115 KB

english, 1999

13

Three-Dimensional Model for Slipped Loop RNA

Farutin, Victor A., Gorin, Andrey A., Zdobnov, Evgenyi M., Ivanov, Valery I.

Journal:

Journal of Biomolecular Structure and Dynamics

Year:

1997

Language:

english

File:

PDF, 1.69 MB

english, 1997

14

Life cycle transcriptome of the malaria mosquito Anopheles gambiae and comparison with the fruitfly Drosophila melanogaster

Koutsos, A. C., Blass, C., Meister, S., Schmidt, S., MacCallum, R. M., Soares, M. B., Collins, F. H., Benes, V., Zdobnov, E., Kafatos, F. C., Christophides, G. K.

Journal:

Proceedings of the National Academy of Sciences

Year:

2007

Language:

english

File:

PDF, 413 KB

english, 2007

15

The Urbilaterian genes implicated to underlie the evolution of advanced brain functions

Kadowaki, Tatsuhiko, Matsui, Toshiaki, Tsuchimoto, Mayumi, Stefan, Wyder, Evgeny, Zdobnov

Journal:

Neuroscience Research

Year:

2007

Language:

english

File:

PDF, 69 KB

english, 2007

16

InterProScan - an integration platform for the signature-recognition methods in InterPro

Zdobnov, E. M., Apweiler, R.

Journal:

Year:

2001

Language:

english

File:

PDF, 72 KB

english, 2001

17

Genome Sequence of Aedes aegypti, a Major Arbovirus Vector

Nene, V., Wortman, J. R., Lawson, D., Haas, B., Kodira, C., Tu, Z., Loftus, B., Xi, Z., Megy, K., Grabherr, M., Ren, Q., Zdobnov, E. M., Lobo, N. F., Campbell, K. S., Brown, S. E., Bonaldo, M. F., Zhu

Journal:

Year:

2007

Language:

english

File:

PDF, 610 KB

english, 2007

18

Comprehensive Human Virus Screening Using High-Throughput Sequencing with a User-Friendly Representation of Bioinformatics Analysis: a Pilot Study

Petty, Tom J., Cordey, Samuel, Padioleau, Ismael, Docquier, Mylène, Turin, Lara, Preynat-Seauve, Olivier, Zdobnov, Evgeny M., Kaiser, Laurent, Loeffelholz, M. J.

Journal:

Journal of Clinical Microbiology

Year:

2014

Language:

english

File:

PDF, 2.85 MB

english, 2014

19

Repression of Arginase-2 Expression in Dendritic Cells by MicroRNA-155 Is Critical for Promoting T Cell Proliferation

Dunand-Sauthier, I., Irla, M., Carnesecchi, S., Seguin-Estevez, Q., Vejnar, C. E., Zdobnov, E. M., Santiago-Raber, M.-L., Reith, W.

Journal:

The Journal of Immunology

Year:

2014

Language:

english

File:

PDF, 1.54 MB

english, 2014

20

OrthoDB v8: update of the hierarchical catalog of orthologs and the underlying free software

Kriventseva, E. V., Tegenfeldt, F., Petty, T. J., Waterhouse, R. M., Simao, F. A., Pozdnyakov, I. A., Ioannidis, P., Zdobnov, E. M.

Journal:

Nucleic Acids Research

Year:

2015

Language:

english

File:

PDF, 1.22 MB

english, 2015

21

Comparative Genome and Proteome Analysis of Anopheles gambiae and Drosophila melanogaster

Journal:

Year:

2002

Language:

english

File:

PDF, 435 KB

english, 2002

22

OrthoDB: a hierarchical catalog of animal, fungal and bacterial orthologs

Waterhouse, R. M., Tegenfeldt, F., Li, J., Zdobnov, E. M., Kriventseva, E. V.

Journal:

Nucleic Acids Research

Year:

2013

Language:

english

File:

PDF, 3.51 MB

english, 2013

23

The cis-acting replication elements define human enterovirus and rhinovirus species

Cordey, S., Gerlach, D., Junier, T., Zdobnov, E. M., Kaiser, L., Tapparel, C.

Journal:

Year:

2008

Language:

english

File:

PDF, 898 KB

english, 2008

24

Genome evolution reveals biochemical networks and functional modules

von Mering, C., Zdobnov, E. M., Tsoka, S., Ciccarelli, F. D., Pereira-Leal, J. B., Ouzounis, C. A., Bork, P.

Journal:

Proceedings of the National Academy of Sciences

Year:

2003

Language:

english

File:

PDF, 580 KB

english, 2003

25

The EBI SRS server--recent developments

Zdobnov, E. M., Lopez, R., Apweiler, R., Etzold, T.

Journal:

Year:

2002

Language:

english

File:

PDF, 801 KB

english, 2002

26

OrthoDB: the hierarchical catalog of eukaryotic orthologs in 2011

Waterhouse, R. M., Zdobnov, E. M., Tegenfeldt, F., Li, J., Kriventseva, E. V.

Journal:

Nucleic Acids Research

Year:

2011

Language:

english

File:

PDF, 3.80 MB

english, 2011

27

Comparative genomic analysis in the region of a major Plasmodium-refractoriness locus of Anopheles gambiae

Thomasova, D., Ton, L. Q., Copley, R. R., Zdobnov, E. M., Wang, X., Hong, Y. S., Sim, C., Bork, P., Kafatos, F. C., Collins, F. H.

Journal:

Proceedings of the National Academy of Sciences

Year:

2002

Language:

english

File:

PDF, 483 KB

english, 2002

28

OrthoDB: the hierarchical catalog of eukaryotic orthologs

Kriventseva, E. V., Rahman, N., Espinosa, O., Zdobnov, E. M.

Journal:

Nucleic Acids Research

Year:

2007

Language:

english

File:

PDF, 2.59 MB

english, 2007

29

Experimental Evidence for Slipped Loop DNA, a Novel Folding Type for Polynucleotide Chain

Minyat, Elvira E., Khomyakova, Elena B., Petrova, Maria V., Zdobnov, Evgenyi M., Ivanov, Valery I.

Journal:

Journal of Biomolecular Structure and Dynamics

Year:

1995

Language:

english

File:

PDF, 348 KB

english, 1995

30

The EBI SRS server--new features

Zdobnov, E. M., Lopez, R., Apweiler, R., Etzold, T.

Journal:

Year:

2002

Language:

english

File:

PDF, 136 KB

english, 2002

31

E119D Neuraminidase Mutation Conferring Pan-Resistance to Neuraminidase Inhibitors in an A(H1N1)pdm09 Isolate From a Stem-Cell Transplant Recipient

L'Huillier, Arnaud G., Abed, Yacine, Petty, Tom J., Cordey, Samuel, Thomas, Yves, Bouhy, Xavier, Schibler, Manuel, Simon, Audrey, Chalandon, Yves, van Delden, Christian, Zdobnov, Evgeny, Boquete-Suter

Journal:

The Journal of Infectious Diseases

Year:

2015

Language:

english

File:

PDF, 1.08 MB

english, 2015

32

Loss of Dicer in Sertoli Cells Has a Major Impact on the Testicular Proteome of Mice

Papaioannou, M. D., Lagarrigue, M., Vejnar, C. E., Rolland, A. D., Kuhne, F., Aubry, F., Schaad, O., Fort, A., Descombes, P., Neerman-Arbez, M., Guillou, F., Zdobnov, E. M., Pineau, C., Nef, S.

Journal:

Molecular & Cellular Proteomics

Year:

2011

Language:

english

File:

PDF, 1.97 MB

english, 2011

33

miRmap: Comprehensive prediction of microRNA target repression strength

Vejnar, C. E., Zdobnov, E. M.

Journal:

Nucleic Acids Research

Year:

2012

Language:

english

File:

PDF, 901 KB

english, 2012

34

Interactive InterPro-based comparisons of proteins in whole genomes

Kanapin, A., Apweiler, R., Biswas, M., Fleischmann, W., Karavidopoulou, Y., Kersey, P., Kriventseva, E. V., Mittard, V., Mulder, N., Oinn, T., Phan, I., Servant, F., Zdobnov, E.

Journal:

Year:

2002

Language:

english

File:

PDF, 139 KB

english, 2002

35

The Newick utilities: high-throughput phylogenetic tree processing in the UNIX shell

Junier, T., Zdobnov, E. M.

Journal:

Year:

2010

Language:

english

File:

PDF, 124 KB

english, 2010

36

miROrtho: computational survey of microRNA genes

Gerlach, D., Kriventseva, E. V., Rahman, N., Vejnar, C. E., Zdobnov, E. M.

Journal:

Nucleic Acids Research

Year:

2009

Language:

english

File:

PDF, 2.59 MB

english, 2009

37

Integration of microRNA miR-122 in hepatic circadian gene expression

Gatfield, D., Le Martelot, G., Vejnar, C. E., Gerlach, D., Schaad, O., Fleury-Olela, F., Ruskeepaa, A.-L., Oresic, M., Esau, C. C., Zdobnov, E. M., Schibler, U.

Journal:

Genes & Development

Year:

2009

Language:

english

File:

PDF, 1.20 MB

english, 2009

38

Identification of Site-Specific Adaptations Conferring Increased Neural Cell Tropism during Human Enterovirus 71 Infection

Cordey, Samuel, Petty, Tom J., Schibler, Manuel, Martinez, Yannick, Gerlach, Daniel, van Belle, Sandra, Turin, Lara, Zdobnov, Evgeny, Kaiser, Laurent, Tapparel, Caroline, Semler, Bert L.

Journal:

Year:

2012

Language:

english

File:

PDF, 3.55 MB

english, 2012

39

Functional Characterization of Transcription Factor Motifs Using Cross-species Comparison across Large Evolutionary Distances

Kim, Jaebum, Cunningham, Ryan, James, Brian, Wyder, Stefan, Gibson, Joshua D., Niehuis, Oliver, Zdobnov, Evgeny M., Robertson, Hugh M., Robinson, Gene E., Werren, John H., Sinha, Saurabh, Wasserman, W

Journal:

PLoS Computational Biology

Year:

2010

Language:

english

File:

PDF, 899 KB

english, 2010

40

miRmap web: comprehensive microRNA target prediction online

Vejnar, C. E., Blum, M., Zdobnov, E. M.

Journal:

Nucleic Acids Research

Year:

2013

Language:

english

File:

PDF, 1.90 MB

english, 2013

41

Clinical features and viral kinetics in a rapidly cured patient with Ebola virus disease: a case report

Schibler, Manuel, Vetter, Pauline, Cherpillod, Pascal, Petty, Tom J, Cordey, Samuel, Vieille, Gaël, Yerly, Sabine, Siegrist, Claire-Anne, Samii, Kaveh, Dayer, Julie-Anne, Docquier, Mylène, Zdobnov, Ev

Journal:

The Lancet Infectious Diseases

Year:

2015

Language:

english

File:

PDF, 936 KB

english, 2015

42

Protein coding potential of retroviruses and other transposable elements in vertebrate genomes

Journal:

Nucleic Acids Research

Year:

2005

Language:

english

File:

PDF, 467 KB

english, 2005

43

Toscana virus meningitis case in Switzerland: an example of the ezVIR bioinformatics pipeline utility for the identification of emerging viruses

Cordey, S., Bel, M., Petty, T.J., Docquier, M., Sacco, L., Turin, L., Cherpillod, P., Emonet, S., Louis-Simonet, M., Zdobnov, E.M., Ambrosioni, J., Kaiser, L.

Journal:

Clinical Microbiology and Infection

Year:

2015

Language:

english

File:

PDF, 460 KB

english, 2015

44

CEGA—a catalog of conserved elements from genomic alignments

Dousse, Aline, Junier, Thomas, Zdobnov, Evgeny M.

Journal:

Nucleic Acids Research

Year:

2016

Language:

english

File:

PDF, 1.88 MB

english, 2016

45

Correlating Traits of Gene Retention, Sequence Divergence, Duplicability and Essentiality in Vertebrates, Arthropods, and Fungi

Waterhouse, R. M., Zdobnov, E. M., Kriventseva, E. V.

Journal:

Genome Biology and Evolution

Year:

2011

Language:

english

File:

PDF, 774 KB

english, 2011

46

Impact of highly active antiretroviral therapy on the molecular epidemiology of newly diagnosed HIV infections

Ambrosioni, Juan, Junier, Thomas, Delhumeau, Cécile, Calmy, Alexandra, Hirschel, Bernard, Zdobnov, Evgeny, Kaiser, Laurent, Yerly, Sabine

Journal:

Year:

2012

Language:

english

File:

PDF, 283 KB

english, 2012

47

Astrovirus VA1 identified by next-generation sequencing in a nasopharyngeal specimen of a febrile Tanzanian child with acute respiratory disease of unknown etiology

Cordey, Samuel, Brito, Francisco, Vu, Diem-Lan, Turin, Lara, Kilowoko, Mary, Kyungu, Esther, Genton, Blaise, Zdobnov, Evgeny M, D'Acremont, Valérie, Kaiser, Laurent

Journal:

Emerging Microbes & Infections

Year:

2016

File:

PDF, 38 KB

2016

48

Astrovirus VA1 identified by next-generation sequencing in a nasopharyngeal specimen of a febrile Tanzanian child with acute respiratory disease of unknown etiology

Cordey, Samuel, Brito, Francisco, Vu, Diem-Lan, Turin, Lara, Kilowoko, Mary, Kyungu, Esther, Genton, Blaise, Zdobnov, Evgeny M, D’Acremont, Valérie, Kaiser, Laurent

Journal:

Emerging Microbes & Infections

Year:

2016

Language:

english

File:

PDF, 677 KB

english, 2016

49

Understanding key features of bacterial restriction-modification systems through quantitative modeling

Rodic, Andjela, Blagojevic, Bojana, Zdobnov, Evgeny, Djordjevic, Magdalena, Djordjevic, Marko

Journal:

BMC Systems Biology

Year:

2017

Language:

english

File:

PDF, 1.81 MB

english, 2017

50

Metagenomics analysis of red blood cell and fresh-frozen plasma units

Lau, Pierre, Cordey, Samuel, Brito, Francisco, Tirefort, Diderik, Petty, Thomas J., Turin, Lara, Guichebaron, Arthur, Docquier, Mylène, Zdobnov, Evgeny M., Waldvogel-Abramowski, Sophie, Lecompte, Thom

Journal:

Transfusion (Elsevier)

Year:

2017

Language:

english

File:

PDF, 487 KB

english, 2017