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65. Santos J.S., Petsidou, E., Saraogi, P., Bartsch, U., Gerber, A.P., Seibt, J. (2023) Effect of Acute Enriched Environment Exposure on Brain Oscillations and Activation of the Translation Initiation Factor 4E-BPs at Synapses across Wakefulness and Sleep in Rats. Cells, 12(18), 2320.

64. Bohmann, D., O’Connell, M.A., Frendewey, D., Gerber, A., Hernandez, N., Krämer, A., Minvielle-Sebastia, L., Shaw, P., Wahle, E., Zavolan, M. (2023) Walter Keller (1938-2023): a tribute from his mentees. RNA, 29(9):v-xiii. doi: 10.1261/rna.079742.123

63. Shiu, P.K.T., Ilieva, M., Holm, A., Uchida, S., DiStefano, J.K., Bronisz, A., Yang, L., Asahi, Y., Goel, A., Yang, L., Nuthanakanti, A., Serganov, A., Alahari, S.K., Lin, C., Pardini, B., Naccarati, A., Jin, J., Armanios, B., Zhong, X., Sideris, N., Bayraktar, S., Castellano, L., Gerber, A.P., Lin, H., Conn, S.J., Sleem, D.M.M., Timmons, L. (2023) The Non-Coding RNA Journal Club: Highlights on Recent Papers—12. Non-coding RNA, 9, 28.

62. Winksy-Sommerer, R., King, H.A., Iadevaia, V., Möller-Levet, C., Gerber, A.P. (2023) A post-transcriptional regulatory landscape of aging in the female mouse hippocampus. Front. Aging Neurosci., 15.

61. Gerber, A.P., Tartaglia, G.G. (2023) Editorial: Insights into RNA networks and biology. Front. Mol. Biosci, 10.

60. Martino, F., Varadarajan, N.M., Perestrelo, A.R., Hejret, V., Durikova, H., Vukic, D., Horvath, V., Cavalieri, F., Caruso, F., Albihlal, W.S., Gerber, A.P., O’Connell, M.A., Vanacova, S., Pagliari, S., Forte, G. (2022) The mechanical regulation of RNA binding protein hnRNPC in the failing heart. Sci. Transl. Med. 14(672):eabo5715. doi: 10.1126/scitranslmed.abo5715.

59. Buchanan, I.S., Smith, T.M., Gerber, A.P.*, Seibt, J.* (2022) Are there roles for heterogeneous ribosomes during sleep in the rodent brain? Front. Mol. Biosci. Oct 6;9:1008921. doi: 10.3389/fmolb.2022.1008921.

58. Rajasekaran, S., Khan, E., Ching, S.R., Khan, M., Siddiqui, J.K., Gradia, D.F., Bouley, S.J., Mercadante, D.L, Manning, A.L., Gerber, A.P., Walker, J.A., Miles, W.O. (2022) PUMILIO competes with AUF1 to control DICER1 RNA levels and miRNA processing. Nucleic Acids Res. 50(12), 7048-66. doi: 10.1093/nar/gkac499.

57. Clarke-Whittet, M., Rocco, A.*, Gerber, A.P.* (2022) Parameterising Translational Feedback Models of Autoregulatory RNA-binding Proteins in Saccharomyces cerevisiae. Microorganisms, 10(2), 340.

56. Pinzon Cortes, J.A., El-Osta, A., Fontemaggi, G., Delihas, N., Miyazaki, K., Goel, A., Brazane, M., Carré, C., Dama P., Bayraktar S., Castellano, L., Enguita F.J., Mitic, T., Caporali, A., Gerber, A.P., Amodio, N. (2022) The Non-Coding RNA Journal Club: Highlights on Recent Papers-10. Non-coding RNA, 8(1), 3.

55. Matia-González, A.M., Jabre, I., Gerber, A.P. (2021) Biochemical approach for isolation of polyadenylated RNA with bound proteins from yeast. STAR Protoc., 2, 100929. DOI: 10.1016/j.xpro.2021.100929

54. Rogoyski, O., Gerber, A.P. (2021) RNA-binding proteins modulate drug sensitivity of cancer cells. Emerg. Top. Life Sci. Jul 30:ETLS20210193. doi: 10.1042/ETLS20210193.

53. Matia-González, A.M., Jabre, I., Laing, E.E., Gerber, A.P. (2021) Oxidative stress induces coordinated remodelling of RNA-enzyme interactions. iScience, 24(7), 102753. doi: 10.1016/j.isci.2021.102753.

52. Oliveira, C., Gerber, A.P., Goldenberg, S., Alves, L.R. (2021) Characterization of the RNA-Binding protein TcSgn1 in Trypanosoma cruzi. Microorganisms, 9(5), 986. doi: 10.3390/microorganisms9050986.

51. Gerber, A.P. (2021) RNA-Centric Approaches to Profile the RNA-protein interaction Landscape on Selected RNAs. Non-coding RNA, 15(7), 11. doi: 10.3390/ncrna7010011

50. Iadevaia, V., Wouters, M.D., Kanitz, A., Matia-González, A.M., Laing, E.E., Gerber, A.P. (2020) Tandem RNA isolation reveals functional rearrangement of RNA-binding proteins on CDKN1B/p27Kip1 3’UTRs in cisplatin treated cells. RNA Biol. 2020 Jan;17(1):33-46. doi: 10.1080/15476286.2019.1662268.

49. Sendoel, A., Subasic, D., Ducoli, L., Keller, M., Michel, E., Kohler, I., Singh, K.D., Zheng, X., Brümmer, A., Imig, J., Kishore, S., Wu, Y., Kanitz, A., Kaech, A., Mittal, N., Matia-González, A.M., Gerber, A.P., Zavolan, M., Aebersold, R., Hall, J., Allain, F.H., Hengartner, M.O. (2019) MINA-1 and WAGO-4 are part of regulatory network coordinating germ cell death and RNAi in C. elegans. Cell Death Differ. 26(10), 2157-2178. doi: 10.1038/s41418-019-0291-z.

48. Zavolan, M., Gerber, A.P. (2018) Mirroring the multifaceted role of RNA and its partners in gene expression. FEBS Lett. 592(17), 2825-2827. doi: 10.1002/1873-3468.13230.

47. Albihlal, W.A., Gerber, A.P. (2018) Unconventional RNA-binding proteins: an uncharted zone in RNA biology. FEBS Lett. 592(17), 2917-2931. doi: 10.1002/1873-3468.13161.

46. Iadevaia, V. Matia-González, A.M, Gerber, A.P. (2018) An oligonucleotide-based tandem RNA isolation procedure to recover eukaryotic mRNA-protein complexes. J. Vis. Exp. 138. doi: 10.3791/58223.

45. King, H.A., El-Sharif, H.F., Matia-González, A.M., Iadevaia, V., Fowotade, A., Reddy, S.M., Gerber, A.P. (2017) Generation of ribosome imprinted polymers for sensitive detection of translational responses. Sci. Rep. 7(1), 6542. doi: 10.1038/s41598-017-06970-x.

44. Matia-González, A.M., Iadevaia, V., Gerber, A.P. (2017) A versatile tandem RNA isolation procedure to capture in vivo formed mRNA-protein complexes. Methods, 118-119, 93-100. (epub Oct 13, 2016. pii: S1046-2023(16)30343-7. doi: 10.1016/j.ymeth.2016.10.005.

43. Subasic, D., Stoeger, T., Eisenring, S., Matia-González, A.M., Imig, J., Zheng, X., Xiong, L., Gisler, P., Eberhard, R., Holtackers, R., Gerber, A.P., Pelkmans, L., Hengartner M.O. (2016) Post-transcriptional control of executioner caspases by RNA-binding proteins. Genes Dev. 30, 2213-25. doi: 10.1101/gad.285726.116.

42. King, H.A., Gerber, A.P. (2016) Translatome profiling: methods for genome-scale analysis of mRNA translation. Brief. Funct. Genomics, 15(1), 22-31. doi: 10.1093/bfgp/elu045 (epub 6. Nov. 2014)

41. Matia-González, A.M., Laing, E.E., Gerber, A.P. (2015) Conserved mRNA-binding proteomes in eukaryotic organisms. Nat. Struct. Mol. Biol. 22(12), 1027-33. doi: 10.1038/nsmb.3128

40. Iadevaia, V., Gerber, A.P. (2015) Combinatorial Control of mRNA Fates by RNA-Binding Proteins and Non-Coding RNAs. Biomolecules, 5(4), 2207-22. doi:10.3390/biom5042207

39. Imig, J., Brunschweiger, A., Brümmer, A., Guennewig, B., Mittal, N., Kishore, S., Tsikrika, P., Gerber, A.P., Zavolan, M., Hall, J. (2015) MiR-CLIP capture of a miRNA targetome uncovers a lincRNA H19-miR-106a interaction. Nat. Chem. Biol., 11(2), 107-14. doi: 10.1038/nchembio.1713 (epub 22. Dec. 2014)

38. Matia-González A.M., Gerber, A.P. (2014) Approaches for Dissecting RNA-Binding Protein Networks. In Fungal RNA Biology, A. Sesma and T. von der Haar, eds. Springer International Publishing, pp. 347-370.

37. Towbin, H., Wenter, P., Guennewig, B., Imig, J., Zagalak, J.A., Gerber, A.P., Hall, J. (2013) Systematic screens of proteins binding to synthetic microRNA precursors. Nucleic Acids Res., 41(3), e47 (epub 5. Dec. 2012).

36. Kanitz, A., Imig, J., Dziunycz, P.J., Galgano, A., Hofbauer G.F.L., Gerber, A.P.*, Detmar, M.* (2012) The Expression Levels of MicroRNA-361-5p and Its Target VEGFA Are Inversely Correlated in Human Cutaneous Squamous Cell Carcinoma. PLoS ONE, 7(11), e49568.35.

35. Imig, J., Kanitz, A., Gerber, A.P. (2012) RNA regulons and the RNA-protein interaction network. Biomol. Concepts, 3(4), 403-417.(2012)

34. Jovanovic,, M., Reiter, L., Clark, A., Weiss, M., Picotti, P., Rehrauer, H., Frei, A., Neukomm, L.J., Kaufman, E., Wollscheid, B., Simard, M.J., Miska, E., Aebersold,, R.*, Gerber, A.P.*, Hengartner, M.O.* (2012) RIP-chip-SRM--a new combinatorial large-scale approach identifies a set of translationally regulated bantam/miR-58 targets in C. elegans. Genome Res. 22, 1360-71 (epub 27. March).

33. Schenk, L., Meinel, D.L., Strässer, K., Gerber, A.P. (2012) La-motif dependent mRNA association with Slf1 promotes copper detoxification in yeast. RNA, 18, 449-61.

32. Azzouzi, I., Moest, H., Winkler, J., Fauchère, J.-C., Gerber, A.P., Wollscheid, B., Stoffel, M., Schmugge, M., Speer, O. (2011) MicroRNA-96 directly inhibits gamma-globin expression in human erythropoiesis. PLoS ONE, 6, e22838.

31. Mittal, N., Scherrer, T., Gerber, A.P., Janga, S.C. (2011) Interplay between post-transcriptional and post-translational interactions of RNA-binding proteins. J. Mol. Biol., 409, 466-79.

30. Galgano, A., Gerber, A.P. (2011) RNA-binding protein immunopurification-microarray (RIP-Chip) analysis to profile localized RNAs. Methods Mol. Biol. 714, 369-385.

29. Scherrer, T., Femmer, C., Schiess, R., Aebersold, R., Gerber, A.P. (2011) Defining potentially conserved RNA regulons of homologous zinc-finger RNA-binding proteins. Genome Biol. 12, R3.

28. Scherrer, T., Mittal, N., Janga, S.C., Gerber, A.P. (2010) A screen for RNA-binding proteins in yeast indicates dual functions for many enzymes. PLoS ONE 5, e15499.

27. Eliyahu, E., Pnueli, L., Melamed, D., Scherrer, T., Gerber, A.P., Pines, O., Rapaport, D., Arava Y. (2010) Tom20 mediates localization of mRNAs to mitochondria in a translation-dependent manner. Mol. Cell. Biol. 30, 284-294 (epub 23. Oct. 2009).

26. Kanitz, A., Gerber, A.P. (2010) Circuitry of mRNA regulation. Wiley Interdiscip. Rev. Syst. Biol. Med. 2, 245-251 (epub 30. Sept. 2009).

25. Halbach, A., Zhang, H., Wengi A., Jablonska, Z., Gruber, I.M., Halbeisen, R.E., Dehé, P-M., Kemmeren, P, Holstege, F., Géli, V., Gerber, A.P., Dichtl, B. (2009) Cotranslational assembly of the yeast SET1C histone methyltransferase complex. EMBO J. 28, 2959-2970.

24. San Paolo, S., Vanacova, S., Schenk, L., Scherrer, T., Blank, D., Keller, W.*, Gerber, A.P.* (2009) Distinct roles of non-canonical poly(A) polymerases in RNA metabolism. PLoS Genet. 5, e1000555.

23. Halbeisen, R.E., Scherrer, T., Gerber, A.P. (2009) Affinity purification of ribosomes to access the translatome. Methods 48, 306-10.

22. Halbeisen, R.E., Gerber, A.P. (2009) Stress-dependent coordination of transcriptome and translatome in yeast. PLoS Biol. 7, e105.

21. Hogan, D.J., Riordan, D.P., Gerber, A.P.*, Herschlag, D.*, Brown, P.O.* (2008) Diverse RNA-binding proteins interact with functionally related sets of RNAs, suggesting an extensive regulatory system. PLoS Biol. 6, e255.

20. Galgano, A., Forrer, M., Jaskiewicz, L., Kanitz, A., Zavolan, M., Gerber, A.P. (2008) Comparative analysis of mRNA targets for human PUF-family proteins suggests extensive interaction with the miRNA regulatory system. PLoS ONE 3, e3164.

19. Hasegawa, Y., Irie, K., Gerber, A.P. (2008) Distinct roles for Khd1p in the localization and expression of bud-localized mRNAs in yeast. RNA 14, 2333-2347.

18. Muraro, N.I., Weston, A.J., Gerber, A.P., Luschnig, S., Moffat, K.G., Baines, R.A. (2008) Pumilio binds para mRNA and requires Nanos and Brat to regulate sodium current in Drosophila motoneurons. J. Neurosci. 28, 2099-2109.

17. Halbeisen, R.E., Galgano, A., Scherrer, T., Gerber A.P. (2008) Post-transcriptional gene regulation: From genome-wide studies to principles. Cell Mol Life Sci. 65, 798-813 (epub 27. Nov. 2007).

16. Gerber, A.P. (2007) Coordination of functionally related mRNAs by RNA-binding proteins. In Leading-Edge Messenger RNA Research Communications, M. H. Ostrovskiy, ed. Nova Science Publishers, pp. 79-91. 

15. Gerber, A. (2006) Pharmakogenomik im Modell der Hefe. Bioworld. 01, 2-3.

14. Gerber, A.P.*, Luschnig, S., Krasnow, M.A., Brown, P.O.*, Herschlag D.* (2006) Genome-wide identification of mRNAs associated with the translational regulator PUMILIO in Drosophila melanogaster. Proc. Natl. Acad. Sci. USA. 103, 4487-4492.

13. Gerber, A.P., Herschlag, D., Brown, P.O. (2004) Extensive association of functionally and cytotopically related mRNAs with Puf family RNA-binding proteins in yeast. PLoS Biol. 2(3), e79.

12. Shepard, K.A., Gerber, A.P., Jambhekar, A., Takizawa, P.A., Brown, P.O., Herschlag, D., DeRisi, J.L., Vale, R.D. (2003) Widespread cytoplasmic mRNA transport in yeast: Identification of 22 bud-localized transcripts using DNA microarray analysis. Proc. Natl. Acad. Sci. USA. 100, 11429-11434.

11. Wolf, J., Gerber, A.P., Keller, W. (2002) tadA, an essential tRNA-specific adenosine deaminase from Escherichia coli. EMBO J. 21, 3841-51.

10. Gerber, A.P., Keller W. (2001) RNA editing by base deamination: more enzymes, more targets, new mysteries. Trends Biochem. Sci. 26, 376-84.

9. Keegan, L. P., Gerber, A.P., Brindle, J., Leemans, R., Gallo, A., Keller, W., O'Connell. M.A. (2000) The properties of a tRNA-specific adenosine deaminase from Drosophila melanogaster support an evolutionary link between pre-mRNA editing and tRNA modification. Mol. Cell. Biol. 20, 825-833.

8. Paupard, M.-C., O'Connell, M.A., Gerber, A.P., Zukin, R.S. (2000) Patterns of developmental expression of the RNA editing enzyme rADAR2. Neuroscience 95, 869-879.

7. Gerber, A.P., Keller, W. (1999) An adenosine deaminase that generates inosine at the wobble position of tRNAs. Science 286, 1146-1149.

6. Keller, W., Wolf, J., Gerber, A. (1999) Enzymatic formation of inosine in pre-mRNA and tRNA by adenosine deamination. FEBS Lett. 452, 71-76.

5. Maas, S., Gerber, A.P., Rich, A. (1999) Identification and characterization of a human tRNA-specific adenosine deaminase related to the ADAR family of pre-mRNA editing enzymes. Proc. Natl. Acad. Sci. USA. 96, 8895-8900.

4. Gerber, A., Grosjean, H., Melcher, T., Keller, W. (1998) Tad1p, a yeast tRNA-specific adenosine deaminase, is related to the mammalian pre-mRNA editing enzymes ADAR1 and ADAR2. EMBO J. 17, 4780-4789.

3. O'Connell, M.A., Gerber, A., Keegan, L.P. (1998) Purification of native and overexpression of recombinant dsRNA-specific adenosine deaminases. Methods 15, 51-62.

2. Gerber, A., O'Connell, M.A., Keller, W. (1997) Two forms of human double-stranded RNA-specific editase 1 (hRED1) generated by the insertion of an Alu cassette. RNA 3, 453-463.

1. O'Connell, M.A., Gerber, A., Keller, W. (1997) Purification of human double-stranded RNA-specific editase 1 (hRed1) involved in editing of brain glutamate receptor B pre-mRNA. J. Biol. Chem. 272, 473-478.

*shared correspondence