Gerber:Publications

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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) RIPchipSRM, a new combinatorial large scale approach identifies a set of translationally regulated bantam/miR58 targets in C. elegans. Genome Res. (epub 27. March 2012).
-
1. 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
+
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.
-
2. 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.
+
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.
-
3. Galgano, A., Gerber, A.P. (2010) RNA-binding protein immunopurification-microarray (RIP-Chip) analysis to profile localized RNAs. Methods Mol. Biol., in press.
+
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.
-
4. 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).
+
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.
-
5. Kanitz, A., Gerber, A.P. (2010) Circuitry of mRNA regulation. Wiley Interdiscip. Rev. Syst. Biol. Med. 2, 245-251 (epub 30. Sept. 2009)
+
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.
-
6. 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.
+
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.
-
7. 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.
+
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).
-
8. Halbeisen, R.E., Scherrer, T., Gerber, A.P. (2009) Affinity purification of ribosomes to access the translatome. Methods 48, 306-10.
+
26. Kanitz, A., Gerber, A.P. (2010) Circuitry of mRNA regulation. Wiley Interdiscip. Rev. Syst. Biol. Med. 2, 245-251 (epub 30. Sept. 2009).
-
9. Halbeisen, R.E., Gerber, A.P. (2009) Stress-dependent coordination of transcriptome and translatome in yeast. PLoS Biol. 7, e105.
+
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.
-
10. 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.
+
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.
-
11. 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.
+
23. Halbeisen, R.E., Scherrer, T., Gerber, A.P. (2009) Affinity purification of ribosomes to access the translatome. Methods 48, 306-10.
-
12. 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.
+
22. Halbeisen, R.E., Gerber, A.P. (2009) Stress-dependent coordination of transcriptome and translatome in yeast. PLoS Biol. 7, e105.
-
13. 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.
+
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.
-
14. 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).
+
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.
-
15. 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. 
+
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.
-
16. Gerber, A., (2006) Pharmakogenomik im Modell der Hefe. Bioworld. 01, 2-3.
+
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. 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.
+
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).
-
18. 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.
+
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. 
-
19. 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.
+
15. Gerber, A., (2006) Pharmakogenomik im Modell der Hefe. Bioworld. 01, 2-3.
-
20. Wolf, J., Gerber, A.P., Keller, W. (2002) tadA, an essential tRNA-specific adenosine deaminase from Escherichia coli. EMBO J. 21, 3841-51.
+
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.
-
21. Gerber, A.P., Keller W. (2001) RNA editing by base deamination: more enzymes, more targets, new mysteries. Trends Biochem. Sci. 26, 376-84.
+
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.
-
22. 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.
+
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.
-
23. 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.
+
11. Wolf, J., Gerber, A.P., Keller, W. (2002) tadA, an essential tRNA-specific adenosine deaminase from Escherichia coli. EMBO J. 21, 3841-51.
-
24. Gerber, A.P., Keller, W. (1999) An adenosine deaminase that generates inosine at the wobble position of tRNAs. Science 286, 1146-1149.
+
10. Gerber, A.P., Keller W. (2001) RNA editing by base deamination: more enzymes, more targets, new mysteries. Trends Biochem. Sci. 26, 376-84.
-
25. Keller, W., Wolf, J., Gerber, A. (1999) Enzymatic formation of inosine in pre-mRNA and tRNA by adenosine deamination. FEBS Lett. 452, 71-76.
+
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.
-
26. 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.
+
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.
-
27. 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.
+
7. Gerber, A.P., Keller, W. (1999) An adenosine deaminase that generates inosine at the wobble position of tRNAs. Science 286, 1146-1149.
-
28. 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.
+
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.
-
29. 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.
+
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.
-
30. 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.
+
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.

Revision as of 06:01, 2 May 2012


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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) RIPchipSRM, a new combinatorial large scale approach identifies a set of translationally regulated bantam/miR58 targets in C. elegans. Genome Res. (epub 27. March 2012).

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.
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