1. Roth, D.B., and J.H. Wilson (1985). Relative rates of homologous and nonhomologous recombination in transfected DNA. Proc. Natl. Acad. Sci. USA May 82:3355-3359.

2. Roth, D.B., and T.N. Porter, and J.H. Wilson (1985). Mechanisms of nonhomologous recombination in mammalian cells. Mol. Cell. Biol. Oct 5:2599-2607.

3. Yeung, C.-Y., D.E. Ingolia, D.B. Roth, C. Shoemaker, M. Al-Ubaidi, J.-Y. Yen, C. Ching, C. Bobonis, R. J. Kauffman, and R. E. Kellems (1985). Identification of functional murine adenosine deaminase cDNA clones by complementation in Escherichia coli. J. Biol. Chem. Aug 260:10299-10307.

4. Roth, D.B., and J.H. Wilson (1986). Nonhomologous recombination in mammalian cells: a role for short sequence homologies in the joining reaction. Mol. Cell. Biol. Dec 6:4295-4304.

5. Roth, D.B., X.-B. Chang, and J.H. Wilson (1989). Comparison of filler DNA at immune, nonimmune and oncogenic rearrangements suggests multiple mechanisms of formation. Mol. Cell. Biol. Jul 9:3049-3057.

6. Roth, D.B., N. Proctor, L. Stewart, and J.H. Wilson (1991). Oligonucleotide capture during end joining in mammalian cells. Nucleic Acids Res. Dec 19:7201-7205.

7. Roth, D.B., P.B. Nakajima, J.P. Menetski, M.J. Bosma, and M. Gellert (1992). V(D)J recombination in mouse thymocytes: double strand breaks near T cell receptor d rearrangement signals. Cell Apr 69:41-53.

8. Roth, D.B., J.P. Menetski, P.B. Nakajima, M.J. Bosma, and M. Gellert (1992). V(D)J recombination: broken DNA molecules with covalently sealed (hairpin) coding ends in scid mouse thymocytes. Cell Sep 70:983-991.

9. Roth, D.B., P.B. Nakajima, J.P. Menetski, M.J. Bosma, and M. Gellert (1992). Double-strand breaks associated with V(D)J recombination at the TCRd locus in murine thymocytes. Curr. Top. Microbiol. Immunol. 182:115-124

10. Roth, D.B., Zhu C., and M. Gellert (1993). Characterization of broken DNA molecules associated with V(D)J recombination. Proc. Natl. Acad. Sci. USA 90:10788-10792.

11. Roth, D.B., T. Lindahl, and M. Gellert (1995). How to make ends meet. Current Biology May 5:496-499.

12. Zhu, C. and D.B. Roth (1995). Characterization of coding ends in thymocytes of scid mice: implications for the mechanism of V(D)J recombination. ImmunityJan 2:101-112.

13. Nakajima, P.B., J.P. Menetski, D.B. Roth, M. Gellert, and M.J. Bosma (1995). V-D-J rearrangements at the T cell receptor d locus in mouse thymocytes of the ab lineage. Immunity Nov 3: 609-621.

14. Kabotyanski, E.B., C. Zhu, and D.B. Roth (1995). Opening of DNA hairpins by single-strand specific nucleases. Nucleic Acids Research Oct 23:3872-3881.

15. Steen, S.B., C. Zhu, and D.B. Roth (1996). Double-strand breaks, DNA hairpins, and the mechanism of V(D)J recombination. Curr. Top. Microbiol. Immunol. 217: 61-77.

16. Merrihew, R.V., K. Marburger, S.L. Pennington, D.B. Roth, and J.H. Wilson. (1996). High-frequency integration of transfected DNA at unstable sites in the mammalian genome. Mol. Cell. Biol. 16:10-18.

17. Bogue, M., C. Zhu, E. Aguilar-Cordova, L.A. Donehower, and D.B. Roth (1996). p53 is required for both radiation-induced differentiation and rescue of V(D)J rearrangement in scid mouse thymocytes. Genes & Development Mar 10:553-565.

18. Steen, S.B., L. Gomelsky, and D.B. Roth (1996). The 12/23 rule is enforced at the cleavage step of V(D)J recombination in vivo. Genes to Cells Jun 1:543-553.

19. Zhu, C., M.A. Bogue, D.-S. Lim, P. Hasty and D.B. Roth (1996). Ku86-deficient mice exhibit severe combined immunodeficiency and defective processing of V(D)J recombination intermediates. Cell Aug 86:379-389.

20. Zhu, C., M.A. Bogue, and D.B. Roth. (1996) Thymocyte differentiation in gamma-irradiated severe-combined immunodeficient mice: characterization of intermediates and products of V(D)J recombination at the T cell receptor d locus. European Journal of Immunol. Dec 26:2859-2865.

21. M. Bogue and D.B. Roth (1996). Mechanism of V(D)J recombination. Current Opinion in Immunology Apr 8:175-180.

22. Han, J.-O., S.B. Steen, and D.B. Roth. (1997) Ku86 is not required for protection of signal ends or for formation of hybrid junctions. Mol. Cell. Biol. Apr 17:2226-2234.

23. Steen, S.B., L. Gomelsky, S.L. Speidel, and D.B. Roth. (1997) Initiation of V(D)J recombination in vivo: role of recombination signal sequences in double-strand break formation. EMBO Journal May 16:2656-2664.

24. Wang, C., M.A. Bogue, D.B. Roth, and K. Meek. (1997) Normal junctional diversification of immune receptors in P53 deficient mice. Journal of Immunol. Jul 159:757-762.

25. Bogue, M., C. Wang, C. Zhu, and D.B. Roth. (1997) V(D)J recombination in Ku86-deficient mice: Distinct effects on coding, signal, and hybrid joint formation. Immunity Jul 7:37-47.

26. Gu, Y., K.J. Seidl, G.A. Rathbun, C. Zhu, J.P. Manis, N. van der Stoep, L. Davidson, H.-L. Cheng, J.M. Sekiguchi, K. Frank, P. Stanhope-Baker, M.S. Schlissel, D.B. Roth, and F. W. Alt. (1997) Growth retardation and leaky SCID phenotype of Ku70-deficient mice. Immunity Nov 7:653-665.

27. Han, J.-O., L.A. Erskine, M.M. Purugganan, T.D. Stamato, and D.B. Roth.(1998) V(D)J recombination intermediates and nonstandard products in XRCC4-deficient cells Nucleic Acids Research Aug 26:3769-3775.

28. Kabotyanski, E.B., L. Gomelsky, J.-O. Han, T.D. Stamato, and D.B. Roth. (1998) Double-strand break repair in Ku86- and XRCC4-deficient cells. Nucleic Acids Research Dec 26:5333-5349.

29. Bogue, M.A., Jhappan, C., D. B. Roth. (1998) Analysis of V(D)J recombination in DNA-PKcs-deficient mice reveals DNA-PK-independent pathways for both signal and coding joint formation. Proc. Natl. Acad. Sci. USA Dec 95:15559-15564.

30. Roth, D.B. and N. L. Craig. (1998). VDJ Recombination: A Transposase Goes to Work. Cell Aug 94, 411-414.

31. Han, J.-O., S.B. Steen, and D.B. Roth. (1999) Intermolecular V(D)J recombination is prohibited specifically at the joining step. Molecular Cell Mar 3:331-338.

32. Steen, S.B., J.-O. Han, C. Mundy, M.A. Oettinger, and D.B. Roth. (1999) Roles of the “dispensable” portions of RAG-1 and RAG-2 in V(D)J recombination. Mol Cell Biol. Apr 19:3010-3017.

33. Mickelsen, S., C. Snyder, K. Trujillo, M. Bogue, D.B. Roth, and K. Meek. (1999) Modulation of terminal deoxynucleotidyl transferase activity by the DNA-dependent protein kinase. J. Immunol. Jul 163:834-843.

34. Sun, T., R.E. Uthayashanker, L. Erskine, R. Agulo, G. Bozek, D.B. Roth, and U. Storb. (1999) Signal joint formation is inhibited in murine scid preB cells in substrates with homopolymeric coding ends: possible alternative roles of the SCID protein. Molecular Immunology Jun 36:551-558.

35. Wang, C., M. A. Bogue, J. M. Levitt, and D.B. Roth. (1999) Irradiation-mediated rescue of T cell-specific V(D)J recombination and thymocyte differentiation in severe combined immunodeficient mice by bone marrow cells. J. Exp. Med.,Nov 190:1257-1262.

36. Wang, C., M. A. Bogue, A.P. Nguyen, D.B. Roth. (1999) Irradiation-induced rescue of thymocyte differentiation and V(D)J recombination in mice lacking DNA-PKcs. J. Immunol.Dec 163:6065-6071.

37. Landree, M.A., J.A. Wibbenmeyer, D.B. Roth. (1999) Mutational analysis of RAG-1 and RAG-2 identifies three active site amino acids in RAG-1 critical for both cleavage steps of V(D)J recombination. Genes and Development Dec 13:3059-3069.

38. Lin, J., M.A. Landree, and D.B. Roth. (1999) V(D)J recombination catalyzed by mutant RAG proteins lacking consensus DNA-PK phosphorylation sites. Molecular Immunology 36:1263-1269.

39. Huye, L.E., J.-O. Han, and D.B. Roth (2000). What prevents intermolecular V(D)J recombination? Cold Spring Harbor Symposia on Quantitative Biology, Volume LXIV, 191-195.

40. Roth, D.B. and M. Gellert (2000). New guardians of the genome. Nature Apr 404:823-825.

41. Roth, D.B. (2000) From lymphocytes to sharks: the V(D)J recombinase moves to the germline. Genome Biology Aug reviews 1014.1-1014.4

42. D.B. Roth and Roth, S.Y. (2000). Unequal access: regulating V(D)J recombination through chromatin remodeling. Cell Nov 103:699-702.

43. Huye, L. E. and D. B. Roth (2000). Differential requirements for cis and trans V(D)J cleavage. Nucleic Acids Research Dec 28:4903-4911.

44. Kale, S.B., M.A. Landree, and D.B. Roth (2001). Conditional RAG-1 mutants block the hairpin formation step of V(D)J recombination. Molecular and Cellular Biology Jan 21:459-466.

45. Schultz, H.Y., M.A. Landree, J. Qiu, S.B. Kale, and D.B. Roth (2001). Joining-deficient RAG-1 mutants block V(D)J recombination in vivo. Molecular Cell Jan 7:65-75.

46. Qiu, J., Kale, S.B., Schultz, H.Y., and D.B.Roth (2001). Separation of function mutants reveal critical roles for RAG-2 in both the cleavage and joining steps of V(D)J recombination. Molecular Cell Jan 7:77-87.

47. Purugganan, M.M., S. Shah, J.F. Kearney, D.B. Roth (2001). Ku80 is required for addition of N nucleotides to V(D)J recombination junctions by terminal deoxynucleotidyl transferase. Nucleic Acids Research Apr 29:1638-1646.

48. Neiditch, M.B., M.A. Landree, G. Lee, and D.B. Roth (2001). RAG transposase can capture and commit to target DNA before and after donor cleavage. Mol. Cell. Biol. Jul 21:4301-4310.

49. Landree, M.A., S.B. Kale, and D.B. Roth (2001). Functional organization of single and paired V(D)J cleavage complexes. Mol. Cell. Biol. Jul 21:4256–4264.

50. d'Adda di Fagagna, F., M.P. Hande, W.-M. Tong, D.B. Roth, P. M. Lansdorp, Z.-Q. Wang, and S.P. Jackson (2001). Effects of DNA non-homologous end-joining factors on telomere length and chromosomal stability in mammalian cells. Current Biology Aug 11:1192-1196.

51. Lee, G.S., M.B. Neiditch, R.R. Sinden, D.B. Roth (2002). Targeted transposition by the V(D)J recombinase. Mol. Cell. Biol. Apr 22:2068-2077.

52. Huye, L.E., Purugganan, M.M., Jiang, M., and D.B. Roth (2002). Mutational analysis of all conserved basic amino acids in RAG-1 reveals catalytic, step-arrest, and joining-deficient mutants in the V(D)J recombinase. Mol. Cell. Biol. May 22:3460-3473. (See commentary, ASM News, 68, p.344, July, 2002; “Best of ASM” paper.)

53. Brandt, V.L. and D.B. Roth (2002). A recombinase diversified: new functions of the RAG proteins. Current Opinion in Immunology Apr 14:224-229.

54. Thai, T.-H., M.M. Purugganan, D.B. Roth, and J.F. Kearney (2002). Distinct and opposite diversifying activities of terminal transferase splice variants. Nature Immunology 3:457-462 (cover story).

55. Neiditch, M.B., G.S. Lee, L.E. Huye, V.L. Brandt, and D.B. Roth (2002). The V(D)J recombinase efficiently cleaves and transposes signal joints. Molecular Cell Apr 9(4):871-878.

56. Bender,C.F., Sikes, M.L., Sullivan, R., Huye, L.E., Le Beau, M.M., Roth, D.B., Mirzoeva OK, Oltz, E.M., and Petrini, J.H.J. (2002). Cancer predisposition and hematopoietic failure in Rad50(S/S) mice. Genes & Development Sep 16(17):2237-2251.

57. Roth, D.B. (2002). Amplifying mechanisms of lymphomagenesis. Molecular Cell Jul 10:1-2.

58. Brandt, V.L., and Roth, D.B. (2003) Artemis: guarding small children and, now, the genome. J. Clin. Invest. Feb 111(3):315-6.

59. Roth, D.B. (2003) Restraining the V(D)J Recombinase Nature Reviews Immunology 3:656-666.

60. Zhang Z., Wang W.-H., Zemlin, M., Findley, H.W, Bridges, S.L,, Roth, D.B., Burrows P.D., and M.D. Cooper. (2003). Contribution of VH Gene Replacement to the primary B Cell Repertoire. Immunity 19: 21-31

61. G.S. Lee, M B. Neiditch, S.S. Salus, and D.B. Roth (2004). RAG Proteins Shepherd Double-Strand Breaks to a Specific Pathway, Suppressing Error-Prone Repair, but RAG Nicking Initiates Homologous Recombination. Cell Apr 117, 171-184.