James E Haber

Abraham and Etta Goodman Professor of Biology and Director of the Rosenstiel Basic Medical Sciences Research Center

haber@brandeis.edu
781-736-2462
Rosenstiel Basic Medical Sciences Research Center, 302

Departments/Programs

Biology
Rosenstiel Basic Medical Sciences Research Center

Degrees

University of California, Berkeley, Ph.D.
Harvard University, B.A.

Expertise

Repair of broken chromosomes. Genetics and molecular biology of yeast meiotic and mitotic recombination. Control of recombination donor accessibility (donor preference in mating-type switching). Analysis of mutations arising during DNA repair. Chromosome dynamics. Regulation of the DNA damage response and checkpoints; induction of damage-induced autophagy.

Profile

Please visit my new faculty profile page.

Member of the US National Academy of Sciences, Fellow of the American Academy of Microbiology, Fellow, American Association of Arts and Sciences. Fellow, American Association for the Advancement of Science. Thomas Hunt Morgan Medal for Lifetime Achievement in Genetics from the Genetics Society of America. Webpage

Courses Taught

BIOL	91g	Introduction to Research Practice
BIOL	122a	Molecular Genetics
BIOL	163b	Repairing and Editing the Genome
BIOL	316a	Mechanisms of Recombination
BIOL	316b	Mechanisms of Recombination

Awards and Honors

2011 Genetics Society of America Thomas Hunt Morgan Medal for lifetime achievement in genetics (2010)

Member, National Academy of Sciences (2010)

Member, American Academy of Arts and Sciences (2009)

Radcliffe Institute Fellowship for 2008/9 (2008)

NIH MERIT award (2007)

elected Secretary Genetics Society of America (2006)

Elected Fellow, American Association for the Advancement of Science (2005)

Keynote Speaker, Keystone Symposium on Mechanisms of DNA Replication and Recombination (2005)

Director, Genetics Society of America (2003)

Keynote Speaker FASEB Summer Research Conference on Recombination (2003)

John Simon Guggenheim Fellowship (2001)

Giovanni Magni Lecturer, Milan, Italy (2000 - 2001)

Guggenheim Foundation Fellowship (1999)

Abraham and Etta Goodman Chair in Biology (1996)

Fellow, American Academy of Microbiology (1996)

Sloan Foundation Sabbatical Supplement (1990)

National Science Foundation Postdoctoral Fellowship (1970)

US Public Health Service Traineeship (1965 - 1969)

Woodrow Wilson Fellowship (honorary) (1965)

Scholarship

Ait Saada, A, Costa, A, Guo, W, Sheng, Z, Haber, JE; Lobachev, K. "Structural parameters of palindromic repeats determine the specificity of nuclease attack of secondary structures." Nuc. Acids Res. (in press). (2021). (forthcoming)

Arnould C, Rocher V, Finoux AL, Clouaire T, Li K, Zhou F, Caron P, Mangeot PE, Ricci EP, Mourad R, Haber JE, Noordermeer D, Legube G. "Loop extrusion as a mechanism for formation of DNA damage repair foci.." Nature 590 (2021): 660-665.

Gallagher DN, Pham N, Tsai AM, Janto AN, Choi J, Ira G, Haber JE. "A Rad51-independent pathway promotes single-strand template repair in gene editing.." PLoS Genetics 16. (2021): e1008689. doi: 10.1371.

Garcia Fernandez F, Lemos B, Khalil Y, Batrin R, Haber JE, Fabre E.. "Chromosome structure due to phospho-mimetic H2A modulates DDR through increased chromatin mobility.." J Cell Sci. doi: 10.1242/jcs.258500. Online ahead of print.. (2021).

Klionsky, DJ et al.. "Guidelines for the use and interpretation of assays for monitoring autophagy (4th edition).." Autophagy (2021): doi: 10.1080/15548627.2020.1797280.

Li K, Bronk G, Kondev J, Haber JE. "Yeast ATM and ATR kinases use different mechanisms to spread histone H2A phosphorylation around a DNA double-strand break.." Proc Natl Acad Sci USA 117. (2021): 21354-21363.

Pham, N, Yan, Z, Yu, Y, Afreen, MA, Malkova, A, Haber, JE, Ira, G. "Mechanisms restraining Break-Induced Replication at two-ended DNA double-strand breaks." EMBO J (2021): (in press).

Rodriguez-Martin B, Alvarez EG, Baez-Ortega A, Zamora J, Supek F, Demeulemeester J, Santamarina M, Ju YS, Temes J, Garcia-Souto D, Detering H, Li Y, Rodriguez-Castro J, Dueso-Barroso A, Bruzos AL, Dentro SC, Blanco MG, Contino G, Ardeljan D, Tojo M, Robe. "Pan-cancer analysis of whole genomes identifies driver rearrangements promoted by LINE-1 retrotransposition." Nature Genet 52. (2021): 306-319.

Yamaguchi, M and Haber, James E. "Monitoring Gene Conversion in Budding Yeast by Southern Blot Analysis.." Methods Mol Biol. vol. 2153, 2021. 221-238.

Akdemir KC, Le VT, Chandran S, Li Y, Verhaak RG, Beroukhim R, Campbell PJ, Chin L, Dixon JR, Futreal PA; PCAWG Structural Variation Working Group; PCAWG Consortium.. "Disruption of chromatin folding domains by somatic genomic rearrangements in human cancer.." Nature Genet 52. (2020): 294-305.

Bailey MH, Meyerson WU, Dursi LJ, Wang LB, Dong G, Liang WW, Weerasinghe A, Li S, Li Y, Kelso S; MC3 Working Group; PCAWG novel somatic mutation calling methods working group, Saksena G, Ellrott K, Wendl MC, Wheeler DA, Getz G, Simpson JT, Gerstein MB, D. "Retrospective evaluation of whole exome and genome mutation calls in 746 cancer samples.." Nature Communications 11. (2020): doi: 10.1038/s41467-020-18151-y..

Braberg H, Echeverria I, Bohn S, Cimermancic P, Shiver A, Alexander R, Xu J, Shales M, Dronamraju R, Jiang S, Dwivedi G, Bogdanoff D, Chaung KK, Hüttenhain R, Wang S, Mavor D, Pellarin R, Schneidman D, Bader JS, Fraser JS, Morris J, Haber JE, Strahl BD,. "Genetic interaction mapping informs integrative structure determination of protein complexes.." Science 370. eaaz4910. doi: 10.1126/science.aaz4910 (2020).

Cortés-Ciriano I, Lee JJ, Xi R, Jain D, Jung YL, Yang L, Gordenin D, Klimczak LJ, Zhang CZ, Pellman DS; PCAWG Structural Variation Working Group, Park PJ; PCAWG Consortium.. "Comprehensive analysis of chromothripsis in 2,658 human cancers using whole-genome sequencing.." Nature Genet 52. (2020): 331-341.

ICGC/TCGA Pan-Cancer Analysis of Whole Genomes Consortium. "Pan-cancer analysis of whole genomes.." Nature 578. (2020): 82-93.

Li CH, Prokopec SD, Sun RX, Yousif F, Schmitz N; PCAWG Tumour Subtypes and Clinical Translation, Boutros PC; PCAWG Consortium.. "Sex differences in oncogenic mutational processes.." Nature Communications 11. (2020): doi: 10.1038/s41467-020-17359-2.

Li Y, Roberts ND, Wala JA, Shapira O, Schumacher SE, Kumar K, Khurana E, Waszak S, Korbel JO, Haber JE, Imielinski M; PCAWG Structural Variation Working Group, Weischenfeldt J, Beroukhim R, Campbell PJ; PCAWG Consortium.. "Patterns of somatic structural variation in human cancer genomes." Nature 578. 7793 (2020): 112-121.

Rheinbay E, Nielsen MM, Abascal F, Wala JA, Shapira O, Tiao G, Hornshøj H, Hess JM, Juul RI, Lin Z, Feuerbach L, Sabarinathan R, Madsen T, et al.. "Analyses of non-coding somatic drivers in 2,658 cancer whole genomes." Nature 578. 7793 (2020): 102-111.

Sieverling L, Hong C, Koser SD, Ginsbach P, Kleinheinz K, Hutter B, Braun DM, Cortés-Ciriano I, Xi R, Kabbe R, Park PJ, Eils R, Schlesner M; PCAWG-Structural Variation Working Group, Brors B, Rippe K, Jones DTW, Feuerbach L; PCAWG Consortium.. "Genomic footprints of activated telomere maintenance mechanisms in cancer." Nature Communications 11. (2020): 733. doi: 10.1038/s41467-019-13824-9.

Waterman DP, Haber JE, Smolka MB. "Checkpoint Responses to DNA Double-Strand Breaks.." vol. 89 Ed. Annu Rev Biochem.., 2020. 103-133..

Zhang Y, Chen F, Fonseca NA, He Y, Fujita M, Nakagawa H, Zhang Z, Brazma A; PCAWG Transcriptome Working Group; PCAWG Structural Variation Working Group, Creighton CJ; PCAWG Consortium.. "High-coverage whole-genome analysis of 1220 cancers reveals hundreds of genes deregulated by rearrangement-mediated cis-regulatory alterations.." Nature Communications 11. (2020): 76 doi: 10.1038/s41467-019-13885-w.

Broken Chromosome Repair by Homologous Recombination. performer/writer Haber, James E. iBiology: https://www.ibiology.org/genetics-and-gene-regulation/homologous-recombination/#part-1, 2019.

Molecular Mechansims of Repairing a Broken Chromosome. performer/writer Haber, James E. iBiology: https://www.ibiology.org/genetics-and-gene-regulation/homologous-recombination/#part-2, 2019.

Mutations Arising During REpair of a Broken Chromosome. Haber, James E. iBiology: https://www.ibiology.org/genetics-and-gene-regulation/homologous-recombination/#part-3, 2019.

Haber, James E. "DNA Repair: The Search for Homology." Bioessays 40. (2019): e1700229.

Klein, H.L., Bacinskaja, G., Che, J., Cheblal, A., Elango, R., Epshtein, A., Fitzgerald, D.M., Gomez-Gonzalez, B., Khan, S.R., Kumar, S., et al.. "Guidelines for DNA recombination and repair studies: Cellular assays of DNA repair pathways.." Microb Cell 6. (2019): 1-64..

Memisoglu, G and Haber, J E. "Dephosphorylation of the Atg1 kinase complex by type 2C protein phosphatases." Molecular & Cellular Oncology 6. 3 (2019): e1588658.

Memisoglu, G., Eapen, V.V., Yang, Y., Klionsky, D.J., and Haber, J.E.. "PP2C phosphatases promote autophagy by dephosphorylation of the Atg1 complex.." Proc Natl Acad Sci U S A 116. (2019): 1613-1620..

Thon, G., Maki, T., Haber, J.E., and Iwasaki, H.. "Mating-type switching by homology-directed recombinational repair: a matter of choice.." Curr Genet 65. (2019): 351-362.

Waterman, D.P., Zhou, F., Li, K., Lee, C.S., Tsabar, M., Eapen, V.V., Mazzella, A., and Haber, J.E.. "Live cell monitoring of double strand breaks in S. cerevisiae." PLoS Genet 15. (2019): e1008001..

Botchkarev, VV, Haber, James E. "Functions and regulation of the polo-like kinase Cdc5 in the absence and presence of DNA damage.." Curr Genet 64. (1) (2018): 87-96.

Dwivedi, G, Haber, James E. "Assaying mutations associated with gene conversion repair of a double-strand break.." Methods Enzymol. 601. (2018): 145-160.

Gallagher, DN, Haber, James E. "Repair of a site-specific DNA cleavage: Old-school lessons for Cas9-mediated gene editing.." ACS Chem Biol 13. (2) (2018): 397-405.

Garbacz, MA, Lujan, SA, Burkholder, AB, Cox, PB, Wu, Q, Zhou, ZX, Haber, JE, Kunkel, TA. "Evidence that DNA polymerase delta contributes to initiating leading strand DNA replication in Saccharomyces cerevisiae.." Nat Commun 9. (1) (2018): 858.

Lemos, BR, Kaplan, AC, Bae JE, Ferrazzoli, AE, Kuo, J, Anand RP, Waterman, DP, Haber, James E. "CRISPR/Cas9 cleavages in budding yeast reveal templated insertions and strand-specific insertion/deletion profiles.." Proc Natl Acad Sci USA 115. (9) (2018): E2040-E2047.

Maki, T., Ogura, N., Haber, J.E., Iwasaki, H., and Thon, G.. "New insights into donor directionality of mating-type switching in Schizosaccharomyces pombe. PLoS Genet 14, e1007424.." PLoS Genet 14. (2018): e1007424.

Roy, K.R., Smith, J.D., Vonesch, S.C., Lin, G., Tu, C.S., Lederer, A.R., Chu, A., Suresh, S., Nguyen, M., Horecka, J., Tripathi A, Burnett WT, Morgan MA,, Schulz J, Orsley KM, Wei W, Aiyar RS, Davis RW, Bankaitis VA Haber JE. "Multiplexed precision genome editing with trackable genomic barcodes in yeast.." Nat Biotechnol 36. (2018): 512-520..

Anand, R, Beach, A, Li, K, Haber, James E. "Rad51-mediated double-strand break repair and mismatch correction of divergent substrates.." Nature 544. (7650) (2017): 377-380.

Botchkarev VV, Jr., Garabedian MV, Lemos B, Paulissen E, Haber JE.. "The budding yeast Polo-like kinase localizes to distinct populations at centrosomes during mitosis." Mol Biol Cell (2017): mbc.E16-05-0324 ahead of print.

Eapen, VV, Waterman, DP, Bernard, A, Schiffman, N, Sayas, E, Kamber, R, Lemos, B, Memisoglu, G, Ang, J, Mazella, A, Haber, James E. "A pathway of targeted autophagy is induced by DNA damage in budding yeast.." Proc Natl Acad Sci USA 114. (7) (2017): E1158-E1167.

Mehta A, Beach A, Haber JE.. "Homology Requirements and Competition between Gene Conversion and Break-Induced Replication during Double-Strand Break Repair." Mol Cell 65. (2017): 515-26.

Wang, RW, Lee, CS, Haber, James E. "Position effects influencing intrachromosomal repair of a double-strand break in budding yeast.." PLoS One 12. (7) (2017): e0180994.

Haber, James E. "A Life Investigating Pathways That Repair Broken Chromosomes." Annu Rev Genet 50. (2016): 1-28.

Haber, James E. "Asf1 facilitates dephosphorylation of Rad53 after DNA double-strand break repair." Genes Dev 30. (10) (2016): 1211-1224.

Haber, James E. "The rule of three." Nat Rev Mol Cell Biol 17. (2016): 10.1038.

Jain, S., Sugawara, N. and Haber, James E. "Role of Double-Strand Break End-Tethering during Gene Conversion in Saccharomyces cerevisiae." PLoS Genetics (in press). (2016).

Jasin M, Haber JE.. "The democratization of gene editing: Insights from site-specific cleavage and double-strand break repair.." DNA Repair (Amst) 44. (2016): 6-16.

Klionsky, D.J., Abdelmohsen, K., Abe, A., Abedin, M.J., Abeliovich, H., Acevedo Arozena, A., Adachi, H., Adams, C.M., Adams, P.D., Adeli, K., et al.. Guidelines for the use and interpretation of assays for monitoring autophagy. 3rd ed. 2016.

Lee, C.S., Wang, R.W, Chang, H.H., Capurso, D., Segal, M.R., Haber, J.E.. "Chromosome position determines the success of double-strand break repair." Proc Natl Acad Sci USA 113. (2016): E146-154.

Nakajima, Y., Haber, J.E.. "Chromosomes at loose ends." Nat Cell Biol 18. (2016): 257-259.

Tsabar M, Haase J, Harrison B, Snider CE, Eldridge B, Kaminsky L.,Hine, R., Haber, J.E. and Bloom, K.. "A Cohesin-Based Partitioning Mechanism Revealed upon Transcriptional Inactivation of Centromere." PLoS Genet. 12. (2016): e1006021.

Tsabar M, Hicks WM, Tsaponina O, Haber JE. "Re-establishment of nucleosome occupancy during double-strand break repair in budding yeast.." DNA Repair (Amst) 47. (2016): 21-29.

Vinay V. Eapen, David P. Waterman, Brenda Lemos and James E. Haber. "REGULATION OF THE DNA DAMAGE RESPONSE BY AUTOPHAGY." AUTOPHAGY: Cancer, Other Pathologies, Inflammation, Immunity, Infection and Aging. vol. 10 Ed. M.A. Hayat. Elsevier, 2016. (in press).

Yimit, A., Kim, T., Anand, R., Meister, S., Ou, J., Haber, J.E., Zhang, Z. and Brown, G.W.. "MTE1 Functions with MPH1 in Double-Strand Break Repair." Genetics (2016).

Ferrari, M., Dibitetto, D., De Gregorio, G., Eapen, V.V., Rawal, C.C., Lazzaro, F., Tsabar, M., Marini, F., Haber, J.E., and Pellicioli, A.. "Functional interplay between the 53BP1-ortholog Rad9 and the Mre11 complex regulates resection, end-tethering and repair of a double-strand break.." PLos Genet 11. (2015): e1004928.

Haber, James E. "Deciphering the DNA Damage Response." Cell 162. (2015): 1183-1185.

Haber, James E. "TOPping off meiosis." Mol Cell 57. (2015): 577-581.

Tsabar, M., Eapen, V.V., Mason, J.M., Memisoglu, G., Waterman, D.P., Long, M.J., Bishop, D.K., and Haber, .E.. "Caffeine impairs resection during DNA break repair by reducing the levels of nucleases Sae2 and Dna2." Nucleic Acids Res 43. (2015): 6889-6901.

Tsabar, M., Mason, J.M., Chan, Y.L., Bishop, D.K. and Haber, J.E.. "Caffeine inhibits gene conversion by displacing Rad51 from ssDNA." Nucleic Acids Res 43. (2015): 6902-6918.

Anand, R.P., Tsaponina, O., Greenwell, P.W., Lee, C.S., Du, W., Petes, T.D., and Haber, J.E.. "Chromosome rearrangements via template switching between diverged repeated sequences.." Genes Dev 28. (2014): 2394-2406..

Avsaroglu, B., Bronk, G., Gordon-Messer, S., Ham, J., Bressan, D.A., Haber, J.E., and Kondev, J.. "Effect of chromosome tethering on nuclear organization in yeast.." PLoS ONE 9. (2014): e102474.

Braberg, H., Alexander, R., Shales, M., Xu, J., Franks-Skiba, K.E., Wu, Q., Haber, J.E., and Krogan, N.J.. "Quantitative analysis of triple-mutant genetic interactions.." Nat Protoc 9. (2014): 1867-1881.

Costantino L, Sotiriou SK, Rantala JK, Magin S, Mladenov E, Helleday T, Haber JE, Iliakis G, Kallioniemi OP, Halazonetis TD.. "Break-induced replication repair of damaged forks induces genomic duplications in human cells." Science 343. (6166) (2014): 88-91.

Costantino, L., Sotiriou, S.K., Rantala, J.K., Magin, S., Mladenov, E., Helleday, T., Haber, J.E., Iliakis, G., Kallioniemi, O.P., and Halazonetis, T.D.. "Break-induced replication repair of damaged forks induces genomic duplications in human cells.." Science 243. (2014): 88-91.

Haber, James E. Genome Stability: DNA Repair and Recombination. first ed. New York: Garland Science, 2014.

Lee, C-S and Haber, JE. "Mating-type gene switching in Saccharomyces cerevisiae." Mobile DNA III. Ed. N. Craig and M. Gellert. Washington DC: ASM Press, 2014

Lee, CS, Lee K, Legube G, Haber JE. "Dynamics of yeast histone H2A and H2B phosphorylation in response to a double-strand break.." Nat Struct Mol Biol 21. (1) (2014): 103-109.

Mehta, A and Haber, JE. "Sources of DNA double-strand breaks and models for recombinational DNA repair." Recombination Mechanisms. Ed. S. Kowalczykowski, N. Hunter and W-D Heyer. Cold Spring Harbor Press, NY, 2014

Tsaponina, O., and Haber, J.E.. "Frequent Interchromosomal Template Switches during Gene Conversion in S. cerevisiae.." Mol Cell 55. (2014): 615-625.

Anand RP, Lovett ST, Haber JE. "Break-induced DNA replication." Cold Spring Harb Perspect Biol 5. 12 (2013): a010397.

Dotiwala F, Eapen VV, Harrison JC, Arbel-Eden A, Ranade V, Yoshida S, Haber JE.. "DNA damage checkpoint triggers autophagy to regulate the initiation of anaphase.." Proc Natl Acad Sci USA 110. (1) (2013): E41-49.

Dotiwala, F., Eapen, V.V., Harrison, J.C., Arbel-Eden, A., Ranade, V., Yoshida, S., and Haber, J.E.. "DNA damage checkpoint triggers autophagy to regulate the initiation of anaphase." Proceedings of the National Academy of Sciences of the United States of America 110. (2013): E41-49.

Eapen VV, Haber JE. "DNA damage signaling triggers the cytoplasm-to-vacuole pathway of autophagy to regulate cell cycle progression." Autophagy 9. (3) (2013): 440-441.

Eapen, V.V., and Haber, J.E.. "DNA damage signaling triggers the cytoplasm-to-vacuole pathway of autophagy to regulate cell cycle progression." Autophagy 9. (2013): 440-441.

Haber JE, Braberg H, Wu Q, Alexander R, Haase J, Ryan C, Lipkin-Moore Z, Franks-Skiba KE, Johnson T, Shales M, Lenstra TL, Holstege FC, Johnson JR, Bloom K, Krogan NJ.. "Systematic triple-mutant analysis uncovers functional connectivity between pathways involved in chrosome regulation.." Cell Rep 3. (6) (2013): 2168-2178.

Liebman SW, Haber JE. "Retrospective. Fred Sherman (1932-2013)." Science 342. (6162) (2013): 1059.

Saini N, Ramakrishnan S, Elango R, Ayyar S, Zhang Y, Deem A, Ira G, Haber JE, Lobachev KS, Malkova A.. "Migrating bubble during break-induced replication drives conservative DNA synthesis." Nature 502. (7471) (2013): 389-392.

Sugawara, N., and Haber, J.E.. "Monitoring DNA recombination initiated by HO endonuclease." Methods Mol Biol 920. (2013): 349-370.

Tsabar M, Haber JE. "Chromatin modifications and chromatin remodeling during DNA repair in budding yeast." Curr Opin Genet Dev 23. (2) (2013): 166-173.

Eapen, V.V., Sugawara, N., Tsabar, M., Wu, W.H., and Haber, J.E.. "The Saccharomyces cerevisiae chromatin remodeler Fun30 regulates DNA end resection and checkpoint deactivation." Molecular and cellular biology 32. (2012): 4727-4740.

Haber, James E. "Mating-type genes and MAT switching in Saccharomyces cerevisiae." Genetics 191. (2012): 33-64.

Haber, James E. "Mating-type genes and MAT switching in Saccharomyces cerevisiae.." Yeastbook. vol. 191 Ed. A. Hinnebusch. Genetics, 2012. ,33-64.

J Li, E Coïc, K Lee, C-S Lee, Q Wu and Haber, James E. "Regulation of Budding Yeast Mating-Type Switching Donor Preference by the FHA Domain of Fkh1." PLoS Genetics in press. (2012).

Malkova, A and Haber, James E. "Mutations Arising during Recombination." Annu Rev Genet,. vol. 46, 2012. 455-473.

Coïc, E, Marin, J, Kondev, J and Haber, JE. "Dynamics of homology searching during gene conversion in Saccharomyces cerevisiae revealed by donor competition." Genetics 189. 4 (2011): 1225-33.

Hicks, W. M., Yamaguchi, M., Haber, J. E.. "Inaugural Article: Real-time analysis of double-strand DNA break repair by homologous recombination." Proc Natl Acad Sci U S A (2011).

Kim, J. A., Hicks, W. M., Li, J., Tay, S. Y., Haber, J. E.. "Protein phosphatases pph3, ptc2, and ptc3 play redundant roles in DNA double-strand break repair by homologous recombination." Mol Cell Biol 31. 3 (2011): 507-16.

Dotiwala, F., Harrison, J.C., Jain, S., Sugawara, N., and Haber, J.E.. "Mad2 prolongs DNA damage checkpoint arrest caused by a double-strand break via a centromere-dependent mechanism.." Curr Biol. 20. (2010): 328-332.

Hicks, W. M., Kim, M., Haber, J. E.. "Increased mutagenesis and unique mutation signature associated with mitotic gene conversion." Science 329. 5987 (2010): 82-5.

Lydeard, J. R., Lipkin-Moore, Z., Jain, S., Eapen, V. V., Haber, J. E.. "Sgs1 and exo1 redundantly inhibit break-induced replication and de novo telomere addition at broken chromosome ends." PLoS Genet 6. 5 (2010): e1000973.

Lydeard, J. R., Lipkin-Moore, Z., Sheu, Y. J., Stillman, B., Burgers, P. M., Haber, J. E.. "Break-induced replication requires all essential DNA replication factors except those specific for pre-RC assembly." Genes Dev 24. 11 (2010): 1133-44.

Saponaro, M., Callahan, D., Zheng, X., Krejci, L., Haber, J.E., Klein, H.L., and Liberi, G.. "Cdk1 targets Srs2 to complete synthesis-dependent strand annealing and to promote recombinational repair.." PLoS Genet 6. 2 (2010): e1000858.

Toh, G. W., Sugawara, N., Dong, J., Toth, R., Lee, S. E., Haber, J. E., Rouse, J.. "Mec1/Tel1-dependent phosphorylation of Slx4 stimulates Rad1-Rad10-dependent cleavage of non-homologous DNA tails." DNA Repair (Amst) 9. 6 (2010): 718-26.

Jain, S., Sugawara, N., Lydeard, J., Vaze, M., Tanguy Le Gac, N., Haber, J. E.. "A recombination execution checkpoint regulates the choice of homologous recombination pathway during DNA double-strand break repair." Genes Dev 23. 3 (2009): 291-303.

Kim, J. A., Haber, J. E.. "Chromatin assembly factors Asf1 and CAF-1 have overlapping roles in deactivating the DNA damage checkpoint when DNA repair is complete." Proc Natl Acad Sci U S A 106. 4 (2009): 1151-6.

Prakash, R., Satory, D., Dray, E., Papusha, A., Scheller, J., Kramer, W., Krejci, L., Klein, H., Haber, J. E., Sung, P., Ira, G.. "Yeast Mph1 helicase dissociates Rad51-made D-loops: implications for crossover control in mitotic recombination." Genes Dev 23. 1 (2009): 67-79.

Coic, E., Feldman, T., Landman, A. S., Haber, J. E.. "Mechanisms of Rad52-independent spontaneous and UV-induced mitotic recombination in Saccharomyces cerevisiae." Genetics 179. 1 (2008): 199-211.

Haber, J. E.. "Alternative endings." Proc Natl Acad Sci U S A 105. 2 (2008): 405-6.

Haber, J. E.. "Evolution of Models of Homologous Recombination." Genome Dynamics and Stability. vol. 3 Ed. Egel, R.. Berlin: Springer-Verlag, 2008. (in press).

Jazayeri, A., Balestrini, A., Garner, E., Haber, J. E., Costanzo, V.. "Mre11-Rad50-Nbs1-dependent processing of DNA breaks generates oligonucleotides that stimulate ATM activity." Embo J 27. 14 (2008): 1953-62.

Kim, H. S., Vijayakumar, S., Reger, M., Harrison, J. C., Haber, J. E., Weil, C., Petrini, J. H.. "Functional interactions between sae2 and the mre11 complex." Genetics 178. 2 (2008): 711-23.

Cortes-Ledesma, F., de Piccoli, G., Haber, J. E., Aragon, L., Aguilera, A.. "SMC Proteins, new players in the maintenance of genomic stability." Cell Cycle 6. 8 (2007): 914-918.

De Koning, L., Corpet, A., Haber, J. E., Almouzni, G.. "Histone chaperones: an escort network regulating histone traffic." Nat Struct Mol Biol 14. 11 (2007): 997-1007.

Dotiwala, F., Haase, J., Arbel-Eden, A., Bloom, K., Haber, J. E.. "The yeast DNA damage checkpoint proteins control a cytoplasmic response to DNA damage." Proc Natl Acad Sci U S A 104. 27 (2007): 11358-63.

Flott, S., Alabert, C., Toh, G. W., Toth, R., Sugawara, N., Campbell, D. G., Haber, J. E., Pasero, P., Rouse, J.. "Phosphorylation of Slx4 by Mec1 and Tel1 regulates the single-strand annealing mode of DNA repair in budding yeast." Mol Cell Biol 27. (2007): 6433-45.

Haber, J.E.. "Decisions, decisions: donor preference during budding yeast mating-type switching." Sex in fungi: molecular determination and evolutionary implications. Ed. Heitman, J., Kronstad, J.W., Taylor, J.W., Casselton, L.A.. ASM Press, 2007. 159-170.

Kim, J. A., Kruhlak, M., Dotiwala, F., Nussenzweig, A., Haber, J. E.. "Heterochromatin is refractory to gamma-H2AX modification in yeast and mammals." J Cell Biol 178. 2 (2007): 209-18.

Lydeard, J. R., Jain, S., Yamaguchi, M., Haber, J. E.. "Break-induced replication and telomerase-independent telomere maintenance require Pol32." Nature 448. 7155 (2007): 820-3.

Morrison, A. J., Kim, J. A., Person, M. D., Highland, J., Xiao, J., Wehr, T. S., Hensley, S., Bao, Y., Shen, J., Collins, S. R., Weissman, J. S., Delrow, J., Krogan, N. J., Haber, J. E., Shen, X.. "Mec1/Tel1 Phosphorylation of the INO80 Chromatin Remodeling Complex Influences DNA Damage Checkpoint Responses." Cell 130. 3 (2007): 499-511.

Torres-Rosell, J., De Piccoli, G., Cordon-Preciado, V., Farmer, S., Jarmuz, A., Machin, F., Pasero, P., Lisby, M., Haber, J. E., Aragon, L.. "Anaphase onset before complete DNA replication with intact checkpoint responses." Science 315. 5817 (2007): 1411-5.

Coic, E., Richard, G. F., Haber, J. E.. "Saccharomyces cerevisiae donor preference during mating-type switching is dependent on chromosome architecture and organization." Genetics 173. 3 (2006): 1197-206.

Coic, E., Sun, K., Wu, C., Haber, J. E.. "Cell cycle-dependent regulation of Saccharomyces cerevisiae donor preference during mating-type switching by SBF (Swi4/Swi6) and Fkh1." Mol Cell Biol 26. 14 (2006): 5470-80.

De Piccoli, G., Cortes-Ledesma, F., Ira, G., Torres-Rosell, J., Uhle, S., Farmer, S., Hwang, J. Y., Machin, F., Ceschia, A., McAleenan, A., Cordon-Preciado, V., Clemente-Blanco, A., Vilella-Mitjana, F., Ullal, P., Jarmuz, A., Leitao, B., Bressan, D., D. "Smc5-Smc6 mediate DNA double-strand-break repair by promoting sister-chromatid recombination." Nat Cell Biol 8. 9 (2006): 1032-4.

Haber, J. E., Debatisse, M.. "Gene amplification: yeast takes a turn." Cell 125. 7 (2006): 1237-40.

Haber, J. E.. "Chromosome breakage and repair." Genetics 173. 3 (2006): 1181-5.

Haber, J. E.. "Transpositions and translocations induced by site-specific double-strand breaks in budding yeast." DNA Repair (Amst) 5. 9-10 (2006): 998-1009.

Harrison, J. C., Haber, J. E.. "Surviving the breakup: the DNA damage checkpoint." Annu Rev Genet 40. (2006): 209-35.

Ira, G., Satory, D., Haber, J. E.. "Conservative inheritance of newly synthesized DNA in double-strand break-induced gene conversion." Mol Cell Biol 26. 24 (2006): 9424-9.

Keogh, M. C., Kim, J. A., Downey, M., Fillingham, J., Chowdhury, D., Harrison, J. C., Onishi, M., Datta, N., Galicia, S., Emili, A., Lieberman, J., Shen, X., Buratowski, S., Haber, J. E., Durocher, D., Greenblatt, J. F., Krogan, N. J.. "A phosphatase complex that dephosphorylates gammaH2AX regulates DNA damage checkpoint recovery." Nature 439. 7075 (2006): 497-501.

McEachern, M. J., Haber, J. E.. "Break-induced replication and recombinational telomere elongation in yeast." Annu Rev Biochem 75. (2006): 111-35.

Sugawara, N., Haber, J. E.. "Repair of DNA double strand breaks: in vivo biochemistry." Methods Enzymol 408. (2006): 416-29.

Valencia-Burton, M., Oki, M., Johnson, J., Seier, T. A., Kamakaka, R., Haber, J. E.. "Different mating-type-regulated genes affect the DNA repair defects of Saccharomyces RAD51, RAD52 and RAD55 mutants." Genetics 174. 1 (2006): 41-55.

Clatworthy, A. E., Valencia-Burton, M. A., Haber, J. E., Oettinger, M. A.. "The MRE11-RAD50-XRS2 complex, in addition to other non-homologous end-joining factors, is required for V(D)J joining in yeast." J Biol Chem 280. 21 (2005): 20247-52.

Corda, Y., Lee, S. E., Guillot, S., Walther, A., Sollier, J., Arbel-Eden, A., Haber, J. E., Geli, V.. "Inactivation of Ku-mediated end joining suppresses mec1Delta lethality by depleting the ribonucleotide reductase inhibitor Sml1 through a pathway controlled by Tel1 kinase and the Mre11 complex." Mol Cell Biol 25. 23 (2005): 10652-64.

Liberi, G., Maffioletti, G., Lucca, C., Chiolo, I., Baryshnikova, A., Cotta-Ramusino, C., Lopes, M., Pellicioli, A., Haber, J. E., Foiani, M.. "Rad51-dependent DNA structures accumulate at damaged replication forks in sgs1 mutants defective in the yeast ortholog of BLM RecQ helicase." Genes Dev 19. 3 (2005): 339-50.

Malkova, A., Naylor, M. L., Yamaguchi, M., Ira, G., Haber, J. E.. "RAD51-dependent break-induced replication differs in kinetics and checkpoint responses from RAD51-mediated gene conversion." Mol Cell Biol 25. 3 (2005): 933-44.

McEachern, M. J., Haber, J. E.. "Telomerase-independent chromosome maintenance in yeast." Telomeres. Ed. T. de Lange, V. Lundblad, E. Blackburn. Cold Spring Harbor, NY: Cold Spring Harbor Press, 2005

Haber,James E and Wang X. "Role of Saccharomyces Single-Stranded DNA-Binding Protein RPA in the Strand Invasion Step of Double-Strand Break Repair." PLoS Biol. 2. (2004): 104-112.

Haber,James E, Bressan DA, J. Vazquez. "Mating type-dependent constraints on the mobility of the left arm of yeast chromosome III." J. Cell Biol. 164. (2004): 361-371.

Haber,James E, Ira G, Pellicio A, Balijja A, Want X, Fiorani S. Carotenuto W, Liberi G, Bressan D, Wan L,. "DNA end resection, homologous recombination and DNA damage checkpoint activation require CDK1." (2004): 1011-7.

Haber,James E, Ira G, Pellicioli A, Balijja A, Wang X, Fiorani S, Carotenuto W, Liberi G, Bressan D, Wan L, Hollingsworth NM, Foiani M. "DNA end resection, homologous recombination and DNA damage checkpoint activation require CDK1." Nature 431. (2004): 1011-7.

Haber,James E, Kaye, J. A., Melo, J. A., Cheung, S. K., Vaze, M. B., and Toczyski, D. P.. "DNA breaks promote genomic instability by impeding proper chromosome segregation." Curr Biol 14. (2004): 2096-2106.

Haber,James E, Kaye, J. A., Melo, J.A. Cheung, S. K., Vaze M.B, and Tocayski, D.P.. "DNA breaks promote genomic instability by impeding proper chromosome segregation." Curr. Biol (2004): 2096-2106.

Haber,James E, Lucca C, Vanoli F, Cotta-Ramusino C, Pellicioli A, Liberi G, Foiani M.. "Checkpoint-mediated control of replisome-fork association and signalling in response to replication pausing.." Oncogene Nature 23. (2004): 1206-1213.

Haber,James E, Malkova, A., Swanson, J., German, M., McCusker J.H. Housworth E. A. Stahl, F.W.. "Gene conversion and crossing over along the 405-kb left arm of Saccharomyces cerevisie chromosome VII." Genetics (2004): 49-63.

Haber,James E, Malkova, A., Swanson, J., German, M., McCusker, J. H., Housworth, E. A., Stahl, F. W.. "Gene conversion and crossing over along the 405-kb left arm of Saccharomyces cerevisiae chromosome VII." Genetics 168. (2004): 49-63.

Haber,James E, Miyazaki, T., Bressan, D. A., Shinohara, M., and Shinohara, A.. "In vivo assembly and disassembly of Rad51 and Rad52 complexes during double-strand break repair." Embo J 23. (2004): 939-949.

Haber,James E, Miyazaki, T., Bressan, D.A. Shinohara, M., and Shinohara. "In vivo assembly and disasembly of Rad52 compleses during double-strand break repair." (2004): 939-949.

Haber,James E, Morrison, A. J., Highland, J., Krogan, N. J., Arbel-Eden, A., Greenblatt, J. F., and Shen, X.. "(2004). INO80 and gamma-H2AX Interaction Links ATP-dependent chromatin remodeling to DNA damage repair." Cell 119. (2004): 767-775.

Haber,James E, Morrison, A.J. Highland, J. Krogan, N.J. Arbel-Eden, A. Greenbalt, J.F and Shen X. "IN080 and gamma-H2AX Interaction Links ATP-dependent chromatin remodeling to DNA damage repair." (2004): 767-775.

Haber,James E, Shroff, R., Arbel-Eden, A. Pilch, D., Ira, G., Bonner, W. M., Petrini, J. and Lichten, M.. "Distribution and dynamics of chromatin modification induced by a defined DNA double-strand break." Curr Biol (2004): 1703-1711.

Haber,James E, Shroff, R., Arbel-Eden, A., Pilch, D., Ira, G., Bonner, W. M., Petrini, J. H., and Lichten, M.. "Distribution and dynamics of chromatin modification induced by a defined DNA double-strand break." Curr Biol 14. (2004): 1703-1711.

Haber,James E, Sugawara, N., Goldfarb, T., Studamire, B., Alani, E.. "Heteroduplex rejection during single-strand annealing requires Sgs1 helicase and mismatch repair proteins Msh2 and Msh6 but not Pms1." Proc Natl Acad Sci U S A 101. (2004): 9315-9320.

Haber,James E, Unal, E., Arbel-Eden, A., Sattler, U., Shroff, R., Lichten, M., and Koshland, D.. "(2004). DNA damage response pathway uses histone modification to assemble a double-strand break-specific cohesin domain." Mol Cell 16. (2004): 991-1002.

Haber,James E, Wang, X., Ira, G., Tercero, J. A., Holmes, A. M., Diffley, J. F.. "Role of DNA replication proteins in double-strand break-induced recombination in Saccharomyces cerevisiae." Mol Cell Biol 24. (2004): 6891-6899.

Haber,James E, Yu J, K. Marshall, M. Yamaguchi and C.F. Weil. "Microhomology-dependent end joining and repair of transposon-induced DNA hairpins by host factors in Saccharomyces cerevisiae." Mol. Cell Biol. 24. (2004): 1351-64.

Haber,James E. "Telomeres thrown for a loop.." (2004).

Haber,James E and Sugawara, N., X. Wang. "In vivo roles of Rad52, Rad54, and Rad55 proteins in Rad51-mediated homologous recombination." Mol. Cell. 12. (2003): 209-219.

Haber,James E, Clatworthy, A.E., M.A. Valencia, and M.A. Oettinger. "V(D)J Recombination and RAG-Mediated Transposition in Yeast." Mol. Cell 12. (2003): 489-499..

Haber,James E, G. Ira, A. Malkova and N. Sugawara. "Repairing a double-strand chromosome break by homologous recombination: revisiting Robin Hollidays model." Phil. Trans. R. Soc. Lond. 359. (2003): 79-86.

Haber,James E, Ira, G., A. Malkova, G. Liberi, M. Foiani. "Srs2 and Sgs1 ¿Top3 suppress crossovers during double-strand break repair in yeast.." Cell 115. (2003): 401-411.

Haber,James E, Lee, S.E., A. Pellicioli, M.B. Vaze, N. Sugawara, A. Malkova, M. Foiani. "Yeast Rad52 and Rad51 recombination proteins define a second pathway of DNA damage assessment in response to a single double-strand break." Mol. Cell. Biol. 23. (2003).

Haber,James E, Leroy, C. S.E. Lee, M.B. Vaze, F.Ochsenbien, R. Guerois, and M.-C. Marsolier-Kergoat. "(2003) PP2C phosphatases Ptc2 and Ptc3 are required for DNA checkpoint inactivation after a double-strand break.." Mol. Cell 11. (2003): 1-20.

Haber,James E, Ma, J.-M., E.M. Kim, and S.E. Lee. "Yeast Mre11 and Rad1 proteins define a Ku-independent mechanism to repair double strand breaks lacking overlapping end sequences." Mol. Cell. Biol. 23. (2003): 8820-8828.

Haber,James E. "Aging: the sins of the parents." Curr. Biol. 13. (2003): R843-R845.