PUBLICATIONS:

Prather, D., N. J. Krogan, A. Emili, J. F. Greenblatt and F. Winston.
Identification and characterization of Elf1, a conserved transcription elongation factor in S. cerevisiae.
Mol Cell Biol. 2005 Nov;25(22):10122-35.
PMID: 16260625 [PubMed - in process

Schuldiner, M., S. R. Collins, N. J. Thompson, V. Denic, A. Bhamidipati, T. Punna, J. Ihmels, B. Andrews, C. Boone, J. F. Greenblatt, J. S. Weissman and N. J. Krogan.
Exploration of the function and organization of the yeast early secretory pathway through an epistatic mini array profile (E-MAP).
Cell. 2005 Nov 4;123(3):507-19.
PMID: 16269340 [PubMed - in process]

Keogh, M. C., S. K. Kurdistani, S. H. Ahn, S. R. Collins, V. Podolny, K. Chin, C. Boone, S. A. Morris, B. D. Strahl, A. Emili, J. S. Weissman, T. R. Hughes, M. Grunstein, J. F. Greenblatt, S. Buratowski and N. J. Krogan.
Set2 methylation of histone H3 lysine 36 recruits a repressive Rpd3 complex.
Cell. 2005 Nov 18;123(4):593-605.
PMID: 16286008 [PubMed - in process]

Keogh, M. C., J. Kim, M. Downey, J. Fillingham, D. Chowdbury, J. C. Harrison, M. Onishi, N. Datta, S. Galicia, A. Emili, J. Lieberman, X. Shen, S. Buratowski, J. E. Haber, D. Durocher, J. F. Greenblatt and N. J. Krogan.
A phosphatase complex required for dephosphorylation of gH2A.X and DNA damage checkpoint recovery in S. cerevisiae.
Nature. 2005 Nov 20; [Epub ahead of print]
PMID: 16299494 [PubMed - as supplied by publisher]

Laribee RN, Krogan NJ, Xiao T, Shibata Y, Hughes TR, Greenblatt JF, Strahl BD.
BUR kinase selectively regulates H3 K4 trimethylation and H2B ubiquitylation through recruitment of the PAF elongation complex.
Curr Biol. 2005 Aug 23;15(16):1487-93.
PMID: 16040246 [PubMed - in process]

Hoang T, Peng WT, Vanrobays E, Krogan N, Hiley S, Beyer AL, Osheim YN, Greenblatt J, Hughes TR, Lafontaine DL.
Esf2p, a U3-associated factor required for small-subunit processome assembly and compaction.
Mol Cell Biol. 2005 Jul;25(13):5523-34.
PMID: 15964808 [PubMed - indexed for MEDLINE]

Langelier MF, Baali D, Trinh V, Greenblatt J, Archambault J, Coulombe B.
The highly conserved glutamic acid 791 of Rpb2 is involved in the binding of NTP and Mg(B) in the active center of human RNA polymerase II.
Nucleic Acids Res. 2005 May 10;33(8):2629-39. Print 2005.
PMID: 15886393 [PubMed - indexed for MEDLINE]

Zhao R, Davey M, Hsu YC, Kaplanek P, Tong A, Parsons AB, Krogan N, Cagney G, Mai D, Greenblatt J, Boone C, Emili A, Houry WA.
Navigating the chaperone network: an integrative map of physical and genetic interactions mediated by the hsp90 chaperone.
Cell. 2005 Mar 11;120(5):715-27.
PMID: 15766533 [PubMed - indexed for MEDLINE]

Abbott KL, Archambault J, Xiao H, Nguyen BD, Roeder RG, Greenblatt J, Omichinski JG, Legault P.
Interactions of the HIV-1 Tat and RAP74 proteins with the RNA polymerase II CTD phosphatase FCP1.
Biochemistry. 2005 Mar 1;44(8):2716-31.
PMID: 15723517 [PubMed - indexed for MEDLINE]
 

Emre NC, Ingvarsdottir K, Wyce A, Wood A, Krogan NJ, Henry KW, Li K, Marmorstein R, Greenblatt JF, Shilatifard A, Berger SL.
Maintenance of low histone ubiquitylation by Ubp10 correlates with telomere-proximal Sir2 association and gene silencing.
Mol Cell. 2005 Feb 18;17(4):585-94.
PMID: 15721261 [PubMed - indexed for MEDLINE]

Savchenko A, Krogan N, Cort JR, Evdokimova E, Lew JM, Yee AA, Sanchez-Pulido L, Andrade MA, Bochkarev A, Watson JD, Kennedy MA, Greenblatt J, Hughes T, Arrowsmith CH, Rommens JM, Edwards AM.
The Shwachman-Bodian-Diamond syndrome protein family is involved in RNA metabolism.
J Biol Chem. 2005 May 13;280(19):19213-20. Epub 2005 Feb 8.
PMID: 15701634 [PubMed - indexed for MEDLINE]

Butland G, Peregrin-Alvarez JM, Li J, Yang W, Yang X, Canadien V, Starostine A, Richards D, Beattie B, Krogan N, Davey M, Parkinson J, Greenblatt J, Emili A.
Interaction network containing conserved and essential protein complexes in Escherichia coli.
Nature. 2005 Feb 3;433(7025):531-7.
PMID: 15690043 [PubMed - indexed for MEDLINE]

Ingvarsdottir K, Krogan NJ, Emre NC, Wyce A, Thompson NJ, Emili A, Hughes TR, Greenblatt JF, Berger SL.
H2B ubiquitin protease Ubp8 and Sgf11 constitute a discrete functional module within the Saccharomyces cerevisiae SAGA complex.
Mol Cell Biol. 2005 Feb;25(3):1162-72.
PMID: 15657441 [PubMed - indexed for MEDLINE]

Xiao T, Kao CF, Krogan NJ, Sun ZW, Greenblatt JF, Osley MA, Strahl BD.
Histone H2B ubiquitylation is associated with elongating RNA polymerase II.
Mol Cell Biol. 2005 Jan;25(2):637-51.
PMID: 15632065 [PubMed - indexed for MEDLINE]

Krogan NJ, Lam MH, Fillingham J, Keogh MC, Gebbia M, Li J, Datta N, Cagney G, Buratowski S, Emili A, Greenblatt JF.
Proteasome involvement in the repair of DNA double-strand breaks.
Mol Cell. 2004 Dec 22;16(6):1027-34.
PMID: 15610744 [PubMed - indexed for MEDLINE]

Morrison AJ, Highland J, Krogan NJ, Arbel-Eden A, Greenblatt JF, Haber JE, Shen X.
INO80 and gamma-H2AX interaction links ATP-dependent chromatin remodeling to DNA damage repair.
Cell. 2004 Dec 17;119(6):767-75.
PMID: 15607974 [PubMed - indexed for MEDLINE]

Zhang W, Morris QD, Chang R, Shai O, Bakowski MA, Mitsakakis N, Mohammad N, Robinson MD, Zirngibl R, Somogyi E, Laurin N, Eftekharpour E, Sat E, Grigull J, Pan Q, Peng WT, Krogan N, Greenblatt J, Fehlings M, van der Kooy D, Aubin J, Bruneau BG, Rossant J, Blencowe BJ, Frey BJ, Hughes TR.
The functional landscape of mouse gene expression.
J Biol. 2004;3(5):21. Epub 2004 Dec 6.
PMID: 15588312 [PubMed - in process]

Zhang JW, Butland G, Greenblatt JF, Emili A, Zamble DB.
A role for SlyD in the Escherichia coli hydrogenase biosynthetic pathway.
J Biol Chem. 2005 Feb 11;280(6):4360-6. Epub 2004 Nov 29.
PMID: 15569666 [PubMed - indexed for MEDLINE]

Kim M, Krogan NJ, Vasiljeva L, Rando OJ, Nedea E, Greenblatt JF, Buratowski S.
The yeast Rat1 exonuclease promotes transcription termination by RNA polymerase II.
Nature. 2004 Nov 25;432(7016):517-22. Erratum in: Nature. 2005 Feb 10;433(7026):661.
PMID: 15565157 [PubMed - indexed for MEDLINE]

Kong SE, Kobor MS, Krogan NJ, Somesh BP, Sogaard TM, Greenblatt JF, Svejstrup JQ.
Interaction of Fcp1 phosphatase with elongating RNA polymerase II holoenzyme,enzymatic mechanism of action, and genetic interaction with elongator.
J Biol Chem. 2005 Feb 11;280(6):4299-306. Epub 2004 Nov 24.
PMID: 15563457 [PubMed - indexed for MEDLINE]

Krogan NJ, Baetz K, Keogh MC, Datta N, Sawa C, Kwok TC, Thompson NJ, Davey MG, Pootoolal J, Hughes TR, Emili A, Buratowski S, Hieter P, Greenblatt JF.
Regulation of chromosome stability by the histone H2A variant Htz1, the Swr1 chromatin remodeling complex, and the histone acetyltransferase NuA4.
Proc Natl Acad Sci U S A. 2004 Sep 14;101(37):13513-8. Epub 2004 Sep 7.
PMID: 15353583 [PubMed - indexed for MEDLINE]
 

Jeronimo C, Langelier MF, Zeghouf M, Cojocaru M, Bergeron D, Baali D, Forget D, Mnaimneh S, Davierwala AP, Pootoolal J, Chandy M, Canadien V, Beattie BK, Richards DP, Workman JL, Hughes TR, Greenblatt J, Coulombe B.
RPAP1, a novel human RNA polymerase II-associated protein affinity purified with recombinant wild-type and mutated polymerase subunits.
Mol Cell Biol. 2004 Aug;24(16):7043-58.
PMID: 15282305 [PubMed - indexed for MEDLINE]

Zeghouf M, Li J, Butland G, Borkowska A, Canadien V, Richards D, Beattie B, Emili A, Greenblatt JF.
Sequential Peptide Affinity (SPA) system for the identification of mammalian and bacterial protein complexes.
J Proteome Res. 2004 May-Jun;3(3):463-8.
PMID: 15253427 [PubMed - indexed for MEDLINE]

Mnaimneh S, Davierwala AP, Haynes J, Moffat J, Peng WT, Zhang W, Yang X, Pootoolal J, Chua G, Lopez A, Trochesset M, Morse D, Krogan NJ, Hiley SL, Li Z, Morris Q, Grigull J, Mitsakakis N, Roberts CJ, Greenblatt JF, Boone C, Kaiser CA, Andrews BJ, Hughes TR.
Exploration of essential gene functions via titratable promoter alleles.
Cell. 2004 Jul 9;118(1):31-44.
PMID: 15242642 [PubMed - indexed for MEDLINE]

Sawa C, Nedea E, Krogan N, Wada T, Handa H, Greenblatt J, Buratowski S.
Bromodomain factor 1 (Bdf1) is phosphorylated by protein kinase CK2.
Mol Cell Biol. 2004 Jun;24(11):4734-42.
PMID: 15143168 [PubMed - indexed for MEDLINE]
 

Fath S, Kobor MS, Philippi A, Greenblatt J, Tschochner H.
Dephosphorylation of RNA polymerase I by Fcp1p is required for efficient rRNA synthesis.
J Biol Chem. 2004 Jun 11;279(24):25251-9. Epub 2004 Apr 8.
PMID: 15073185 [PubMed - indexed for MEDLINE]

Peng WT, Krogan NJ, Richards DP, Greenblatt JF, Hughes TR.
ESF1 is required for 18S rRNA synthesis in Saccharomyces cerevisiae.
Nucleic Acids Res. 2004 Mar 31;32(6):1993-9. Print 2004.
PMID: 15056729 [PubMed - indexed for MEDLINE]

Tong AH, Lesage G, Bader GD, Ding H, Xu H, Xin X, Young J, Berriz GF, Brost RL, Chang M, Chen Y, Cheng X, Chua G, Friesen H, Goldberg DS, Haynes J, Humphries C, He G, Hussein S, Ke L, Krogan N, Li Z, Levinson JN, Lu H, Menard P, Munyana C, Parsons AB, Ryan O, Tonikian R, Roberts T, Sdicu AM, Shapiro J, Sheikh B, Suter B, Wong SL, Zhang LV, Zhu H, Burd CG, Munro S, Sander C, Rine J,Greenblatt J, Peter M, Bretscher A, Bell G, Roth FP, Brown GW, Andrews B, Bussey H, Boone C.
Global mapping of the yeast genetic interaction network.
Science. 2004 Feb 6;303(5659):808-13.
PMID: 14764870 [PubMed - indexed for MEDLINE]

Krogan NJ, Peng WT, Cagney G, Robinson MD, Haw R, Zhong G, Guo X, Zhang X, Canadien V, Richards DP, Beattie BK, Lalev A, Zhang W, Davierwala AP, Mnaimneh S, Starostine A, Tikuisis AP, Grigull J, Datta N, Bray JE, Hughes TR, Emili A, Greenblatt JF.
High-definition macromolecular composition of yeast RNA-processing complexes.
Mol Cell. 2004 Jan 30;13(2):225-39.
PMID: 14759368 [PubMed - indexed for MEDLINE]

Kim M, Ahn SH, Krogan NJ, Greenblatt JF, Buratowski S.
Transitions in RNA polymerase II elongation complexes at the 3' ends of genes.
EMBO J. 2004 Jan 28;23(2):354-64. Epub 2004 Jan 22.
PMID: 14739930 [PubMed - indexed for MEDLINE]

Baetz KK, Krogan NJ, Emili A, Greenblatt J, Hieter P.
The ctf13-30/CTF13 genomic haploinsufficiency modifier screen identifies the yeast chromatin remodeling complex RSC, which is required for the establishment of sister chromatid cohesion.
Mol Cell Biol. 2004 Feb;24(3):1232-44.
PMID: 14729968 [PubMed - indexed for MEDLINE]

Krogan NJ, Keogh MC, Datta N, Sawa C, Ryan OW, Ding H, Haw RA, Pootoolal J, Tong A, Canadien V, Richards DP, Wu X, Emili A, Hughes TR, Buratowski S, Greenblatt JF.
A Snf2 family ATPase complex required for recruitment of the histone H2A variant Htz1.
Mol Cell. 2003 Dec;12(6):1565-76.
PMID: 14690608 [PubMed - indexed for MEDLINE]

Jansen R, Yu H, Greenbaum D, Kluger Y, Krogan NJ, Chung S, Emili A, Snyder M, Greenblatt JF, Gerstein M.
A Bayesian networks approach for predicting protein-protein interactions from genomic data.
Science. 2003 Oct 17;302(5644):449-53.
PMID: 14564010 [PubMed - indexed for MEDLINE]

Nedea E, He X, Kim M, Pootoolal J, Zhong G, Canadien V, Hughes T, Buratowski S, Moore CL, Greenblatt J.
Organization and function of APT, a subcomplex of the yeast cleavage and polyadenylation factor involved in the formation of mRNA and small nucleolar RNA 3'-ends.
J Biol Chem. 2003 Aug 29;278(35):33000-10. Epub 2003 Jun 20.
PMID: 12819204 [PubMed - indexed for MEDLINE]

Peng WT, Robinson MD, Mnaimneh S, Krogan NJ, Cagney G, Morris Q, Davierwala AP, Grigull J, Yang X, Zhang W, Mitsakakis N, Ryan OW, Datta N, Jojic V, Pal C, Canadien V, Richards D, Beattie B, Wu LF, Altschuler SJ, Roweis S, Frey BJ, Emili A, Greenblatt JF, Hughes TR.
A panoramic view of yeast noncoding RNA processing.
Cell. 2003 Jun 27;113(7):919-33.
PMID: 12837249 [PubMed - indexed for MEDLINE]

Krogan NJ, Kim M, Tong A, Golshani A, Cagney G, Canadien V, Richards DP, Beattie BK, Emili A, Boone C, Shilatifard A, Buratowski S, Greenblatt J.
Methylation of histone H3 by Set2 in Saccharomyces cerevisiae is linked to transcriptional elongation by RNA polymerase II.
Mol Cell Biol. 2003 Jun;23(12):4207-18.
PMID: 12773564 [PubMed - indexed for MEDLINE]

Krogan NJ, Dover J, Wood A, Schneider J, Heidt J, Boateng MA, Dean K, Ryan OW, Golshani A, Johnston M, Greenblatt JF, Shilatifard A.
The Paf1 complex is required for histone H3 methylation by COMPASS and Dot1p: linking transcriptional elongation to histone methylation.
Mol Cell. 2003 Mar;11(3):721-9.
PMID: 12667454 [PubMed - indexed for MEDLINE]

Wood A, Krogan NJ, Dover J, Schneider J, Heidt J, Boateng MA, Dean K, Golshani A, Zhang Y, Greenblatt JF, Johnston M, Shilatifard A.
Bre1, an E3 ubiquitin ligase required for recruitment and substrate selection of Rad6 at a promoter.
Mol Cell. 2003 Jan;11(1):267-74.
PMID: 12535539 [PubMed - indexed for MEDLINE]

Krogan NJ, Kim M, Ahn SH, Zhong G, Kobor MS, Cagney G, Emili A, Shilatifard A, Buratowski S, Greenblatt JF.
RNA polymerase II elongation factors of Saccharomyces cerevisiae: a targeted proteomics approach.
Mol Cell Biol. 2002 Oct;22(20):6979-92.
PMID: 12242279 [PubMed - indexed for MEDLINE]

Krogan NJ, Dover J, Khorrami S, Greenblatt JF, Schneider J, Johnston M, Shilatifard A.
COMPASS, a histone H3 (Lysine 4) methyltransferase required for telomeric silencing of gene expression.
J Biol Chem. 2002 Mar 29;277(13):10753-5. Epub 2002 Jan 22.
PMID: 11805083 [PubMed - indexed for MEDLINE]

Krogan NJ, Greenblatt JF.
Characterization of a six-subunit holo-elongator complex required for the regulated expression of a group of genes in Saccharomyces cerevisiae.
Mol Cell Biol. 2001 Dec;21(23):8203-12.
PMID: 11689709 [PubMed - indexed for MEDLINE]

Miller T, Krogan NJ, Dover J, Erdjument-Bromage H, Tempst P, Johnston M, Greenblatt JF, Shilatifard A.
COMPASS: a complex of proteins associated with a trithorax-related SET domain protein.
Proc Natl Acad Sci U S A. 2001 Nov 6;98(23):12902-7. Epub 2001 Oct 30. Erratum in: Proc Natl Acad Sci U S A 2001 Dec 18;98(26):15393-4.
PMID: 11687631 [PubMed - indexed for MEDLINE]