研究领域
The Krogan Lab is located at the University of California-San Francisco (UCSF), at Mission Bay Campus.
We focus on generating large-scale quantitative genetic and physical interaction maps in several organisms.
We then use these maps to formulate hypotheses about various biological processes, including transcriptional regulation, DNA repair/replication and RNA processing, that we ultimately test.
We are also developing tools and software to help facilitate integration and navigation of these different datasets with the ultimate goal of further understanding cell physiology.
近期论文
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Identification of a novel bromodomain/casein kinase II/TAF-containing complex as a regulator of mitotic condensin function
Kim, H. S., R. Mukhopadhyay, S. B. Rothbart, A. C. Silva, V. Vanoosthuyse, E. Radovani, T. Kislinger, A. Roguev, C. J. Ryan, J. Xu, H. Jahari, K. G. Hardwock, J. F. Greenblatt, N. J. Krogan, J. S. Fillingham, B. D. Strahl, E. E. Bouhassira, W. Edelmann and M. C. Keogh.
Cell Reports, in press.
A chaperone-assisted degradation pathway targets kinetochore proteins to ensure genome stability.
Kriegenburg F, Jakopec V, Poulsen EG, Nielsen SV, Roguev A, Krogan N, Gordon C, Fleig U, Hartmann-Petersen R.
PLoS Genet. 2014 Jan 30;10(1):e1004140. doi: 10.1371/journal.pgen.1004140. eCollection 2014 Jan.
PMID: 24497846
IFI16 DNA sensor is required for death of lymphoid CD4 T cells abortively infected with HIV.
Monroe KM, Yang Z, Johnson JR, Geng X, Doitsh G, Krogan NJ, Greene WC.
Science. 2014 Jan 24;343(6169):428-32. doi: 10.1126/science.1243640. Epub 2013 Dec 19.
PMID: 24356113
Set5 and Set1 cooperate to repress gene expression at telomeres and retrotransposons.
Martín GM, King DA, Green EM, Garcia-Nieto PE, Alexander R, Collins SR, Krogan NJ, Gozani OP, Morrison AJ.
Epigenetics. 2014 Jan 17;9(4). [Epub ahead of print]
PMID: 24442241
A Pil1-Sle1-Syj1-Tax4 functional pathway links eisosomes with PI(4,5)P2 regulation.
Kabeche R, Roguev A, Krogan NJ, Moseley JB.
J Cell Sci. 2014 Jan 16. [Epub ahead of print]
PMID: 24434583
AFF1 is a ubiquitous P-TEFb partner to enable Tat extraction of P-TEFb from 7SK snRNP and formation of SECs for HIV transactivation.
Lu H, Li Z, Xue Y, Schulze-Gahmen U, Johnson JR, Krogan NJ, Alber T, Zhou Q.
Proc Natl Acad Sci U S A. 2014 Jan 7;111(1):E15-24. doi: 10.1073/pnas.1318503111. Epub 2013 Dec 23.
PMID: 24367103
Evolution and functional cross-talk of protein post-translational modifications.
Beltrao P, Bork P, Krogan NJ, van Noort V.
Mol Syst Biol. 2013 Dec 22;9:714. doi: 10.1002/msb.201304521. Print 2013.
PMID: 24366814
Chemical genetics of rapamycin-insensitive TORC2 in S. cerevisiae.
Kliegman JI, Fiedler D, Ryan CJ, Xu YF, Su XY, Thomas D, Caccese MC, Cheng A, Shales M, Rabinowitz JD, Krogan NJ, Shokat KM.
Cell Rep. 2013 Dec 26;5(6):1725-36. doi: 10.1016/j.celrep.2013.11.040. Epub 2013 Dec 19.
PMID: 24360963
High-resolution network biology: connecting sequence with function.
Ryan CJ, Cimermancic P, Szpiech ZA, Sali A, Hernandez RD, Krogan NJ.
Nat Rev Genet. 2013 Dec;14(12):865-79. doi: 10.1038/nrg3574. Epub 2013 Nov 7. Review.
PMID: 24197012
The prefoldin complex regulates chromatin dynamics during transcription elongation.
Millán-Zambrano G, Rodríguez-Gil A, Peñate X, de Miguel-Jiménez L, Morillo-Huesca M, Krogan N, Chávez S.
PLoS Genet. 2013;9(9):e1003776. doi: 10.1371/journal.pgen.1003776. Epub 2013 Sep 19.
PMID: 24068951
High-throughput genetic and gene expression analysis of the RNAPII-CTD reveals unexpected connections to SRB10/CDK8.
Aristizabal MJ, Negri GL, Benschop JJ, Holstege FC, Krogan NJ, Kobor MS.
PLoS Genet. 2013 Aug;9(8):e1003758. doi: 10.1371/journal.pgen.1003758. Epub 2013 Aug 29.
PMID: 24009531
From structure to systems: high-resolution, quantitative genetic analysis of RNA polymerase II.
Braberg H, Jin H, Moehle EA, Chan YA, Wang S, Shales M, Benschop JJ, Morris JH, Qiu C, Hu F, Tang LK, Fraser JS, Holstege FC, Hieter P, Guthrie C, Kaplan CD, Krogan NJ.
Cell. 2013 Aug 15;154(4):775-88. doi: 10.1016/j.cell.2013.07.033. Epub 2013 Aug 8.
PMID: 23932120
A lipid E-MAP identifies Ubx2 as a critical regulator of lipid saturation and lipid bilayer stress.
Surma MA, Klose C, Peng D, Shales M, Mrejen C, Stefanko A, Braberg H, Gordon DE, Vorkel D, Ejsing CS, Farese R Jr, Simons K, Krogan NJ, Ernst R.
Mol Cell. 2013 Aug 22;51(4):519-30. doi: 10.1016/j.molcel.2013.06.014. Epub 2013 Jul 25.
PMID: 23891562
Global analysis of phosphorylation and ubiquitylation crosstalk in protein degradation.
Swaney DL, Beltrao P, Starita L, Guo A, Rush J, Fields S, Krogan NJ, Villén J.
Nat Methods. 2013 Jul;10(7):676-82. doi: 10.1038/nmeth.2519. Epub 2013 Jun 9.
PMID:23749301
Systematic triple mutant analysis uncovers functional connectivity between pathways involved in chromosome regulation.
Haber JE, Braberg H, Wu Q, Alexander R, Haase J, Ryan C, Lipkin-Moore Z, Franks-Skiba KE, Johnson T, Shales M, Johnson JR, Bloom K, Krogan NJ.
Cell Reports. 2013 Jun 27;3(6):2168-78. Epub 2013 Jun 6.
PMID:23746449
Bringing it all together: big data and HIV research.
Bushman FD, Barton S, Bailey A, Greig C, Malani N, Bandyopadhyay S, Young JA, Chanda S, Krogan NJ.
AIDS. 27(5):835-838, March 13, 2013.
PMID:23719353
All or nothing: protein complexes flip essentiality between distantly related eukaryotes.
Ryan CJ, Krogan NJ, Cunningham P, Cagney G.
Genome Biol Evol. 2013;5(6):1049-59. doi: 10.1093/gbe/evt074.
PMID: 23661563
The AFF4 scaffold binds human P-TEFb adjacent to HIV Tat.
Schulze-Gahmen U, Upton H, Birnberg A, Bao K, Chou S, Krogan NJ, Zhou Q, Alber T.
Elife. 2013;2:e00327. doi: 10.7554/eLife.00327. Epub 2013 Mar 5.
PMID:23471103
Quantitative genetic interaction mapping in mammalian cells.
Roguev A, Talbot D, Negri GL, Shales M, Cagney G, Bandyopadhyay S*, Panning B*, Krogan NJ* (*co-corresponding).
Nat Methods. 2013 Feb 13.
PMID: 23407553
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