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Paul Khavari

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Paul A. Khavari is the Carl J. Herzog Professor[1] at the Stanford University School of Medicine and the Founding Co-Director of the Stanford Program in Epithelial Biology.[2] He is an elected member of the National Academy of Medicine.[3]

The Khavari Laboratory uses multiomic and computational approaches to study stem cell differentiation, cancer, and the genomics of common polygenic human diseases.

Education

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Khavari studied biology and history at Stanford University then earned an MD at Yale School of Medicine.[4] He did research at the Brigham and Women's Hospital[4] and Harvard Medical School before undertaking Dermatology residency training at Yale.[5] He completed PhD studies in the laboratory of Gerald Crabtree at the Stanford University School of Medicine.[6]

Academic career

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Khavari joined the Stanford faculty in 1993,[7] and began service as Chief of Dermatology at the VA Palo Alto Healthcare System.[7][8] In 1999, he co-founded the Stanford Program in Epithelial Biology with Dr. Tony Oro and has served as Co-Director since.[9] In 2010, he was appointed Chair of the Stanford University School of Medicine Department of Dermatology,[10] a leading dermatology department globally. He was one of three Stanford faculty members elected to the Institute of Medicine (now National Academy of Medicine) in 2014.[11][1]

Research in the Khavari laboratory focuses on genome regulation, signaling, noncoding RNAs,[12] and innovating new human tissue genetic models, with a special focus on the cutaneous epidermis. The lab accomplished the first genetic corrections of human skin tissue,[13] defined the minimal oncogenic gene set needed to transform normal human tissues into cancer,[14] and identified the kinetics of human malignant transformation using novel human tissue cancer models.[15] The Khavari group also identified new essential roles for a number of regulators in epidermal homeostasis, including ZNF750, MAF, MAFB, PRMT1, CSNK1A1, EHF, MPZL3, FDXR, TINCR, and ACTL6A.[16] It uncovered new regulators and effectors of Ras GTPases, including small noncoding snoRNAs as direct Ras-binders that modulate its function and mTORC2 as a new direct Ras downstream effector critical for the pro-proliferation impacts of Ras signaling.[17] The lab defined two major classes of genomic enhancers[18] in dynamic gene regulation and used multiomics and deep learning approaches to decode the combinatorial cis-regulatory DNA motif lexicon that drives epidermal differentiation.[19] The lab has innovated a number of technologies, including single cell perturb-ATAC-seq,[20] RNA protein interaction detection (RAPID),[21] RNA-protein microarray hybridization,[22] and mosaic human skin tissue models.[23] In cancer studies, the Khavari lab identified and characterized tumor specific keratinocytes in cutaneous squamous cell cancer,[24] characterized a new tumor suppressor pathway,[25] and defined a new sunlight induced oncogene in skin cancer.[26]

Selected Honors and Awards

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Khavari has received a number of honors and awards, including most recently the Stephan Rothman Memorial Award, the highest award given by the Society of Investigative Dermatology.[27]

2021             Stephen Rothman Memorial Award, Society for Investigative Dermatology [27]

2018             Kligman-Frost Leadership Award, Society for Investigative Dermatology

2016             Lila & Murray Gruber Cancer Research Award, American Academy of Dermatology[28]

2014             National Academy of Medicine[29]

2012             American Skin Association 25th Anniversary Lifetime Scientific Achievement Award[30]

2009             American Association of Physicians

2008             Tanioku Kihei Memorial Award, Japanese Society for Investigative Dermatology[31]

2004             Marion B. Sulzberger Memorial Award, American Academy of Dermatology[32]

2004             William Montagna Award, Society for Investigative Dermatology

1999             American Society for Clinical Investigation

1998             HHMI Junior Faculty Scholar Award, Stanford University[33]

1997             V.A. Young Investigator Award, V.A. Palo Alto Health Care System[34]

1996             U.S. Presidential Early Career Award for Scientists and Engineers

1995             Shannon Award, National Institutes of Health

Notable Trainees and their current Affiliation

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  • Keith Choate, Yale
  • Jennifer Zhang, Duke
  • Min Fang, University of Washington
  • Yoshi Kubo, University of Tokushima
  • Cornelia Seitz, Goettingen
  • Masahito Tarutani, Tokyo University
  • Zurab Siprashvili, Stanford
  • Kun Qu, USTC
  • George Sen, UCSD
  • Susana Ortiz-Urda, UCSF
  • Todd Ridky, University of Pennsylvania
  • Kavita Sarin, Stanford
  • Jennifer Chen, Stanford
  • Lisa Boxer, NIH
  • Cari Lee, Stanford
  • Markus Kretz, University of Regensburg
  • Xiaomin Bao, Northwestern
  • Bryan Sun, UCSD
  • Eon Rios, Stanford
  • Aparna Bhaduri, UCLA
  • Andrew Ji, Mount Sinai  

References

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  1. ^ a b "Three faculty members elected to Institute of Medicine". Stanford.edu. Retrieved 2021-05-10.
  2. ^ "Stanford University School of Medicine | SFB 829". Retrieved 2021-05-10.
  3. ^ Penn, Tiffany (October 30, 2014). "Paul Khavari, M.D. '88, Ph.D., HS '90, elected to Institute of Medicine". Yale School of Medicine. Yale.edu. Retrieved July 21, 2021.
  4. ^ a b "Med School appointments, promotions: 6/3/98". Stanford. Retrieved 2021-07-21.
  5. ^ Conger, Krista (17 January 2010). "Paul Khavari appointed dermatology chair". Stanford.edu. Retrieved 2021-07-21.
  6. ^ "Gerald Crabtree". SFARI. 2017-07-21. Retrieved 2021-05-10.
  7. ^ a b "Two young Stanford scientists receive Presidential award (1/97)". Stanford. Retrieved 2021-07-21.
  8. ^ Begley, Sharon (11 November 2005). "Nature's Many Quirks Limit the Possibilities Of DNA-Based Drugs". Wall Street Journal. ProQuest 398992336.
  9. ^ "Stanford University School of Medicine | SFB 829". Retrieved 2021-07-21.
  10. ^ Conger, Krista (17 January 2010). "Paul Khavari appointed dermatology chair". med.stanford.edu (in Samoan). Retrieved 2021-05-10.
  11. ^ "Institute of Medicine Elects 70 New Members, 10 Foreign Associates". www8.nationalacademies.org. Retrieved 2021-05-10.
  12. ^ Lee, Carolyn S.; Mah, Angela; Aros, Cody J.; Lopez-Pajares, Vanessa; Bhaduri, Aparna; Webster, Dan E.; Kretz, Markus; Khavari, Paul A. (June 2018). "Cancer-Associated Long Noncoding RNA SMRT-2 Controls Epidermal Differentiation". Journal of Investigative Dermatology. 138 (6): 1445–1449. doi:10.1016/j.jid.2018.01.003. PMC 6814294. PMID 29360484.[non-primary source needed]
  13. ^ Choate, Keith A.; Medalie, Dan A.; Morgan, Jeff R.; Khavari, Paul A. (November 1996). "Corrective gene transfer in the human skin disorder lamellar ichthyosis". Nature Medicine. 2 (11): 1263–1267. doi:10.1038/nm1196-1263. PMID 8898758. S2CID 22281798.[non-primary source needed]
  14. ^ Bolotin, Diana; Fuchs, Elaine (February 2003). "More than skin deep". Nature. 421 (6923): 594–595. doi:10.1038/421594a. PMID 12571582. S2CID 4424529.
  15. ^ Stuart, Darrin D; Sellers, William R (May 2013). "Targeting RAF-MEK-ERK kinase-scaffold interactions in cancer". Nature Medicine. 19 (5): 538–540. doi:10.1038/nm.3195. PMID 23652103. S2CID 6492513.
  16. ^ Boxer, Lisa D.; Barajas, Brook; Tao, Shiying; Zhang, Jiajing; Khavari, Paul A. (15 September 2014). "ZNF750 interacts with KLF4 and RCOR1, KDM1A, and CTBP1/2 chromatin regulators to repress epidermal progenitor genes and induce differentiation genes". Genes & Development. 28 (18): 2013–2026. doi:10.1101/gad.246579.114. PMC 4173152. PMID 25228645.[non-primary source needed]
  17. ^ Kovalski, Joanna R.; Bhaduri, Aparna; Zehnder, Ashley M.; Neela, Poornima H.; Che, Yonglu; Wozniak, Glenn G.; Khavari, Paul A. (February 2019). "The Functional Proximal Proteome of Oncogenic Ras Includes mTORC2". Molecular Cell. 73 (4): 830–844.e12. doi:10.1016/j.molcel.2018.12.001. PMC 6386588. PMID 30639242.[non-primary source needed]
  18. ^ Conger, Krista (2017-08-15). "Genome architecture guides stem cell fate, Stanford researchers find". Scope. Retrieved 2021-05-10.
  19. ^ Kim, Daniel S.; Risca, Viviana I.; Reynolds, David L.; Chappell, James; Rubin, Adam J.; Jung, Namyoung; Donohue, Laura K. H.; Lopez-Pajares, Vanessa; Kathiria, Arwa; Shi, Minyi; Zhao, Zhixin; Deep, Harsh; Sharmin, Mahfuza; Rao, Deepti; Lin, Shin; Chang, Howard Y.; Snyder, Michael P.; Greenleaf, William J.; Kundaje, Anshul; Khavari, Paul A. (November 2021). "The dynamic, combinatorial cis-regulatory lexicon of epidermal differentiation". Nature Genetics. 53 (11): 1564–1576. doi:10.1038/s41588-021-00947-3. PMC 8763320. PMID 34650237. S2CID 238990464.[non-primary source needed]
  20. ^ Rubin, Adam J.; Parker, Kevin R.; Satpathy, Ansuman T.; Qi, Yanyan; Wu, Beijing; Ong, Alvin J.; Mumbach, Maxwell R.; Ji, Andrew L.; Kim, Daniel S.; Cho, Seung Woo; Zarnegar, Brian J.; Greenleaf, William J.; Chang, Howard Y.; Khavari, Paul A. (January 2019). "Coupled Single-Cell CRISPR Screening and Epigenomic Profiling Reveals Causal Gene Regulatory Networks". Cell. 176 (1–2): 361–376.e17. doi:10.1016/j.cell.2018.11.022. PMC 6329648. PMID 30580963.[non-primary source needed]
  21. ^ Ramanathan, Muthukumar; Porter, Douglas F.; Khavari, Paul A. (March 2019). "Methods to study RNA–protein interactions". Nature Methods. 16 (3): 225–234. doi:10.1038/s41592-019-0330-1. PMC 6692137. PMID 30804549.[non-primary source needed]
  22. ^ Kretz, Markus; Siprashvili, Zurab; Chu, Ci; Webster, Dan E.; Zehnder, Ashley; Qu, Kun; Lee, Carolyn S.; Flockhart, Ross J.; Groff, Abigail F.; Chow, Jennifer; Johnston, Danielle; Kim, Grace E.; Spitale, Robert C.; Flynn, Ryan A.; Zheng, Grace X. Y.; Aiyer, Subhadra; Raj, Arjun; Rinn, John L.; Chang, Howard Y.; Khavari, Paul A. (January 2013). "Control of somatic tissue differentiation by the long non-coding RNA TINCR". Nature. 493 (7431): 231–235. Bibcode:2013Natur.493..231K. doi:10.1038/nature11661. PMC 3674581. PMID 23201690.[non-primary source needed]
  23. ^ Sen, George L.; Reuter, Jason A.; Webster, Daniel E.; Zhu, Lilly; Khavari, Paul A. (28 January 2010). "DNMT1 maintains progenitor function in self-renewing somatic tissue". Nature. 463 (7280): 563–567. Bibcode:2010Natur.463..563S. doi:10.1038/nature08683. PMC 3050546. PMID 20081831.[non-primary source needed]
  24. ^ Ji, Andrew L.; Rubin, Adam J.; Thrane, Kim; Jiang, Sizun; Reynolds, David L.; Meyers, Robin M.; Guo, Margaret G.; George, Benson M.; Mollbrink, Annelie; Bergenstråhle, Joseph; Larsson, Ludvig; Bai, Yunhao; Zhu, Bokai; Bhaduri, Aparna; Meyers, Jordan M.; Rovira-Clavé, Xavier; Hollmig, S. Tyler; Aasi, Sumaira Z.; Nolan, Garry P.; Lundeberg, Joakim; Khavari, Paul A. (September 2020). "Multimodal Analysis of Composition and Spatial Architecture in Human Squamous Cell Carcinoma". Cell. 182 (6): 1661–1662. doi:10.1016/j.cell.2020.08.043. PMC 7505493. PMID 32946785.[non-primary source needed]
  25. ^ Ungewickell, Alexander; Bhaduri, Aparna; Rios, Eon; Reuter, Jason; Lee, Carolyn S; Mah, Angela; Zehnder, Ashley; Ohgami, Robert; Kulkarni, Shashikant; Armstrong, Randall; Weng, Wen-Kai; Gratzinger, Dita; Tavallaee, Mahkam; Rook, Alain; Snyder, Michael; Kim, Youn; Khavari, Paul A (September 2015). "Genomic analysis of mycosis fungoides and Sézary syndrome identifies recurrent alterations in TNFR2". Nature Genetics. 47 (9): 1056–1060. doi:10.1038/ng.3370. PMC 6091217. PMID 26258847.[non-primary source needed]
  26. ^ Lee, Carolyn S; Bhaduri, Aparna; Mah, Angela; Johnson, Whitney L; Ungewickell, Alexander; Aros, Cody J; Nguyen, Christie B; Rios, Eon J; Siprashvili, Zurab; Straight, Aaron; Kim, Jinah; Aasi, Sumaira Z; Khavari, Paul A (October 2014). "Recurrent point mutations in the kinetochore gene KNSTRN in cutaneous squamous cell carcinoma". Nature Genetics. 46 (10): 1060–1062. doi:10.1038/ng.3091. PMC 4324615. PMID 25194279.[non-primary source needed]
  27. ^ a b "Paul Khavari, MD/PhD | 2021 SID Virtual Meeting | 2021 SID Awardees". SID Annual Meeting. Retrieved 2021-05-10.
  28. ^ "Lila and Murray Gruber Memorial Cancer Research Award and Lectureship". www.aad.org. Retrieved 2021-10-18.
  29. ^ "Three faculty members elected to Institute of Medicine". News Center (in Samoan). Retrieved 2021-10-18.
  30. ^ "American Skin Association (ASA) Celebrates 25th Anniversary". American Skin Association (Press release). Retrieved 2021-10-18.
  31. ^ "Tanioku Kihei Memorial Award - The Japanese Society for Investigative Dermatology". www.jsid.org. Retrieved 2021-10-18.
  32. ^ П.М. Мазуркин (2013). ДИНАМИКА АЛЬФА-АКТИВНОСТИ ОБРАЗЦА 239PU В РАЗЛИЧНЫХ ШКАЛАХ ВРЕМЕНИ. Science and World. 2 (2). doi:10.18411/a-2017-023.
  33. ^ "Med School appointments, promotions: 6/3/98". Stanford. Retrieved 2021-10-18.
  34. ^ "Two young Stanford scientists receive Presidential award (1/97)". Stanford. Retrieved 2021-10-18.
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