Research Funding

  • May 1, 2012 - May 31, 2022 - Cryptococcus knockout and tag resource, Principal Investigator. Sponsor: NIH/NIAID, Sponsor Award ID: R01AI100272
  • January 22, 2020 - December 31, 2021 - Intracellular Recognition of Fungi by the Innate Immune System, Principal Investigator. Sponsor: NIH/NIAID, Sponsor Award ID: R21AI150083
  • July 1, 2015 - June 30, 2020 - Epigenetic control of virulence in a fungal meningitis pathogen, Principal Investigator. Sponsor: NIH/NIAID, Sponsor Award ID: R01AI120464
  • May 1, 2017 - April 30, 2018 - Peptide-based signaling and virulence in Cryptococcus neoformans, Principal Investigator. Sponsor: NIH/NIAID, Sponsor Award ID: R56AI126726

Education

Stanford University, Stanford, California, B.S., M.S., 1986, Biological Sciences
University of California, San Francisco, Ph.D., 1993, Genetics
University of California, San Francisco, M.D., 1995, Medicine
Whitehead Institute, Cambridge, Massachusetts, Postdoctoral, 1995-1999, Signal Transduction

Honors & Awards

  • 1987
    Dean's Prize for Student Research, University of California, San Francisco
  • 1988
    Dean's Prize for Student Research, University of California, San Francisco
  • 1991-1992
    Chancellor's Fellowship, University of California, San Francisco
  • 1996
    Finalist, Pharmacia-Science Prize
  • 1995-1998
    Helen Hay Whitney Foundation Postdoctoral Research Fellowship
  • 1998-1999
    Burroughs-Wellcome Fund Career Development Award
  • 2000-2005
    David and Lucile Packard Foundation Fellowship for Scientists and Engineers
  • 1999-2002
    Burroughs-Wellcome Fund Career Development Award
  • 2005-2010
    Leukemia and Lymphoma Society Scholar
  • 2017
    Named to first cohort of Chan Zuckerberg Biohub Investigators

Selected Publications

  1. Kryštufek R, Šácha P, Starková J, Brynda J, Hradilek M, Tloušt'ová E, Grzymska J, Rut W, Boucher MJ, Drag M, Majer P, Hájek M, Rezácová P, Madhani HD, Craik CS, Konvalinka J. Re-emerging Aspartic Protease Targets: Examining Cryptococcus neoformans Major Aspartyl Peptidase 1 as a Target for Antifungal Drug Discovery. J Med Chem. 2021 05 27; 64(10):6706-6719.  View on PubMed
  2. Madhani HD. Unbelievable but True: Epigenetics and Chromatin in Fungi. Trends Genet. 2021 01; 37(1):12-20.  View on PubMed
  3. Summers DK, Perry DS, Rao B, Madhani HD. Coordinate genomic association of transcription factors controlled by an imported quorum sensing peptide in Cryptococcus neoformans. PLoS Genet. 2020 09; 16(9):e1008744.  View on PubMed
  4. Dang EV, Madhani HD, Vance RE. Cholesterol in quarantine. Nat Immunol. 2020 07; 21(7):716-717.  View on PubMed
  5. Dumesic PA, Stoddard CI, Catania S, Narlikar GJ, Madhani HD. ATP Hydrolysis by the SNF2 Domain of Dnmt5 Is Coupled to Both Specific Recognition and Modification of Hemimethylated DNA. Mol Cell. 2020 07 02; 79(1):127-139.e4.  View on PubMed
  6. Wallace EWJ, Maufrais C, Sales-Lee J, Tuck LR, de Oliveira L, Feuerbach F, Moyrand F, Natarajan P, Madhani HD, Janbon G. Quantitative global studies reveal differential translational control by start codon context across the fungal kingdom. Nucleic Acids Res. 2020 03 18; 48(5):2312-2331.  View on PubMed
  7. Catania S, Dumesic PA, Pimentel H, Nasif A, Stoddard CI, Burke JE, Diedrich JK, Cooke S, Shea T, Gienger E, Lintner R, Yates JR, Hajkova P, Narlikar GJ, Cuomo CA, Pritchard JK, Madhani HD. Evolutionary Persistence of DNA Methylation for Millions of Years after Ancient Loss of a De Novo Methyltransferase. Cell. 2020 Feb 20; 180(4):816.  View on PubMed
  8. Catania S, Dumesic PA, Pimentel H, Nasif A, Stoddard CI, Burke JE, Diedrich JK, Cook S, Shea T, Geinger E, Lintner R, Yates JR, Hajkova P, Narlikar GJ, Cuomo CA, Pritchard JK, Madhani HD. Evolutionary Persistence of DNA Methylation for Millions of Years after Ancient Loss of a De Novo Methyltransferase. Cell. 2020 01 23; 180(2):263-277.e20.  View on PubMed
  9. Burke JE, Longhurst AD, Natarajan P, Rao B, Liu J, Sales-Lee J, Mortensen Y, Moresco JJ, Diedrich JK, Yates JR, Madhani HD. A Non-Dicer RNase III and Four Other Novel Factors Required for RNAi-Mediated Transposon Suppression in the Human Pathogenic Yeast Cryptococcus neoformans. G3 (Bethesda). 2019 07 09; 9(7):2235-2244.  View on PubMed
  10. Burke JE, Longhurst AD, Natarajan P, Rao B, Liu J, Sales-Lee J, Mortensen Y, Moresco JJ, Diedrich JK, Yates JR, Madhani HD. A Non-Dicer RNase III and Four Other Novel Factors Required for RNAi-Mediated Transposon Suppression in the Human Pathogenic Yeast Cryptococcus neoformans. G3 (Bethesda). 2019 Jul 01; 9(7):2235-2244.  View on PubMed
  11. Brimacombe CA, Burke JE, Parsa JY, Catania S, O'Meara TR, Witchley JN, Burrack LS, Madhani HD, Noble SM. A natural histone H2A variant lacking the Bub1 phosphorylation site and regulated depletion of centromeric histone CENP-A foster evolvability in Candida albicans. PLoS Biol. 2019 06; 17(6):e3000331.  View on PubMed
  12. Harrigan P, Madhani HD, El-Samad H. Real-Time Genetic Compensation Defines the Dynamic Demands of Feedback Control. Cell. 2018 10 18; 175(3):877-886.e10.  View on PubMed
  13. Mavor D, Barlow KA, Asarnow D, Birman Y, Britain D, Chen W, Green EM, Kenner LR, Mensa B, Morinishi LS, Nelson CA, Poss EM, Suresh P, Tian R, Arhar T, Ary BE, Bauer DP, Bergman ID, Brunetti RM, Chio CM, Dai SA, Dickinson MS, Elledge SK, Helsell CVM, Hendel NL, Kang E, Kern N, Khoroshkin MS, Kirkemo LL, Lewis GR, Lou K, Marin WM, Maxwell AM, McTigue PF, Myers-Turnbull D, Nagy TL, Natale AM, Oltion K, Pourmal S, Reder GK, Rettko NJ, Rohweder PJ, Schwarz DMC, Tan SK, Thomas PV, Tibble RW, Town JP, Tsai MK, Ugur FS, Wassarman DR, Wolff AM, Wu TS, Bogdanoff D, Li J, Thorn KS, O'Conchúir S, Swaney DL, Chow ED, Madhani HD, Redding S, Bolon DN, Kortemme T, DeRisi JL, Kampmann M, Fraser JS. Extending chemical perturbations of the ubiquitin fitness landscape in a classroom setting reveals new constraints on sequence tolerance. Biol Open. 2018 Jul 23; 7(7).  View on PubMed
  14. Parsa JY, Boudoukha S, Burke J, Homer C, Madhani HD. Polymerase pausing induced by sequence-specific RNA-binding protein drives heterochromatin assembly. Genes Dev. 2018 07 01; 32(13-14):953-964.  View on PubMed
  15. Burke JE, Longhurst AD, Merkurjev D, Sales-Lee J, Rao B, Moresco JJ, Yates JR, Li JJ, Madhani HD. Spliceosome Profiling Visualizes Operations of a Dynamic RNP at Nucleotide Resolution. Cell. 2018 05 03; 173(4):1014-1030.e17.  View on PubMed
  16. Garcia-Santamarina S, Festa RA, Smith AD, Yu CH, Probst C, Ding C, Homer CM, Yin J, Noonan JP, Madhani H, Perfect JR, Thiele DJ. Genome-wide analysis of the regulation of Cu metabolism in Cryptococcus neoformans. Mol Microbiol. 2018 06; 108(5):473-494.  View on PubMed
  17. Roth R, Madhani HD, Garcia JF. Total RNA Isolation and Quantification of Specific RNAs in Fission Yeast. Methods Mol Biol. 2018; 1721:63-72.  View on PubMed
  18. Allshire RC, Madhani HD. Ten principles of heterochromatin formation and function. Nat Rev Mol Cell Biol. 2018 04; 19(4):229-244.  View on PubMed
  19. Clarke SC, Dumesic PA, Homer CM, O'Donoghue AJ, La Greca F, Pallova L, Majer P, Madhani HD, Craik CS. Integrated Activity and Genetic Profiling of Secreted Peptidases in Cryptococcus neoformans Reveals an Aspartyl Peptidase Required for Low pH Survival and Virulence. PLoS Pathog. 2016 Dec; 12(12):e1006051.  View on PubMed
  20. Al-Sady B, Greenstein RA, El-Samad HJ, Braun S, Madhani HD. Sensitive and Quantitative Three-Color Protein Imaging in Fission Yeast Using Spectrally Diverse, Recoded Fluorescent Proteins with Experimentally-Characterized In Vivo Maturation Kinetics. PLoS One. 2016; 11(8):e0159292.  View on PubMed

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