Publications


2020

Soula M, Weber R**, Zilka O**, Alwaseem H, La K, Yen F, Molina H, Garcia-Bermudez J*, Pratt D*, Birsoy K*. Metabolic determinants of cancer cell sensitivity to canonical ferroptosis inducers. Nat Chem Biol. 2020 Dec;16(12):1351-1360. doi: 10.1038/s41589-020-0613-y. Epub 2020 Aug 10. PubMed PMID: 32778843 *corresponding author. **contributed equally


Zhu X, Chudnovskiy A, Baudrier L, Prizer B, Liu Y, Ostendorf B, Yamaguchi N, Arab A, Tavora B, Timson R, Heissel S, Stanchina E, Molina H, Victora G, Goodarzi H, Birsoy K*. Functional Genomics In Vivo Reveal Metabolic Dependencies of Pancreatic Cancer Cells. Cell Metab. 2020 Oct 28;S1550-4131(20)30550-7. doi: 10.1016/j.cmet.2020.10.017. Epub 2020 Nov 4;:. PubMed PMID: 33152324 *corresponding author


Guarecuco R, Williams R, Baudrier L, La K, Passarelli M, Ekizoglu N, Mestanoglu M, Alwaseem H, Rostandy B, Fidelin J, Garcia-Bermudez J, Molina H, Birsoy K*. Dietary thiamine influences l-asparaginase sensitivity in a subset of leukemia cells. Sci Adv. 2020 Oct 9;6(41):eabc7120. doi: 10.1126/sciadv.abc7120. Print 2020 Oct. *corresponding author


Parsa S, Ortega-Molina A, Ying HY, Jiang M, Teater M, Wang J, Zhao C, Reznik E, Pasion J, Kuo D, Mohan P, Wang S, Camarillo J, Thomas P, Jain N, Garcia-Bermudez J, Cho BK, Tam W, Kelleher N, Socci N, Dogan A, Stanchina E, Ciriello G, Green M, Li S, Birsoy K, Melnick A, Wendel HG. The serine hydroxymethyltransferase-2 (SHMT2) initiates lymphoma development through epigenetic tumor suppressor silencing. Oncotarget. 2016 Aug 16;7(33):53005-53017. doi: 10.18632/oncotarget.10415. Epub 2020 Jul 6. PubMed PMID: 27391339


Bayraktar E, La K, Karpman K, Unlu G, Ozerdem C, Ritter D, Alwaseem H, Molina H, Hoffmann HH, Millner A, Atilla-Gokcumen E, Gamazon E, Rushing A, Knapik E, Basu S, Birsoy K*. Metabolic coessentiality mapping identifies C12orf49 as a regulator of SREBP processing and cholesterol metabolism. Nat Metab. 2020 Jun;2(6):487-498. doi: 10.1038/s42255-020-0206-9. Epub 2020 Jun 1. PubMed PMID: 32694732 *corresponding author


Hedbacker K, Lu YH, Dallner O, Li Z, Fayzikhodjaeva G, Birsoy K, Han C, Yang C, Friedman J. Limitation of adipose tissue by the number of embryonic progenitor cells. Elife. 2020 May 26;9:e53074. doi: 10.7554/eLife.53074. PubMed PMID: 32452759


Surface L, Burrow D, Li J, Park J, Kumar S, Lyu C, Song N, Yu Z, Rajagopal A, Bae Y, Lee B, Mumm S, Gu C, Baker J, Mohseni M, Sum M, Huskey M, Duan S, Bijanki V, Civitelli R, Gardner M, McAndrew C, Ricci W, Gurnett C, Diemer K, Wan F, Costantino C, Shannon K, Raje N, Dodson T, Haber D, Carette J, Varadarajan M, Brummelkamp T, Birsoy K, Sabatini D, Haller G, Peterson T. ATRAID regulates the action of nitrogen-containing bisphosphonates on bone. Sci Transl Med. 2020 May 20;12(544):eaav9166. doi: 10.1126/scitranslmed.aav9166. PubMed PMID: 32434850


Williams R, Guarecuco R, Gates L, Barrows D, Passarelli M, Carey B, Baudrier L, Jeewajee S, La K, Prizer B, Malik S, Garcia-Bermudez J, Zhu X, Cantor J, Molina H, Carroll T, Roeder R, Abdel-Wahab O, Allis CD, Birsoy K*. ZBTB1 Regulates Asparagine Synthesis and Leukemia Cell Response to L-Asparaginase. Cell Metab. 2020 Apr 7;31(4):852-861.e6. doi: 10.1016/j.cmet.2020.03.008. PubMed PMID: 32268116 *corresponding author


Garcia-Bermudez J*, Williams R, Guarecuco R, Birsoy K*. Targeting extracellular nutrient dependencies of cancer cells. Mol Metab. 2020 Mar;33:67-82. doi: 10.1016/j.molmet.2019.11.011. PubMed PMID: 31926876 *corresponding author


Weber R**, Yen F**, Nicholson S, Alwaseem H, Bayraktar E, Alam M, Timson R, La K, Abu-Remaileh M, Molina H, Birsoy K*. Maintaining iron homeostasis Is the key role of lysosomal acidity for cell proliferation. Mol Cell. 2020 Feb 6;77(3):645-655.e7. doi: 10.1016/j.molcel.2020.01.003. Epub 2020 Jan 23. PubMed PMID: 31983508 *corresponding author. **contributed equally


Liberti M and Birsoy K*. A link between metabolic energetics and pancreatic cancer mechanosensing. Nat Metab. 2020 Jan;2(1):5-6. doi: 10.1038/s42255-019-0165-1. PubMed PMID: 32694685 *corresponding author

2019

Weber R and Birsoy K*. The Transsulfuration Pathway Makes, the Tumor Takes. Cell Metab. 2019 Nov 5;30(5):845-846. doi: 10.1016/j.cmet.2019.10.009. PubMed PMID: 31693878 *corresponding author


Zhu X and Birsoy K*. Deciphering cellular heterogeneity of pancreatic tumours. Nat Cell Biol. 2019 Nov;21(11):1305-1306. doi: 10.1038/s41556-019-0419-x. PubMed PMID: 31685993 *corresponding author


Phillips R, Yang Y, Smith R, Thompson B, Yamasaki T, Soto-Feliciano Y, Funato K, Liang Y, Garcia-Bermudez J, Wang X, Garcia B, Yamasaki K, McDonald J, Birsoy K, Tabar V, Allis CD. Target identification reveals lanosterol synthase as a vulnerability in glioma. Proc Natl Acad Sci USA. 2019 Apr 16;116(16):7957-7962. doi: 10.1073/pnas.1820989116. Epub 2019 Mar 28. PubMed PMID: 30923116


Zhu X, Puthenveedu S, Shen Y, La K, Ozlu C, Wang T, Klompstra D, Gultekin Y, Chi J, Fidelin J, Peng T, Molina H, Hang H, Min W, Birsoy K*. CHP1 regulates compartmentalized glycerolipid synthesis by activating GPAT4. Mol Cell. 2019 Apr 4;74(1):45-58.e7. doi: 10.1016/j.molcel.2019.01.037. Epub 2019 Mar 4. PubMed PMID: 30846317 *corresponding author


Birsoy K*, Sancak Y*. The role of metabolism in cellular processes. Mol Biol Cell. 2019 Mar 15;30(6):733. doi: 10.1091/mbc.E19-01-0004. PubMed PMID: 30870095 *corresponding author


Dallner O, Marinis J, Lu Y, Birsoy K, Werner E, Fayzikhodjaeva G, Dill B, Molina H, Moscati A, Kutalik Z, Marques-Vidal P, Kilpeläinen T, Grarup N, Linneberg A, Zhang Y, Vaughan R, Loos R, Lazar M, Friedman J. Nat Med. 2019 Mar;25(3):507-516. doi: 10.1038/s41591-019-0370-1. Epub 2019 Mar 6. PubMed PMID: 30842678


Garcia-Bermudez J, Baudrier L, Bayraktar E, Shen Y, La K, Guarecuco R, Yucel B, Fiore D, Tavora B, Freinkman E, Chan S, Lewis C, Min W, Inghirami G, Sabatini D, Birsoy K*. Squalene accumulation in cholesterol auxotrophic lymphomas prevents oxidative cell death. Nature. 2019 Mar;567(7746):118-122. doi: 10.1038/s41586-019-0945-5. Epub 2019 Feb 13. PubMed PMID: 30760928 *corresponding author


Bayraktar E, Baudrier L, Özerdem C, Lewis C, Chan S, Kunchok T, Abu-Remaileh M, Cangelos A, Sabatini D*, Birsoy K*, and Chen W*. MITO-Tag Mice enable rapid isolation and multimodal profiling of mitochondria from specific cell types in vivo. Proc Natl Acad Sci USA. 2019 Jan 2;116(1):303-312. doi: 10.1073/pnas.1816656115. Epub 2018 Dec 12;:. PubMed PMID: 30541894 *corresponding author

 

2018

Zhang M, Di Martino J, Bowman R, Campbell N, Baksh S, Simon-Vermot T, Kim I, Haldeman P, Mondal C, Yong-Gonzales V, Abu-Akeel M, Merghoub T, Jones D, Ge Zhu X, Arora A, Ariyan C, Birsoy K, Wolchok J, Panageas K, Hollmann T, Bravo-Cordero J, and White R. Adipocyte-Derived Lipids Mediate Melanoma Progression via FATP Proteins. Cancer Discov. 2018 Aug;8(8):1006-1025. doi: 10.1158/2159-8290.CD-17-1371. Epub 2018 Jun 14;:. PubMed PMID: 29903879


Garcia-Bermudez J, Baudrier L, La K, Zhu XG, Fidelin J, Sviderskiy VO, Papagiannakopoulos T, Molina H, Snuderl M, Lewis CA, Possemato RL, Birsoy K*. Aspartate is a limiting metabolite for cancer cell proliferation under hypoxia and in tumours. Nat Cell Biol. 2018 Jul;20(7):775-781. doi:10.1038/s41556-018-0118-z. Epub 2018 Jun 25.8;:. PubMed PMID: 29941933 *corresponding author

 

Dubard Gault M, Mandelker D, DeLair D, Stewart CR, Kemel Y, Sheehan MR, Siege B, Kennedy J, Marcell V, Arnold A, Al-Ahmadie H, Modak S, Robson M, Shukla N, Roberts S, Vijai J, Topka S, Kentsis A, Cadoo K, Carlo M, Latham Schwark A, Reznik E, Dinatale R, Hechtman J, Borras Flores E, Jairam S, Yang C, Li Y, Bayraktar EC, Ceyhan-Birsoy O, Zhang L, Kohlman W, Schiffman J, Stadler Z, Birsoy K, Kung A, Offit K, Walsh MF. Germline SDHA mutations in children and adults with cancer. Cold Spring Harb Mol Case Stud.2018 Aug 1;4(4). pii: a002584. doi: 10.1101/mcs.a002584. Print 2018 Aug. PubMed PMID: 30068732;

 

Minton DR, Nam M, McLaughlin DJ, Shin J, Bayraktar EC, Alvarez SW, Sviderskiy VO, Papag. T, Sabatini DM, Birsoy K*, Possemato R*. Serine Catabolismby SHMT2 Is Required for Proper Mitochondrial Translation Initiation andMaintenance of Formylmethionyl-tRNAs. Mol Cell.2018 Feb 15;69(4):610-621.e5. *corresponding author

 

Peng X, Chen Z, Farshidfar F, Xu X, Lorenzi PL, Wang Y, Cheng F, Tan L, Mojumdar K, Du D, Ge Z, Li J, Thomas GV, Birsoy K, Liu L, Zhang H, Zhao Z, Marchand C, Weinstein JN; Cancer Genome Atlas Research Network, Bathe OF, Liang H. Molecular Characterization and Clinical Relevance of Metabolic Expression Subtypes in Human Cancers.Cell Rep. 2018 Apr 3;23(1):255-269.e4

 

2017

Alvarez SW, Sviderskiy VO, Terzi EM, Papagiannakopoulos T, Moreira AL, Adams S, Sabatini DM*, Birsoy K*, Possemato R*. NFS1 undergoes positive selection in lung tumours and protects cells from ferroptosis. Nature. 2017 Nov 30;551(7682):639-643.(*equal correspondence) *corresponding author

 

Reczek C, Birsoy K, Kong H, Wang T, Sabatini DM, Chandel NS. A CRISPR screen identifies genes required for paraquat-induced cell death. Nat. Chem. Bio. 2017(in press)

 

Ilic N, Birsoy K, Aguirre AJ et al. PI3KCA mutant tumors depend on oxoglutarate dehydrogenase Proc Natl Acad Sci U S A. 2017.

 

Secco B, Camiré É, Brière MA, Caron A, Billong A, Gélinas Y, Lemay AM, Tharp KM, Lee PL, Gobeil S, Guimond JV, Patey N, Guertin DA, Stahl A, Haddad É, Marsolais D, Bossé Y, Birsoy K, Laplante M. Amplification of Adipogenic Commitment by VSTM2A. Cell Rep. 2017 Jan 3;18(1):93-106. doi:

10.1016/j.celrep.2016.12.015. PubMed PMID: 28052263.

 

2016

Garcia-Bermudez J, Birsoy K. Drugging ACAT1 for Cancer Therapy. Mol Cell. 2016 Dec 1;64(5):856-857. doi: 10.1016/j.molcel.2016.11.023. PubMed PMID: 27912096. *corresponding author

 

 

**Chen WW, Freinkman E, Wang T, Birsoy K, Sabatini DM. Absolute Quantification of Matrix Metabolites Reveals the Dynamics of Mitochondrial Metabolism. Cell. 2016 Aug 25;166(5):1324-1337.e11. doi: 10.1016/j.cell.2016.07.040. PubMed PMID:27565352; PubMed Central PMCID: PMC5030821.

 

Pacold ME, Brimacombe KR, Chan SH, Rohde JM, Lewis CA, Swier LJ, Possemato R, Chen WW, Sullivan LB, Fiske BP, Cho S, Freinkman E, Birsoy K, Abu MR, Shaul YD,Liu CM, Zhou M, Koh MJ, Chung H, Davidson SM, Luengo A, Wang AQ, Xu X, Yasgar A, Liu L, Rai G, Westover KD, Heiden MG, Shen M, Gray NS, Boxer MB, Sabatini DM. A PHGDH inhibitor reveals coordination of serine synthesis andone-carbon unit fate. Nat Chem Biol. 2016 Jul 19;12(8):656. doi:10.1038/nchembio0816-656. PubMed PMID: 27434767.

 

Chidley C, Trauger SA, Birsoy K, O'Shea EK. The anticancer natural product ophiobolin A induces cytotoxicity by covalent modification of phosphatidylethanolamine. Elife. 2016 Jul 12;5. pii: e14601. doi:

10.7554/eLife.14601. PubMed PMID: 27403889; PubMed Central PMCID: PMC4942256.

 

(Publications before 2015)

Wang T, Birsoy K, Hughes NW, Krupczak KM, Post Y, Wei JJ, Lander ES, Sabatini DM. Identification and characterization of essential genes in the human genome. Science. 2015 Nov 27;350(6264):1096-101. doi: 10.1126/science.aac7041. Epub 2015 Oct 15. PubMed PMID: 26472758; PubMed Central PMCID: PMC4662922.

 

**Birsoy K,Wang T, Chen WW, Freinkman E, Abu-Remaileh M, Sabatini DM. An Essential Role of the Mitochondrial Electron Transport Chain in Cell Proliferation Is to Enable Aspartate Synthesis. Cell. 2015 Jul 30;162(3):540-51.  doi: 10.1016/j.cell.2015.07.016. PubMed PMID: 26232224; PubMed Central PMCID: PMC4522279.

 

Kim D, Fiske BP, Birsoy K, Freinkman E, Kami K, Possemato RL, Chudnovsky Y,Pacold ME, Chen WW, Cantor JR, Shelton LM, Gui DY, Kwon M, Ramkissoon SH, LigonKL, Kang SW, Snuderl M, Vander Heiden MG, Sabatini DM. SHMT2 drives glioma cellsurvival in ischaemia but imposes a dependence on glycine clearance. Nature. 2015 Apr 16;520(7547):363-7. doi: 10.1038/nature14363. Epub 2015 Apr 8. PubMed PMID: 25855294; PubMed Central PMCID: PMC4533874.

 

Lu YH, Dallner OS, Birsoy K, Fayzikhodjaeva G, Friedman JM. Nuclear Factor-Y  is an adipogenic factor that regulates leptin gene expression. Mol Metab. 2015 Feb 13;4(5):392-405. doi: 10.1016/j.molmet.2015.02.002. eCollection 2015 May. PubMed PMID: 25973387; PubMed Central PMCID: PMC4420997.

 

2014

Knight ZA, Schmidt SF, Birsoy K, Tan K, Friedman JM. A critical role for mTORC1 in erythropoiesis and anemia. Elife. 2014 Sep 8;3:e01913. doi:10.7554/eLife.01913. PubMed PMID: 25201874; PubMed Central PMCID: PMC4179304.

 

Grabiner BC, Nardi V, Birsoy K, Possemato R, Shen K, Sinha S, Jordan A, Beck AH, Sabatini DM. A diverse array of cancer-associated MTOR mutations are hyperactivating and can predict rapamycin sensitivity. Cancer Discov. 2014 May;4(5):554-63. doi: 10.1158/2159-8290.CD-13-0929. Epub 2014 Mar 14. PubMed PMID: 24631838; PubMed Central PMCID: PMC4012430.

 

Chen WW, Birsoy K, Mihaylova MM, Snitkin H, Stasinski I, Yucel B, Bayraktar EC, Carette JE, Clish CB, Brummelkamp TR, Sabatini DD, Sabatini DM. Inhibition of ATPIF1 ameliorates severe mitochondrial respiratory chain dysfunction in mammalian cells. Cell Rep. 2014 Apr 10;7(1):27-34. doi:

10.1016/j.celrep.2014.02.046. Epub 2014 Mar 27. PubMed PMID: 24685140; PubMed Central PMCID: PMC4040975.

 

Birsoy K, Possemato R, Lorbeer FK, Bayraktar EC, Thiru P, Yucel B, Wang T, Chen WW, Clish CB, Sabatini DM. Metabolic determinants of cancer cell sensitivity to glucose limitation and biguanides. Nature. 2014 Apr 3;508(7494):108-12. doi: 10.1038/nature13110. Epub 2014 Mar 16. PubMed PMID: 24670634; PubMed Central PMCID: PMC4012432.

 

Soliman MA, Abdel Rahman AM, Lamming DW, Birsoy K, Pawling J, Frigolet ME, Lu H, Fantus IG, Pasculescu A, Zheng Y, Sabatini DM, Dennis JW, Pawson T. The adaptor protein p66Shc inhibits mTOR-dependent anabolic metabolism. Sci Signal. 2014 Feb 18;7(313):ra17. doi: 10.1126/scisignal.2004785. PMID: 24550542; PubMed Central PMCID: PMC4260967.

 

2013

Birsoy K, Festuccia WT, Laplante M. A comparative perspective on lipid storage in animals. J Cell Sci. 2013 Apr 1;126(Pt 7):1541-52. doi:10.1242/jcs.104992. PubMed PMID: 23658371.

 

Birsoy K, Wang T, Possemato R, Yilmaz OH, Koch CE, Chen WW, Hutchins AW, Gultekin Y, Peterson TR, Carette JE, Brummelkamp TR, Clish CB, Sabatini DM. MCT1-mediated transport of a toxic molecule is an effective strategy for targeting glycolytic tumors. Nat Genet. 2013 Jan;45(1):104-8. doi:

10.1038/ng.2471. Epub 2012 Dec 2. PubMed PMID: 23202129; PubMed Central PMCID: PMC3530647.

 

2012

Knight ZA, Tan K, Birsoy K, Schmidt S, Garrison JL, Wysocki RW, Emiliano A, Ekstrand MI, Friedman JM. Molecular profiling of activated neurons by phosphorylated ribosome capture. Cell. 2012 Nov 21;151(5):1126-37. doi:10.1016/j.cell.2012.10.039. PubMed PMID: 23178128; PubMed Central PMCID:

PMC3839252.

 

Laplante M, Horvat S, Festuccia WT, Birsoy K, Prevorsek Z, Efeyan A, Sabatini DM. DEPTOR cell-autonomously promotes adipogenesis, and its expression is associated with obesity. Cell Metab. 2012 Aug 8;16(2):202-12. doi:10.1016/j.cmet.2012.07.008. PubMed PMID: 22883231; PubMed Central PMCID: PMC3463374.

 

Birsoy K, Sabatini DM, Possemato R. Untuning the tumor metabolic machine: Targeting cancer metabolism: a bedside lesson. Nat Med. 2012 Jul 6;18(7):1022-3. doi: 10.1038/nm.2870. PubMed PMID: 22772555.

 

Yilmaz ÖH, Katajisto P, Lamming DW, Gültekin Y, Bauer-Rowe KE, Sengupta S, Birsoy K, Dursun A, Yilmaz VO, Selig M, Nielsen GP, Mino-Kenudson M, Zukerberg LR, Bhan AK, Deshpande V, Sabatini DM. mTORC1 in the Paneth cell niche couples intestinal stem-cell function to calorie intake. Nature. 2012 Jun 28;486(7404):490-5. doi: 10.1038/nature11163. PubMed PMID: 22722868; PubMed

Central PMCID: PMC3387287.

 

2011

Ceyhan O, Birsoy K, Hoffman CS. Identification of biologically active PDE11-selective inhibitors using a yeast-based high-throughput screen. Cell Chemical Biology. 2012 Jan 27;19(1):155-63. doi: 10.1016/j.chembiol.2011.12.010. PubMed PMID: 22284362.

 

Birsoy K, Berry R, Wang T, Ceyhan O, Tavazoie S, Friedman JM, Rodeheffer MS. Analysis of gene networks in white adipose tissue development reveals a role for ETS2 in adipogenesis. Development. 2011 Nov;138(21):4709-19. doi:10.1242/dev.067710. PubMed PMID: 21989915; PubMed Central PMCID: PMC3190384.

 

Possemato R, Marks KM, Shaul YD, Pacold ME, Kim D, Birsoy K, Sethumadhavan S,Woo HK, Jang HG, Jha AK, Chen WW, Barrett FG, Stransky N, Tsun ZY, Cowley GS, Barretina J, Kalaany NY, Hsu PP, Ottina K, Chan AM, Yuan B, Garraway LA, Root DE, Mino-Kenudson M, Brachtel EF, Driggers EM, Sabatini DM. Functional genomics reveal that the serine synthesis pathway is essential in breast cancer. Nature. 2011 Aug 18;476(7360):346-50. doi: 10.1038/nature10350. PubMed PMID: 21760589;

PubMed Central PMCID: PMC3353325.

 

2010

Chen W, Zhang X, Birsoy K, Roeder RG. A muscle-specific knockout implicates nuclear receptor coactivator MED1 in the regulation of glucose and energy metabolism. Proc Natl Acad Sci U S A. 2010 Jun 1;107(22):10196-201. doi:10.1073/pnas.1005626107. Epub 2010 May 17. PubMed PMID: 20479251; PubMed Central PMCID: PMC2890439.

 

Hedbacker K, Birsoy K, Wysocki RW, Asilmaz E, Ahima RS, Farooqi IS, Friedman JM. Antidiabetic effects of IGFBP2, a leptin-regulated gene. Cell Metab. 2010 Jan;11(1):11-22. doi: 10.1016/j.cmet.2009.11.007. Erratum in: Cell Metab. 2010 Mar 3;11(3):239. PubMed PMID: 20074524.

 

2008

Rodeheffer MS, Birsoy K, Friedman JM. Identification of white adipocyte progenitor cells in vivo.Cell. 2008 Oct 17;135(2):240-9. doi:10.1016/j.cell.2008.09.036. Epub 2008 Oct 2. PubMed PMID: 18835024.

 

Birsoy K, Soukas A, Torrens J, Ceccarini G, Montez J, Maffei M, Cohen P, Fayzikhodjaeva G, Viale A, Socci ND, Friedman JM. Cellular program controlling the recovery of adipose tissue mass: An in vivo imaging approach. Proc Natl Acad  Sci U S A. 2008 Sep 2;105(35):12985-90. doi: 10.1073/pnas.0805621105. Epub 2008 Aug 27. PubMed PMID: 18753616; PubMed Central PMCID: PMC2526100.

 

Birsoy K, Chen Z, Friedman J. Transcriptional regulation of adipogenesis by KLF4. Cell Metab. 2008 Apr;7(4):339-47. doi: 10.1016/j.cmet.2008.02.001. PubMed PMID: 18396140; PubMed Central PMCID: PMC2430156.