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Mark Applebaum

TitleAssociate Professor
InstitutionUniversity of Chicago
DepartmentPediatrics-Hematology and Oncology
AddressChicago IL 60637
Phone+1 (773) 702-0839
Email
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    Collapse Overview 
    Collapse overview
    Mark Applebaum, MD, is an expert in pediatric cancers and blood diseases. He has a special interest in the treatment of neuroblastoma, sarcomas and solid tumors.

    Dr. Applebaum is a translational physician-scientist working on harnessing genomics and “big data” to advance treatments for children with neuroblastoma. He bridges the fields of epigenetics, genomics, and cancer biology to identify idenitfy novel risk classifiers and therapeutic targets.

    Dr. Applebaum focuses his research on how specific epigenetic marks can identify patients with aggressive neuroblastoma that may benefit from alternatives to standard therapy. His laboratory is also identifying how the low-oxygen environment of tumors makes cancer cells more resistant to standard therapies by inducing changes in these same epigenetic marks. Identifying the genes and cellular pathways responsible for these changes may ultimately open new avenues for novel therapeutic options.

    Dr. Applebaum's research is supported by the National Cancer Institute and the University of Chicago Cancer Center Auxiliary Board. He has received funding from the Conquer Cancer Foundation, Cancer Research Foundation, and the Bear Necessities Foundation. He is the recipient of numerous awards from the American Society of Clinical Oncology, the American Association of Cancer Researchers, and the Advances in Neuroblastoma Research Association.
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    Collapse Biography 
    Collapse education and training
    Fellowship, University of Chicago2016Clinical Pharmacology and Pharmacogenomics
    Fellowship, University of Chicago2015Hematology/Oncology
    Residency, University of California, San Francisco2011Pediatrics
    Northwestern University Feinberg School of MedicineM.D.2008
    University of California, BerkeleyB.A.2004Molecular and Cell Biology

    Collapse Research 
    Collapse research activities and funding
    1R37CA262781     (APPLEBAUM, MARK ANDREW)Apr 1, 2022 - Mar 31, 2027
    NIH/NCI
    Liquid biopsy approaches to inform neuroblastoma prognosis and disease monitoring
    21-23263     (APPLEBAUM, MARK ANDREW)Jan 17, 2022 - Jan 16, 2026
    Alex's Lemonade Stand Foundation 'A' Award
    Circulating Tumor Biomarkers: New Paradigms for Management of Neuroblastoma
    Role: Principal Investigator
    K08CA226237     (APPLEBAUM, MARK ANDREW)Apr 1, 2018 - Mar 31, 2022
    NIH
    Elucidating transcription regulation by epigenetics in neuroblastoma
    Role: Principal Investigator

    Collapse Bibliographic 
    Collapse selected publications
    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Faculty can login to make corrections and additions.
    Newest   |   Oldest   |   Most Cited   |   Most Discussed   |   Timeline   |   Field Summary   |   Plain Text
    PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
    1. Vayani OR, Kaufman ME, Moore K, Chennakesavalu M, TerHaar R, Chaves G, Chlenski A, He C, Cohn SL, Applebaum MA. Adrenergic and mesenchymal signatures are identifiable in cell-free DNA and correlate with metastatic disease burden in children with neuroblastoma. Pediatr Blood Cancer. 2023 Oct 20; e30735. PMID: 37859597.
      Citations:    Fields:    
    2. Vayani OR, Kaufman ME, Moore K, Chennakesavalu M, TerHaar R, Chaves G, Chlenski A, He C, Cohn SL, Applebaum MA. Adrenergic and mesenchymal signatures are identifiable in cell-free DNA and correlate with metastatic disease burden in children with neuroblastoma. bioRxiv. 2023 Sep 01. PMID: 37693610; PMCID: PMC10491182.
      Citations:    
    3. Kaufman ME, Vayani OR, Moore K, Chlenski A, Wu T, Chavez G, Lee SM, Desai AV, He C, Cohn SL, Applebaum MA. T-cell inflammation is prognostic of survival in patients with high-risk neuroblastoma enriched for an adrenergic signature. bioRxiv. 2023 Jun 28. PMID: 37425883; PMCID: PMC10326980.
      Citations:    
    4. Weiser DA, Hayashi M, Applebaum MA. Breaking Up Isn't Hard to Do: Isolating Cell-free DNA Fragments in Osteosarcoma. Clin Cancer Res. 2023 06 01; 29(11):2017-2019. PMID: 36976253.
      Citations:    Fields:    Translation:Humans
    5. Chennakesavalu M, Moore K, Chaves G, Veeravalli S, TerHaar R, Wu T, Lyu R, Chlenski A, He C, Piunti A, Applebaum MA. 5-hydroxymethylcytosine profiling of cell-free DNA identifies bivalent genes that are prognostic of survival in high-risk neuroblastoma. bioRxiv. 2023 Apr 30. PMID: 37163024; PMCID: PMC10168384.
      Citations:    
    6. Elmuti L, Amundson J, Oberman E, Kamat A, Sedig L, Lastra RR, Aldape K, Quezado M, Pratt DW, Cimino PJ, Abdullaev Z, Pytel P, Applebaum MA, Bennett JA. Diffuse Pediatric-type High-grade Glioma Arising in an Ovarian Mature Cystic Teratoma. Int J Gynecol Pathol. 2023 Apr 13. PMID: 37046379.
      Citations:    Fields:    
    7. Marinoff AE, Spurr LF, Fong C, Li YY, Forrest SJ, Ward A, Doan D, Corson L, Mauguen A, Pinto N, Maese L, Colace S, Macy ME, Kim A, Sabnis AJ, Applebaum MA, Laetsch TW, Glade-Bender J, Weiser DA, Anderson M, Crompton BD, Meyers P, Zehir A, MacConaill L, Lindeman N, Nowak JA, Ladanyi M, Church AJ, Cherniack AD, Shukla N, Janeway KA. Clinical Targeted Next-Generation Panel Sequencing Reveals MYC Amplification Is a Poor Prognostic Factor in Osteosarcoma. JCO Precis Oncol. 2023 03; 7:e2200334. PMID: 36996377; PMCID: PMC10531050.
      Citations: 1     Fields:    Translation:Humans
    8. Liu YT, Romero C, Xiao X, Guo L, Zhou X, Applebaum MA, Xu L, Skapek SX. Methyltransferase Inhibition Enables Tgfß Driven Induction of CDKN2A and B in Cancer Cells. Mol Cell Biol. 2023; 43(3):115-129. PMID: 36941772; PMCID: PMC10038032.
      Citations:    Fields:    Translation:HumansCells
    9. Iwanicki I, Wu LL, Flores-Guzman F, Sundland R, Viza-Gomes P, Nordgren R, Centner CS, Kandel JJ, Applebaum MA, Bader KB, Hernandez SL. Histotripsy induces apoptosis and reduces hypoxia in a neuroblastoma xenograft model. Int J Hyperthermia. 2023; 40(1):2222941. PMID: 37344380.
      Citations:    Fields:    Translation:HumansAnimals
    10. Tatineni S, Warren Z, Applebaum MA, Baroody FM. Systemic Bevacizumab for Severe Recurrent Respiratory Papillomatosis. Case Rep Oncol Med. 2022; 2022:2767996. PMID: 36483909; PMCID: PMC9726241.
      Citations:    
    11. Hains AE, Uppal S, Cao JZ, Salwen HR, Applebaum MA, Cohn SL, Godley LA. MYCN and HIF-1 directly regulate TET1 expression to control 5-hmC gains and enhance neuroblastoma cell migration in hypoxia. Epigenetics. 2022 12; 17(13):2056-2074. PMID: 35942521; PMCID: PMC9665154.
      Citations:    Fields:    Translation:HumansCells
    12. Church AJ, Corson LB, Kao PC, Imamovic-Tuco A, Reidy D, Doan D, Kang W, Pinto N, Maese L, Laetsch TW, Kim A, Colace SI, Macy ME, Applebaum MA, Bagatell R, Sabnis AJ, Weiser DA, Glade-Bender JL, Homans AC, Hipps J, Harris H, Manning D, Al-Ibraheemi A, Li Y, Gupta H, Cherniack AD, Lo YC, Strand GR, Lee LA, Pinches RS, Lazo De La Vega L, Harden MV, Lennon NJ, Choi S, Comeau H, Harris MH, Forrest SJ, Clinton CM, Crompton BD, Kamihara J, MacConaill LE, Volchenboum SL, Lindeman NI, Van Allen E, DuBois SG, London WB, Janeway KA. Molecular profiling identifies targeted therapy opportunities in pediatric solid cancer. Nat Med. 2022 08; 28(8):1581-1589. PMID: 35739269.
      Citations: 1     Fields:    Translation:Humans
    13. Desai AV, Applebaum MA, Karrison TG, Oppong A, Yuan C, Berg KR, MacQuarrie K, Sokol E, Hall AG, Pinto N, Wolfe I, Mody R, Shusterman S, Smith V, Foster JH, Nassin M, LaBelle JL, Bagatell R, Cohn SL. Efficacy of post-induction therapy for high-risk neuroblastoma patients with end-induction residual disease. Cancer. 2022 08 01; 128(15):2967-2977. PMID: 35665495.
      Citations: 4     Fields:    Translation:Humans
    14. Schienda J, Church AJ, Corson LB, Decker B, Clinton CM, Manning DK, Imamovic-Tuco A, Reidy D, Strand GR, Applebaum MA, Bagatell R, DuBois SG, Glade-Bender JL, Kang W, Kim A, Laetsch TW, Macy ME, Maese L, Pinto N, Sabnis AJ, Schiffman JD, Colace SI, Volchenboum SL, Weiser DA, Nowak JA, Lindeman NI, Janeway KA, Crompton BD, Kamihara J. Germline Sequencing Improves Tumor-Only Sequencing Interpretation in a Precision Genomic Study of Patients With Pediatric Solid Tumor. JCO Precis Oncol. 2021; 5. PMID: 34964003; PMCID: PMC8710335.
      Citations: 5     Fields:    Translation:Humans
    15. Mayampurath A, Ramesh S, Michael D, Liu L, Feinberg N, Granger M, Naranjo A, Cohn SL, Volchenboum SL, Applebaum MA. Predicting Response to Chemotherapy in Patients With Newly Diagnosed High-Risk Neuroblastoma: A Report From the International Neuroblastoma Risk Group. JCO Clin Cancer Inform. 2021 12; 5:1181-1188. PMID: 34882497; PMCID: PMC8812615.
      Citations: 2     Fields:    Translation:Humans
    16. Ramesh S, Chokkara S, Shen T, Major A, Volchenboum SL, Mayampurath A, Applebaum MA. Applications of Artificial Intelligence in Pediatric Oncology: A Systematic Review. JCO Clin Cancer Inform. 2021 12; 5:1208-1219. PMID: 34910588; PMCID: PMC8812636.
      Citations: 4     Fields:    Translation:Humans
    17. Balyasny S, Lee SM, Desai AV, Volchenboum SL, Naranjo A, Park JR, London WB, Cohn SL, Applebaum MA. Association Between Participation in Clinical Trials and Overall Survival Among Children With Intermediate- or High-risk Neuroblastoma. JAMA Netw Open. 2021 07 01; 4(7):e2116248. PMID: 34236408; PMCID: PMC8267607.
      Citations:    Fields:    Translation:Humans
    18. Siddiqui A, Pinto N, Applebaum MA, Mak GZ, Cunningham JM, LaBelle JL, Nassin ML. The addition of autologous stem cell transplantation to neoadjuvant chemotherapy, radiation, and HIPEC for patients with unresectable desmoplastic small round cell tumor: a single center case series. Int J Surg Oncol (N Y). 2020 Dec; 5(6). PMID: 35321405; PMCID: PMC8939842.
      Citations: 1     
    19. Sokol E, Desai AV, Applebaum MA, Valteau-Couanet D, Park JR, Pearson ADJ, Schleiermacher G, Irwin MS, Hogarty M, Naranjo A, Volchenboum S, Cohn SL, London WB. Reply to K. Beiske et al. J Clin Oncol. 2020 11 01; 38(31):3720-3721. PMID: 32931402.
      Citations:    Fields:    Translation:Humans
    20. Barr EK, Laurie K, Wroblewski K, Applebaum MA, Cohn SL. Association between end-induction response according to the revised International Neuroblastoma Response Criteria (INRC) and outcome in high-risk neuroblastoma patients. Pediatr Blood Cancer. 2020 10; 67(10):e28390. PMID: 32710697; PMCID: PMC7722196.
      Citations: 2     Fields:    Translation:Humans
    21. Pudela C, Balyasny S, Applebaum MA. Nervous system: Embryonal tumors: Neuroblastoma. Atlas Genet Cytogenet Oncol Haematol. 2020 Jul; 24(7):284-290. PMID: 32296467; PMCID: PMC7158874.
      Citations: 13     
    22. Sokol E, Desai AV, Applebaum MA, Valteau-Couanet D, Park JR, Pearson ADJ, Schleiermacher G, Irwin MS, Hogarty M, Naranjo A, Volchenboum S, Cohn SL, London WB. Age, Diagnostic Category, Tumor Grade, and Mitosis-Karyorrhexis Index Are Independently Prognostic in Neuroblastoma: An INRG Project. J Clin Oncol. 2020 06 10; 38(17):1906-1918. PMID: 32315273; PMCID: PMC7280049.
      Citations: 24     Fields:    Translation:Humans
    23. Gerstle K, Tanager K, Hegde S, Chung JH, Husain AN, Applebaum MA, Dyamenahalli U. Pleuroparenchymal fibroelastosis in an 8-year old treated for neuroblastoma. Pediatr Pulmonol. 2020 03; 55(3):E1-E4. PMID: 31944579; PMCID: PMC7036268.
      Citations: 1     Fields:    Translation:Humans
    24. Applebaum MA, Barr EK, Karpus J, West-Szymanski DC, Oliva M, Sokol EA, Zhang S, Zhang Z, Zhang W, Chlenski A, Salwen HR, Wilkinson E, Dobratic M, Grossman RL, Godley LA, Stranger BE, He C, Cohn SL. 5-Hydroxymethylcytosine Profiles in Circulating Cell-Free DNA Associate with Disease Burden in Children with Neuroblastoma. Clin Cancer Res. 2020 03 15; 26(6):1309-1317. PMID: 31852832; PMCID: PMC7073281.
      Citations: 13     Fields:    Translation:HumansCells
    25. Weiser DA, West-Szymanski DC, Fraint E, Weiner S, Rivas MA, Zhao CWT, He C, Applebaum MA. Progress toward liquid biopsies in pediatric solid tumors. Cancer Metastasis Rev. 2019 12; 38(4):553-571. PMID: 31836951; PMCID: PMC6995761.
      Citations: 19     Fields:    Translation:Humans
    26. Applebaum H, Applebaum MA. A conversation with my personal oncologist. Fam Syst Health. 2019 12; 37(4):344-346. PMID: 31815516; PMCID: PMC6903692.
      Citations:    Fields:    Translation:Humans
    27. Applebaum MA, Barr EK, Karpus J, Nie J, Zhang Z, Armstrong AE, Uppal S, Sukhanova M, Zhang W, Chlenski A, Salwen HR, Wilkinson E, Dobratic M, Grossman R, Godley LA, Stranger BE, He C, Cohn SL. 5-Hydroxymethylcytosine Profiles Are Prognostic of Outcome in Neuroblastoma and Reveal Transcriptional Networks That Correlate With Tumor Phenotype. JCO Precis Oncol. 2019; 3. PMID: 31179414; PMCID: PMC6553657.
      Citations: 10     Fields:    
    28. Chlenski A, Park C, Dobratic M, Salwen HR, Budke B, Park JH, Miller R, Applebaum MA, Wilkinson E, Nakamura Y, Connell PP, Cohn SL. Maternal Embryonic Leucine Zipper Kinase (MELK), a Potential Therapeutic Target for Neuroblastoma. Mol Cancer Ther. 2019 03; 18(3):507-516. PMID: 30674566; PMCID: PMC6398941.
      Citations: 15     Fields:    Translation:HumansAnimalsCells
    29. Barr EK, Applebaum MA. Genetic Predisposition to Neuroblastoma. Children (Basel). 2018 Aug 31; 5(9). PMID: 30200332; PMCID: PMC6162470.
      Citations: 21     
    30. Cowan M, Suntum T, Olivas AD, Perpich M, Applebaum MA, Lastra RR, Yamada SD. Second primary rhabdomyosarcoma of the uterine cervix presenting with synchronous ovarian Sertoli-Leydig cell tumor: An illustrative case of DICER1 syndrome. Gynecol Oncol Rep. 2018 Aug; 25:94-97. PMID: 30014022; PMCID: PMC6019406.
      Citations: 6     
    31. Hungate EA, Applebaum MA, Skol AD, Vaksman Z, Diamond M, McDaniel L, Volchenboum SL, Stranger BE, Maris JM, Diskin SJ, Onel K, Cohn SL. Evaluation of Genetic Predisposition for MYCN-Amplified Neuroblastoma. J Natl Cancer Inst. 2017 10 01; 109(10). PMID: 29117357; PMCID: PMC6279278.
      Citations: 12     Fields:    Translation:Humans
    32. Applebaum MA, Desai AV, Glade Bender JL, Cohn SL. Emerging and investigational therapies for neuroblastoma. Expert Opin Orphan Drugs. 2017; 5(4):355-368. PMID: 29062613; PMCID: PMC5649635.
      Citations: 14     
    33. Applebaum MA, Vaksman Z, Lee SM, Hungate EA, Henderson TO, London WB, Pinto N, Volchenboum SL, Park JR, Naranjo A, Hero B, Pearson AD, Stranger BE, Cohn SL, Diskin SJ. Neuroblastoma survivors are at increased risk for second malignancies: A report from the International Neuroblastoma Risk Group Project. Eur J Cancer. 2017 02; 72:177-185. PMID: 28033528; PMCID: PMC5258837.
      Citations: 31     Fields:    Translation:HumansCells
    34. Chlenski A, Dobratic M, Salwen HR, Applebaum M, Guerrero LJ, Miller R, DeWane G, Solomaha E, Marks JD, Cohn SL. Secreted protein acidic and rich in cysteine (SPARC) induces lipotoxicity in neuroblastoma by regulating transport of albumin complexed with fatty acids. Oncotarget. 2016 Nov 22; 7(47):77696-77706. PMID: 27776337; PMCID: PMC5363614.
      Citations: 7     Fields:    Translation:HumansAnimalsCells
    35. Applebaum MA, Jha AR, Kao C, Hernandez KM, DeWane G, Salwen HR, Chlenski A, Dobratic M, Mariani CJ, Godley LA, Prabhakar N, White K, Stranger BE, Cohn SL. Integrative genomics reveals hypoxia inducible genes that are associated with a poor prognosis in neuroblastoma patients. Oncotarget. 2016 Nov 22; 7(47):76816-76826. PMID: 27765905; PMCID: PMC5340231.
      Citations: 22     Fields:    Translation:HumansCells
    36. Pinto N, Mayfield JR, Raca G, Applebaum MA, Chlenski A, Sukhanova M, Bagatell R, Irwin MS, Little A, Rawwas J, Gosiengfiao Y, Cohn SL, Delattre O, Janoueix-Lerosey I, Lapouble E, Schleiermacher G. Segmental Chromosomal Aberrations in Localized Neuroblastoma Can be Detected in Formalin-Fixed Paraffin-Embedded Tissue Samples and Are Associated With Recurrence. Pediatr Blood Cancer. 2016 Jun; 63(6):1019-23. PMID: 26864375; PMCID: PMC5109976.
      Citations: 10     Fields:    Translation:Humans
    37. Pinto NR, Applebaum MA, Volchenboum SL, Matthay KK, London WB, Ambros PF, Nakagawara A, Berthold F, Schleiermacher G, Park JR, Valteau-Couanet D, Pearson AD, Cohn SL. Advances in Risk Classification and Treatment Strategies for Neuroblastoma. J Clin Oncol. 2015 Sep 20; 33(27):3008-17. PMID: 26304901; PMCID: PMC4567703.
      Citations: 331     Fields:    Translation:Humans
    38. Applebaum MA, Cohn SL. Surveillance of Childhood Cancer Survivors: A Lifelong Affair. J Clin Oncol. 2015 Nov 01; 33(31):3531-2. PMID: 26261248; PMCID: PMC7081930.
      Citations: 2     Fields:    Translation:Humans
    39. Applebaum MA, Henderson TO, Lee SM, Pinto N, Volchenboum SL, Cohn SL. Second malignancies in patients with neuroblastoma: the effects of risk-based therapy. Pediatr Blood Cancer. 2015 Jan; 62(1):128-33. PMID: 25251613; PMCID: PMC4237647.
      Citations: 22     Fields:    Translation:HumansPHPublic Health
    40. Thomas DG, Hembrough T, Burrows J, Horvai AE, Lawlor ER, DuBois SG, Applebaum MA. Comparative evaluation of strategies for quantifying signaling pathway proteins in Ewing sarcoma. Appl Immunohistochem Mol Morphol. 2014 Sep; 22(8):593-9. PMID: 24590121; PMCID: PMC4148473.
      Citations:    Fields:    Translation:HumansCells
    41. Applebaum MA, Skol AD, Bond EE, Overholtzer M, Bond GL, Onel K. Radiation-induced apoptosis varies among individuals and is modified by sex and age. Int J Radiat Biol. 2014 Oct; 90(10):903-8. PMID: 24882388; PMCID: PMC4222525.
      Citations: 3     Fields:    Translation:HumansCells
    42. Applebaum MA, Lawson EF, von Scheven E. Perception of transition readiness and preferences for use of technology in transition programs: teens' ideas for the future. Int J Adolesc Med Health. 2013; 25(2):119-25. PMID: 23740658.
      Citations: 17     Fields:    Translation:Humans
    43. Applebaum MA, Goldsby R, Neuhaus J, DuBois SG. Clinical features and outcomes in patients with secondary Ewing sarcoma. Pediatr Blood Cancer. 2013 Apr; 60(4):611-5. PMID: 22847990; PMCID: PMC3488141.
      Citations: 3     Fields:    Translation:Humans
    44. Applebaum MA, Sambrano E, Lee S, Goldsby R, Matthay KK, DuBois SG. Evaluation of plasma annexin V levels in children and young adults with solid tumors. Int J Biol Markers. 2012 Jul 19; 27(2):e164-6. PMID: 22610756; PMCID: PMC4222526.
      Citations:    Fields:    Translation:Humans
    45. Applebaum MA, Goldsby R, Neuhaus J, DuBois SG. Clinical features and outcomes in patients with Ewing sarcoma and regional lymph node involvement. Pediatr Blood Cancer. 2012 Oct; 59(4):617-20. PMID: 22184129; PMCID: PMC3310932.
      Citations: 25     Fields:    Translation:Humans
    46. Lawson EF, Hersh AO, Applebaum MA, Yelin EH, Okumura MJ, von Scheven E. Self-management skills in adolescents with chronic rheumatic disease: A cross-sectional survey. Pediatr Rheumatol Online J. 2011 Dec 06; 9(1):35. PMID: 22145642; PMCID: PMC3254592.
      Citations: 25     Fields:    
    47. Applebaum MA, Worch J, Matthay KK, Goldsby R, Neuhaus J, West DC, Dubois SG. Clinical features and outcomes in patients with extraskeletal Ewing sarcoma. Cancer. 2011 Jul 01; 117(13):3027-32. PMID: 21692057; PMCID: PMC3135782.
      Citations: 84     Fields:    Translation:Humans
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