Harvard Catalyst Profiles

Contact, publication, and social network information about Harvard faculty and fellows.

Gabriela Alexe, Ph.D.

Title
Institution
Department
Address
Phone

Overview
overview
Other Positions

Title: Senior Scientist (Computational Biology)
Institution: Dana-Farber Cancer Institute
Department: Pediatric Oncology
Division: PO Stegmaier

Title: Adjunct Associate Professor
Institution: Boston University
Department: Bioinformatics Graduate Program
URL: http://www.bu.edu/bioinformatics/people/faculty/

Bibliographic
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.
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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. Malone CF, Kim M, Alexe G, Engel K, Forman AB, Robichaud A, Conway AS, Goodale A, Meyer A, Khalid D, Thayakumar A, Hatcher JM, Gray NS, Piccioni F, Stegmaier K. Transcriptional Antagonism by CDK8 Inhibition Improves Therapeutic Efficacy of MEK Inhibitors. Cancer Res. 2023 Jan 18; 83(2):285-300. PMID: 36398965.
    Citations:    Fields:    
  2. Mabe NW, Huang M, Dalton GN, Alexe G, Schaefer DA, Geraghty AC, Robichaud AL, Conway AS, Khalid D, Mader MM, Belk JA, Ross KN, Sheffer M, Linde MH, Ly N, Yao W, Rotiroti MC, Smith BAH, Wernig M, Bertozzi CR, Monje M, Mitsiades CS, Majeti R, Satpathy AT, Stegmaier K, Majzner RG. Transition to a mesenchymal state in neuroblastoma confers resistance to anti-GD2 antibody via reduced expression of ST8SIA1. Nat Cancer. 2022 08; 3(8):976-993. PMID: 35817829.
    Citations:    
  3. Tokarsky EJ, Crow JC, Guenther LM, Sherman J, Taslim C, Alexe G, Pishas KI, Rask G, Justis BS, Kasumova A, Stegmaier K, Lessnick SL, Theisen ER. Mitochondrial Dysfunction Is a Driver of SP-2509 Drug Resistance in Ewing Sarcoma. Mol Cancer Res. 2022 07 06; 20(7):1035-1046. PMID: 35298000; PMCID: PMC9284474.
    Citations: 1     Fields:    Translation:HumansCells
  4. Ellegast JM, Alexe G, Hamze A, Lin S, Uckelmann HJ, Rauch PJ, Pimkin M, Ross LS, Dharia NV, Robichaud AL, Conway AS, Khalid D, Perry JA, Wunderlich M, Benajiba L, Pikman Y, Nabet B, Gray NS, Orkin SH, Stegmaier K. Unleashing Cell-Intrinsic Inflammation as a Strategy to Kill AML Blasts. Cancer Discov. 2022 07 06; 12(7):1760-1781. PMID: 35405016; PMCID: PMC9308469.
    Citations:    Fields:    Translation:HumansCells
  5. Montanaro A, Kitara S, Cerretani E, Marchesini M, Rompietti C, Pagliaro L, Gherli A, Su A, Minchillo ML, Caputi M, Fioretzaki R, Lorusso B, Ross L, Alexe G, Masselli E, Marozzi M, Rizzi FMA, La Starza R, Mecucci C, Xiong Y, Jin J, Falco A, Knoechel B, Aversa F, Candini O, Quaini F, Sportoletti P, Stegmaier K, Roti G. Identification of an Epi-metabolic dependency on EHMT2/G9a in T-cell acute lymphoblastic leukemia. Cell Death Dis. 2022 06 17; 13(6):551. PMID: 35710782; PMCID: PMC9203761.
    Citations:    Fields:    Translation:HumansCells
  6. Pardieu B, Pasanisi J, Ling F, Dal Bello R, Penneroux J, Su A, Joudinaud R, Chat L, Wu HC, Duchmann M, Sodaro G, Chauvel C, Castelli FA, Vasseur L, Pacchiardi K, Belloucif Y, Laiguillon MC, Meduri E, Vaganay C, Alexe G, Berrou J, Benaksas C, Forget A, Braun T, Gardin C, Raffoux E, Clappier E, Adès L, de Thé H, Fenaille F, Huntly BJ, Stegmaier K, Dombret H, Fenouille N, Lobry C, Puissant A, Itzykson R. Cystine uptake inhibition potentiates front-line therapies in acute myeloid leukemia. Leukemia. 2022 06; 36(6):1585-1595. PMID: 35474100.
    Citations:    Fields:    Translation:HumansCells
  7. Jayavelu AK, Wolf S, Buettner F, Alexe G, Häupl B, Comoglio F, Schneider C, Doebele C, Fuhrmann DC, Wagner S, Donato E, Andresen C, Wilke AC, Zindel A, Jahn D, Splettstoesser B, Plessmann U, Münch S, Abou-El-Ardat K, Makowka P, Acker F, Enssle JC, Cremer A, Schnütgen F, Kurrle N, Chapuy B, Löber J, Hartmann S, Wild PJ, Wittig I, Hübschmann D, Kaderali L, Cox J, Brüne B, Röllig C, Thiede C, Steffen B, Bornhäuser M, Trumpp A, Urlaub H, Stegmaier K, Serve H, Mann M, Oellerich T. The proteogenomic subtypes of acute myeloid leukemia. Cancer Cell. 2022 03 14; 40(3):301-317.e12. PMID: 35245447.
    Citations:    Fields:    Translation:Humans
  8. Pikman Y, Ocasio-Martinez N, Alexe G, Dimitrov B, Kitara S, Diehl FF, Robichaud AL, Conway AS, Ross L, Su A, Ling F, Qi J, Roti G, Lewis CA, Puissant A, Vander Heiden MG, Stegmaier K. Targeting serine hydroxymethyltransferases 1 and 2 for T-cell acute lymphoblastic leukemia therapy. Leukemia. 2022 02; 36(2):348-360. PMID: 34341479; PMCID: PMC8807390.
    Citations: 3     Fields:    Translation:HumansAnimalsCells
  9. Seong BKA, Dharia NV, Lin S, Donovan KA, Chong S, Robichaud A, Conway A, Hamze A, Ross L, Alexe G, Adane B, Nabet B, Ferguson FM, Stolte B, Wang EJ, Sun J, Darzacq X, Piccioni F, Gray NS, Fischer ES, Stegmaier K. TRIM8 modulates the EWS/FLI oncoprotein to promote survival in Ewing sarcoma. Cancer Cell. 2021 09 13; 39(9):1262-1278.e7. PMID: 34329586.
    Citations: 6     Fields:    Translation:HumansCells
  10. Adane B, Alexe G, Seong BKA, Lu D, Hwang EE, Hnisz D, Lareau CA, Ross L, Lin S, Dela Cruz FS, Richardson M, Weintraub AS, Wang S, Iniguez AB, Dharia NV, Conway AS, Robichaud AL, Tanenbaum B, Krill-Burger JM, Vazquez F, Schenone M, Berman JN, Kung AL, Carr SA, Aryee MJ, Young RA, Crompton BD, Stegmaier K. STAG2 loss rewires oncogenic and developmental programs to promote metastasis in Ewing sarcoma. Cancer Cell. 2021 06 14; 39(6):827-844.e10. PMID: 34129824; PMCID: PMC8378827.
    Citations: 7     Fields:    Translation:HumansAnimalsCells
  11. Roux B, Vaganay C, Vargas JD, Alexe G, Benaksas C, Pardieu B, Fenouille N, Ellegast JM, Malolepsza E, Ling F, Sodaro G, Ross L, Pikman Y, Conway AS, Tang Y, Wu T, Anderson DJ, Le Moigne R, Zhou HJ, Luciano F, Hartigan CR, Galinsky I, DeAngelo DJ, Stone RM, Auberger P, Schenone M, Carr SA, Guirouilh-Barbat J, Lopez B, Khaled M, Lage K, Hermine O, Hemann MT, Puissant A, Stegmaier K, Benajiba L. Targeting acute myeloid leukemia dependency on VCP-mediated DNA repair through a selective second-generation small-molecule inhibitor. Sci Transl Med. 2021 03 31; 13(587). PMID: 33790022; PMCID: PMC8672851.
    Citations: 7     Fields:    Translation:HumansAnimalsCells
  12. Su A, Ling F, Vaganay C, Sodaro G, Benaksas C, Dal Bello R, Forget A, Pardieu B, Lin KH, Rutter JC, Bassil CF, Fortin G, Pasanisi J, Antony-Debré I, Alexe G, Benoist JF, Pruvost A, Pikman Y, Qi J, Schlageter MH, Micol JB, Roti G, Cluzeau T, Dombret H, Preudhomme C, Fenouille N, Benajiba L, Golan HM, Stegmaier K, Lobry C, Wood KC, Itzykson R, Puissant A. The Folate Cycle Enzyme MTHFR Is a Critical Regulator of Cell Response to MYC-Targeting Therapies. Cancer Discov. 2020 12; 10(12):1894-1911. PMID: 32826232; PMCID: PMC8044910.
    Citations: 2     Fields:    Translation:HumansAnimalsCells
  13. Steinbacher M, Alexe G, Baune M, Bobrov I, Bösing I, Clausen B, Czotscher T, Epp J, Fischer A, Langstädtler L, Meyer D, Raj Menon S, Riemer O, Sonnenberg H, Thomann A, Toenjes A, Vollertsen F, Wielki N, Ellendt N. Descriptors for High Throughput in Structural Materials Development. High Throughput. 2019 Dec 05; 8(4). PMID: 31817488; PMCID: PMC6966690.
    Citations: 4     
  14. Cremer A, Ellegast JM, Alexe G, Frank ES, Ross L, Chu SH, Pikman Y, Robichaud A, Goodale A, Häupl B, Mohr S, Rao AV, Walker AR, Blachly JS, Piccioni F, Armstrong SA, Byrd JC, Oellerich T, Stegmaier K. Resistance Mechanisms to SYK Inhibition in Acute Myeloid Leukemia. Cancer Discov. 2020 02; 10(2):214-231. PMID: 31771968; PMCID: PMC7058374.
    Citations: 11     Fields:    Translation:HumansAnimalsCells
  15. Hanlon K, Thompson A, Pantano L, Hutchinson JN, Al-Obeidi A, Wang S, Bliss-Moreau M, Helble J, Alexe G, Stegmaier K, Bauer DE, Croker BA. Single-cell cloning of human T-cell lines reveals clonal variation in cell death responses to chemotherapeutics. Cancer Genet. 2019 09; 237:69-77. PMID: 31447068.
    Citations: 1     Fields:    Translation:HumansCells
  16. Ruiz-Gutierrez M, Bölükbasi ÖV, Alexe G, Kotini AG, Ballotti K, Joyce CE, Russell DW, Stegmaier K, Myers K, Novina CD, Papapetrou EP, Shimamura A. Therapeutic discovery for marrow failure with MDS predisposition using pluripotent stem cells. JCI Insight. 2019 04 30; 5. PMID: 31039138.
    Citations: 3     Fields:    Translation:HumansCells
  17. Wang S, Hwang EE, Guha R, O'Neill AF, Melong N, Veinotte CJ, Conway Saur A, Wuerthele K, Shen M, McKnight C, Alexe G, Lemieux ME, Wang A, Hughes E, Xu X, Boxer MB, Hall MD, Kung A, Berman JN, Davis MI, Stegmaier K, Crompton BD. High-throughput Chemical Screening Identifies Focal Adhesion Kinase and Aurora Kinase B Inhibition as a Synergistic Treatment Combination in Ewing Sarcoma. Clin Cancer Res. 2019 07 15; 25(14):4552-4566. PMID: 30979745; PMCID: PMC6634997.
    Citations: 15     Fields:    Translation:HumansAnimalsCells
  18. Liu S, Marneth AE, Alexe G, Walker SR, Gandler HI, Ye DQ, Labella K, Mathur R, Toniolo PA, Tillgren M, Gokhale PC, Barbie D, Mullally A, Stegmaier K, Frank DA. The kinases IKBKE and TBK1 regulate MYC-dependent survival pathways through YB-1 in AML and are targets for therapy. Blood Adv. 2018 12 11; 2(23):3428-3442. PMID: 30504235; PMCID: PMC6290107.
    Citations: 7     Fields:    Translation:HumansAnimalsCells
  19. Iniguez AB, Alexe G, Wang EJ, Roti G, Patel S, Chen L, Kitara S, Conway A, Robichaud AL, Stolte B, Bandopadhayay P, Goodale A, Pantel S, Lee Y, Cheff DM, Hall MD, Guha R, Davis MI, Menard M, Nasholm N, Weiss WA, Qi J, Beroukhim R, Piccioni F, Johannessen C, Stegmaier K. Resistance to Epigenetic-Targeted Therapy Engenders Tumor Cell Vulnerabilities Associated with Enhancer Remodeling. Cancer Cell. 2018 12 10; 34(6):922-938.e7. PMID: 30537514; PMCID: PMC6352909.
    Citations: 22     Fields:    Translation:HumansAnimalsCells
  20. Guenther LM, Dharia NV, Ross L, Conway A, Robichaud AL, Catlett JL, Wechsler CS, Frank ES, Goodale A, Church AJ, Tseng YY, Guha R, McKnight CG, Janeway KA, Boehm JS, Mora J, Davis MI, Alexe G, Piccioni F, Stegmaier K. A Combination CDK4/6 and IGF1R Inhibitor Strategy for Ewing Sarcoma. Clin Cancer Res. 2019 02 15; 25(4):1343-1357. PMID: 30397176; PMCID: PMC6498855.
    Citations: 34     Fields:    Translation:HumansAnimalsCells
  21. Benajiba L, Alexe G, Su A, Raffoux E, Soulier J, Hemann MT, Hermine O, Itzykson R, Stegmaier K, Puissant A. Creatine kinase pathway inhibition alters GSK3 and WNT signaling in EVI1-positive AML. Leukemia. 2019 03; 33(3):800-804. PMID: 30390009.
    Citations: 5     Fields:    Translation:HumansAnimalsCells
  22. Stolte B, Iniguez AB, Dharia NV, Robichaud AL, Conway AS, Morgan AM, Alexe G, Schauer NJ, Liu X, Bird GH, Tsherniak A, Vazquez F, Buhrlage SJ, Walensky LD, Stegmaier K. Genome-scale CRISPR-Cas9 screen identifies druggable dependencies in TP53 wild-type Ewing sarcoma. J Exp Med. 2018 08 06; 215(8):2137-2155. PMID: 30045945; PMCID: PMC6080915.
    Citations: 30     Fields:    Translation:HumansAnimalsCells
  23. Zhang C, D'Alessandro A, Wellendorf AM, Mohmoud F, Serrano-Lopez J, Perentesis JP, Komurov K, Alexe G, Stegmaier K, Whitsett JA, Grimes HL, Cancelas JA. KLF5 controls glutathione metabolism to suppress p190-BCR-ABL+ B-cell lymphoblastic leukemia. Oncotarget. 2018 Jul 03; 9(51):29665-29679. PMID: 30038712.
    Citations: 3     Fields:    
  24. Baldoni S, Del Papa B, Dorillo E, Aureli P, De Falco F, Rompietti C, Sorcini D, Varasano E, Cecchini D, Zei T, Di Tommaso A, Rosati E, Alexe G, Roti G, Stegmaier K, Di Ianni M, Falzetti F, Sportoletti P. Bepridil exhibits anti-leukemic activity associated with NOTCH1 pathway inhibition in chronic lymphocytic leukemia. Int J Cancer. 2018 08 15; 143(4):958-970. PMID: 29508386; PMCID: PMC6055653.
    Citations: 16     Fields:    Translation:HumansAnimalsCells
  25. Wagner FF, Benajiba L, Campbell AJ, Weïwer M, Sacher JR, Gale JP, Ross L, Puissant A, Alexe G, Conway A, Back M, Pikman Y, Galinsky I, DeAngelo DJ, Stone RM, Kaya T, Shi X, Robers MB, Machleidt T, Wilkinson J, Hermine O, Kung A, Stein AJ, Lakshminarasimhan D, Hemann MT, Scolnick E, Zhang YL, Pan JQ, Stegmaier K, Holson EB. Exploiting an Asp-Glu "switch" in glycogen synthase kinase 3 to design paralog-selective inhibitors for use in acute myeloid leukemia. Sci Transl Med. 2018 03 07; 10(431). PMID: 29515000; PMCID: PMC6553635.
    Citations: 33     Fields:    Translation:HumansCells
  26. Iniguez AB, Stolte B, Wang EJ, Conway AS, Alexe G, Dharia NV, Kwiatkowski N, Zhang T, Abraham BJ, Mora J, Kalev P, Leggett A, Chowdhury D, Benes CH, Young RA, Gray NS, Stegmaier K. EWS/FLI Confers Tumor Cell Synthetic Lethality to CDK12 Inhibition in Ewing Sarcoma. Cancer Cell. 2018 02 12; 33(2):202-216.e6. PMID: 29358035.
    Citations: 48     Fields:    Translation:HumansCells
  27. Alexe G, Tausendfreund A, Stöbener D, Fischer A. Model-assisted measuring method for periodical sub-wavelength nanostructures. Appl Opt. 2018 Jan 01; 57(1):92-101. PMID: 29328122.
    Citations:    Fields:    
  28. Akondy RS, Fitch M, Edupuganti S, Yang S, Kissick HT, Li KW, Youngblood BA, Abdelsamed HA, McGuire DJ, Cohen KW, Alexe G, Nagar S, McCausland MM, Gupta S, Tata P, Haining WN, McElrath MJ, Zhang D, Hu B, Greenleaf WJ, Goronzy JJ, Mulligan MJ, Hellerstein M, Ahmed R. Origin and differentiation of human memory CD8 T cells after vaccination. Nature. 2017 12 21; 552(7685):362-367. PMID: 29236685; PMCID: PMC6037316.
    Citations: 173     Fields:    Translation:HumansAnimalsCells
  29. Chen L, Alexe G, Dharia NV, Ross L, Iniguez AB, Conway AS, Wang EJ, Veschi V, Lam N, Qi J, Gustafson WC, Nasholm N, Vazquez F, Weir BA, Cowley GS, Ali LD, Pantel S, Jiang G, Harrington WF, Lee Y, Goodale A, Lubonja R, Krill-Burger JM, Meyers RM, Tsherniak A, Root DE, Bradner JE, Golub TR, Roberts CW, Hahn WC, Weiss WA, Thiele CJ, Stegmaier K. CRISPR-Cas9 screen reveals a MYCN-amplified neuroblastoma dependency on EZH2. J Clin Invest. 2018 01 02; 128(1):446-462. PMID: 29202477; PMCID: PMC5749506.
    Citations: 52     Fields:    Translation:HumansCells
  30. Lobbardi R, Pinder J, Martinez-Pastor B, Theodorou M, Blackburn JS, Abraham BJ, Namiki Y, Mansour M, Abdelfattah NS, Molodtsov A, Alexe G, Toiber D, de Waard M, Jain E, Boukhali M, Lion M, Bhere D, Shah K, Gutierrez A, Stegmaier K, Silverman LB, Sadreyev RI, Asara JM, Oettinger MA, Haas W, Look AT, Young RA, Mostoslavsky R, Dellaire G, Langenau DM. TOX Regulates Growth, DNA Repair, and Genomic Instability in T-cell Acute Lymphoblastic Leukemia. Cancer Discov. 2017 11; 7(11):1336-1353. PMID: 28974511.
    Citations: 23     Fields:    Translation:HumansAnimalsCells
  31. Kim JW, Abudayyeh OO, Yeerna H, Yeang CH, Stewart M, Jenkins RW, Kitajima S, Konieczkowski DJ, Medetgul-Ernar K, Cavazos T, Mah C, Ting S, Van Allen EM, Cohen O, Mcdermott J, Damato E, Aguirre AJ, Liang J, Liberzon A, Alexe G, Doench J, Ghandi M, Vazquez F, Weir BA, Tsherniak A, Subramanian A, Meneses-Cime K, Park J, Clemons P, Garraway LA, Thomas D, Boehm JS, Barbie DA, Hahn WC, Mesirov JP, Tamayo P. Decomposing Oncogenic Transcriptional Signatures to Generate Maps of Divergent Cellular States. Cell Syst. 2017 08 23; 5(2):105-118.e9. PMID: 28837809.
    Citations: 19     Fields:    Translation:HumansCells
  32. Mohr S, Doebele C, Comoglio F, Berg T, Beck J, Bohnenberger H, Alexe G, Corso J, Ströbel P, Wachter A, Beissbarth T, Schnütgen F, Cremer A, Haetscher N, Göllner S, Rouhi A, Palmqvist L, Rieger MA, Schroeder T, Bönig H, Müller-Tidow C, Kuchenbauer F, Schütz E, Green AR, Urlaub H, Stegmaier K, Humphries RK, Serve H, Oellerich T. Hoxa9 and Meis1 Cooperatively Induce Addiction to Syk Signaling by Suppressing miR-146a in Acute Myeloid Leukemia. Cancer Cell. 2017 04 10; 31(4):549-562.e11. PMID: 28399410; PMCID: PMC5389883.
    Citations: 45     Fields:    Translation:HumansAnimalsCells
  33. Fenouille N, Bassil CF, Ben-Sahra I, Benajiba L, Alexe G, Ramos A, Pikman Y, Conway AS, Burgess MR, Li Q, Luciano F, Auberger P, Galinsky I, DeAngelo DJ, Stone RM, Zhang Y, Perkins AS, Shannon K, Hemann MT, Puissant A, Stegmaier K. The creatine kinase pathway is a metabolic vulnerability in EVI1-positive acute myeloid leukemia. Nat Med. 2017 Mar; 23(3):301-313. PMID: 28191887; PMCID: PMC5540325.
    Citations: 36     Fields:    Translation:HumansCells
  34. Pikman Y, Alexe G, Roti G, Conway AS, Furman A, Lee ES, Place AE, Kim S, Saran C, Modiste R, Weinstock DM, Harris M, Kung AL, Silverman LB, Stegmaier K. Synergistic Drug Combinations with a CDK4/6 Inhibitor in T-cell Acute Lymphoblastic Leukemia. Clin Cancer Res. 2017 Feb 15; 23(4):1012-1024. PMID: 28151717; PMCID: PMC5432118.
    Citations: 43     Fields:    Translation:HumansAnimalsCells
  35. Pikman Y, Puissant A, Alexe G, Furman A, Chen LM, Frumm SM, Ross L, Fenouille N, Bassil CF, Lewis CA, Ramos A, Gould J, Stone RM, DeAngelo DJ, Galinsky I, Clish CB, Kung AL, Hemann MT, Vander Heiden MG, Banerji V, Stegmaier K. Targeting MTHFD2 in acute myeloid leukemia. J Exp Med. 2016 06 27; 213(7):1285-306. PMID: 27325891; PMCID: PMC4925018.
    Citations: 68     Fields:    Translation:HumansAnimalsCells
  36. Kim JW, Botvinnik OB, Abudayyeh O, Birger C, Rosenbluh J, Shrestha Y, Abazeed ME, Hammerman PS, DiCara D, Konieczkowski DJ, Johannessen CM, Liberzon A, Alizad-Rahvar AR, Alexe G, Aguirre A, Ghandi M, Greulich H, Vazquez F, Weir BA, Van Allen EM, Tsherniak A, Shao DD, Zack TI, Noble M, Getz G, Beroukhim R, Garraway LA, Ardakani M, Romualdi C, Sales G, Barbie DA, Boehm JS, Hahn WC, Mesirov JP, Tamayo P. Characterizing genomic alterations in cancer by complementary functional associations. Nat Biotechnol. 2016 05; 34(5):539-46. PMID: 27088724; PMCID: PMC4868596.
    Citations: 42     Fields:    Translation:HumansCells
  37. András Prékopa Anh Ninh Gabriela Alexe. On the relationship between the discrete and continuous bounding moment problems and their numerical solutions. Annals of Operations Research. 2016; 238(1):521-575.
  38. Kennedy AL, Vallurupalli M, Chen L, Crompton B, Cowley G, Vazquez F, Weir BA, Tsherniak A, Parasuraman S, Kim S, Alexe G, Stegmaier K. Functional, chemical genomic, and super-enhancer screening identify sensitivity to cyclin D1/CDK4 pathway inhibition in Ewing sarcoma. Oncotarget. 2015 Oct 06; 6(30):30178-93. PMID: 26337082.
    Citations: 40     Fields:    Translation:HumansAnimalsCells
  39. Boros K, Puissant A, Back M, Alexe G, Bassil CF, Sinha P, Tholouli E, Stegmaier K, Byers RJ, Rodig SJ. Increased SYK activity is associated with unfavorable outcome among patients with acute myeloid leukemia. Oncotarget. 2015 Sep 22; 6(28):25575-87. PMID: 26315286.
    Citations: 10     Fields:    Translation:HumansCells
  40. Deveau AP, Forrester AM, Coombs AJ, Wagner GS, Grabher C, Chute IC, Léger D, Mingay M, Alexe G, Rajan V, Liwski R, Hirst M, Steigmaier K, Lewis SM, Look AT, Berman JN. Epigenetic therapy restores normal hematopoiesis in a zebrafish model of NUP98-HOXA9-induced myeloid disease. Leukemia. 2015 Oct; 29(10):2086-97. PMID: 26017032.
    Citations: 14     Fields:    Translation:HumansAnimalsCells
  41. Marques Howarth M, Simpson D, Ngok SP, Nieves B, Chen R, Siprashvili Z, Vaka D, Breese MR, Crompton BD, Alexe G, Hawkins DS, Jacobson D, Brunner AL, West R, Mora J, Stegmaier K, Khavari P, Sweet-Cordero EA. Long noncoding RNA EWSAT1-mediated gene repression facilitates Ewing sarcoma oncogenesis. J Clin Invest. 2014 Dec; 124(12):5275-90. PMID: 25401475; PMCID: PMC4348951.
    Citations: 40     Fields:    Translation:HumansCells
  42. Barbie TU, Alexe G, Aref AR, Li S, Zhu Z, Zhang X, Imamura Y, Thai TC, Huang Y, Bowden M, Herndon J, Cohoon TJ, Fleming T, Tamayo P, Mesirov JP, Ogino S, Wong KK, Ellis MJ, Hahn WC, Barbie DA, Gillanders WE. Targeting an IKBKE cytokine network impairs triple-negative breast cancer growth. J Clin Invest. 2014 Dec; 124(12):5411-23. PMID: 25365225; PMCID: PMC4348940.
    Citations: 75     Fields:    Translation:HumansAnimalsCellsCTClinical Trials
  43. Crompton BD, Stewart C, Taylor-Weiner A, Alexe G, Kurek KC, Calicchio ML, Kiezun A, Carter SL, Shukla SA, Mehta SS, Thorner AR, de Torres C, Lavarino C, Suñol M, McKenna A, Sivachenko A, Cibulskis K, Lawrence MS, Stojanov P, Rosenberg M, Ambrogio L, Auclair D, Seepo S, Blumenstiel B, DeFelice M, Imaz-Rosshandler I, Schwarz-Cruz Y Celis A, Rivera MN, Rodriguez-Galindo C, Fleming MD, Golub TR, Getz G, Mora J, Stegmaier K. The genomic landscape of pediatric Ewing sarcoma. Cancer Discov. 2014 Nov; 4(11):1326-41. PMID: 25186949.
    Citations: 201     Fields:    Translation:HumansCells
  44. Lane AA, Chapuy B, Lin CY, Tivey T, Li H, Townsend EC, van Bodegom D, Day TA, Wu SC, Liu H, Yoda A, Alexe G, Schinzel AC, Sullivan TJ, Malinge S, Taylor JE, Stegmaier K, Jaffe JD, Bustin M, te Kronnie G, Izraeli S, Harris MH, Stevenson KE, Neuberg D, Silverman LB, Sallan SE, Bradner JE, Hahn WC, Crispino JD, Pellman D, Weinstock DM. Triplication of a 21q22 region contributes to B cell transformation through HMGN1 overexpression and loss of histone H3 Lys27 trimethylation. Nat Genet. 2014 Jun; 46(6):618-23. PMID: 24747640.
    Citations: 62     Fields:    Translation:HumansAnimalsCells
  45. Puissant A, Fenouille N, Alexe G, Pikman Y, Bassil CF, Mehta S, Du J, Kazi JU, Luciano F, Rönnstrand L, Kung AL, Aster JC, Galinsky I, Stone RM, DeAngelo DJ, Hemann MT, Stegmaier K. SYK is a critical regulator of FLT3 in acute myeloid leukemia. Cancer Cell. 2014 Feb 10; 25(2):226-42. PMID: 24525236.
    Citations: 69     Fields:    Translation:HumansAnimalsCells
  46. Henrickson SE, Perro M, Loughhead SM, Senman B, Stutte S, Quigley M, Alexe G, Iannacone M, Flynn MP, Omid S, Jesneck JL, Imam S, Mempel TR, Mazo IB, Haining WN, von Andrian UH. Antigen availability determines CD8? T cell-dendritic cell interaction kinetics and memory fate decisions. Immunity. 2013 Sep 19; 39(3):496-507. PMID: 24054328.
    Citations: 64     Fields:    Translation:AnimalsCells
  47. Miller PG, Al-Shahrour F, Hartwell KA, Chu LP, Järås M, Puram RV, Puissant A, Callahan KP, Ashton J, McConkey ME, Poveromo LP, Cowley GS, Kharas MG, Labelle M, Shterental S, Fujisaki J, Silberstein L, Alexe G, Al-Hajj MA, Shelton CA, Armstrong SA, Root DE, Scadden DT, Hynes RO, Mukherjee S, Stegmaier K, Jordan CT, Ebert BL. In Vivo RNAi screening identifies a leukemia-specific dependence on integrin beta 3 signaling. Cancer Cell. 2013 Jul 08; 24(1):45-58. PMID: 23770013.
    Citations: 86     Fields:    Translation:HumansAnimalsCells
  48. Puissant A, Frumm SM, Alexe G, Bassil CF, Qi J, Chanthery YH, Nekritz EA, Zeid R, Gustafson WC, Greninger P, Garnett MJ, McDermott U, Benes CH, Kung AL, Weiss WA, Bradner JE, Stegmaier K. Targeting MYCN in neuroblastoma by BET bromodomain inhibition. Cancer Discov. 2013 Mar; 3(3):308-23. PMID: 23430699.
    Citations: 305     Fields:    Translation:HumansAnimalsCells
  49. Wagh K, Bhatia A, Alexe G, Reddy A, Ravikumar V, Seiler M, Boemo M, Yao M, Cronk L, Naqvi A, Ganesan S, Levine AJ, Bhanot G. Lactase Persistence and Lipid Pathway Selection in the Maasai. PLoS ONE. 2012; 7(9):e44751.
  50. Wagh K, Bhatia A, Alexe G, Reddy A, Ravikumar V, Seiler M, Boemo M, Yao M, Cronk L, Naqvi A, Ganesan S, Levine AJ, Bhanot G. Lactase persistence and lipid pathway selection in the Maasai. PLoS One. 2012; 7(9):e44751. PMID: 23028602.
    Citations: 19     Fields:    Translation:Humans
  51. Glattki GP, Manika K, Sichletidis L, Alexe G, Brenke R, Spyratos D. Pulmonary rehabilitation in non-small cell lung cancer patients after completion of treatment. Am J Clin Oncol. 2012 Apr; 35(2):120-5. PMID: 21378541.
    Citations: 7     Fields:    Translation:Humans
  52. Banerji V, Frumm SM, Ross KN, Li LS, Schinzel AC, Hahn CK, Kakoza RM, Chow KT, Ross L, Alexe G, Tolliday N, Inguilizian H, Galinsky I, Stone RM, DeAngelo DJ, Roti G, Aster JC, Hahn WC, Kung AL, Stegmaier K. The intersection of genetic and chemical genomic screens identifies GSK-3a as a target in human acute myeloid leukemia. J Clin Invest. 2012 Mar; 122(3):935-47. PMID: 22326953; PMCID: PMC3287215.
    Citations: 60     Fields:    Translation:HumansCells
  53. West EE, Youngblood B, Tan WG, Jin HT, Araki K, Alexe G, Konieczny BT, Calpe S, Freeman GJ, Terhorst C, Haining WN, Ahmed R. Tight regulation of memory CD8(+) T cells limits their effectiveness during sustained high viral load. Immunity. 2011 Aug 26; 35(2):285-98. PMID: 21856186.
    Citations: 96     Fields:    Translation:AnimalsCells
  54. Bilal E, Alexe G, Yao M, Cong L, Kulkarni A, Ginjala V, Toppmeyer D, Ganesan S, Bhanot G. Identification of the YES1 Kinase as a Therapeutic Target in Basal-Like Breast Cancers. Genes Cancer. 2010 Oct; 1(10):1063-73. PMID: 21779430.
    Citations: 10     
  55. Liu H, Brannon AR, Reddy AR, Alexe G, Seiler MW, Arreola A, Oza JH, Yao M, Juan D, Liou LS, Ganesan S, Levine AJ, Rathmell WK, Bhanot GV. Identifying mRNA targets of microRNA dysregulated in cancer: with application to clear cell Renal Cell Carcinoma. BMC Syst Biol. 2010 Apr 27; 4:51. PMID: 20420713.
    Citations: 122     Fields:    Translation:Humans
  56. Verhaak RG, Hoadley KA, Purdom E, Wang V, Qi Y, Wilkerson MD, Miller CR, Ding L, Golub T, Mesirov JP, Alexe G, Lawrence M, O'Kelly M, Tamayo P, Weir BA, Gabriel S, Winckler W, Gupta S, Jakkula L, Feiler HS, Hodgson JG, James CD, Sarkaria JN, Brennan C, Kahn A, Spellman PT, Wilson RK, Speed TP, Gray JW, Meyerson M, Getz G, Perou CM, Hayes DN. Integrated genomic analysis identifies clinically relevant subtypes of glioblastoma characterized by abnormalities in PDGFRA, IDH1, EGFR, and NF1. Cancer Cell. 2010 Jan 19; 17(1):98-110. PMID: 20129251.
    Citations: 3356     Fields:    Translation:Humans
  57. Juan D, Alexe G, Antes T, Liu H, Madabhushi A, Delisi C, Ganesan S, Bhanot G, Liou LS. Identification of a microRNA panel for clear-cell kidney cancer. Urology. 2010 Apr; 75(4):835-41. PMID: 20035975.
    Citations: 120     Fields:    Translation:Humans
  58. Alexe G, Monaco J, Doyle S, Basavanhally A, Reddy A, Seiler M, Ganesan S, Bhanot G, Madabhushi A. Towards improved cancer diagnosis and prognosis using analysis of gene expression data and computer aided imaging. Experimental Biology and Medicine. 2009; 234(8):860-79. View Publication.
  59. Alexe G, Bhanot G, Royyuru A. YOR8-2006-0476, Robust Cluster Discovery by Principal Component Analysis and Unsupervised Consensus Ensemble Clustering. 2008.
  60. Alexe G, Satya RV, Seiler M, Platt D, Bhanot T, Hui S, Tanaka M, Levine AJ, Bhanot G. PCA and clustering reveal alternate mtDNA phylogeny of N and M clades. Journal of Molecular Evolution. 2008; 67(5):465-487.
  61. Cancer Genome Atlas Research Network. Comprehensive genomic characterization defines human glioblastoma genes and core pathways. Nature. 2008; 455(7216):1061-1068.
  62. Alexe G, Satya RV, Seiler M, Platt D, Bhanot T, Hui S, Tanaka M, Levine AJ, Bhanot G. PCA and clustering reveal alternate mtDNA phylogeny of N and M clades. J Mol Evol. 2008 Nov; 67(5):465-87. PMID: 18855041.
    Citations: 3     Fields:    Translation:HumansAnimals
  63. Tan AR, Alexe G, Reiss M. Transforming growth factor-beta signaling: emerging stem cell target in metastatic breast cancer? Breast Cancer Res Treat. 2009 Jun; 115(3):453-95. PMID: 18841463; PMCID: PMC2693232.
    Citations: 72     Fields:    Translation:HumansAnimalsCells
  64. Comprehensive genomic characterization defines human glioblastoma genes and core pathways. Nature. 2008 Oct 23; 455(7216):1061-8. PMID: 18772890.
    Citations: 3574     Fields:    Translation:HumansCells
  65. Bilal E, Rabadan R, Alexe G, Fuku N, Ueno H, Nishigaki Y, Fujita Y, Ito M, Arai Y, Hirose N, Ruckenstein A, Bhanot G, Tanaka M. Mitochondrial DNA haplogroup D4a is a marker for extreme longevity in Japan. PLoS One. 2008 Jun 11; 3(6):e2421. PMID: 18545700.
    Citations: 40     Fields:    Translation:Humans
  66. Mishra PJ, Mishra PJ, Humeniuk R, Medina DJ, Alexe G, Mesirov JP, Ganesan S, Glod JW, Banerjee D. Carcinoma-associated fibroblast-like differentiation of human mesenchymal stem cells. Cancer Res. 2008 Jun 01; 68(11):4331-9. PMID: 18519693.
    Citations: 393     Fields:    Translation:HumansAnimalsCells
  67. Anca I, Stanescu-Popp A, Arama V, Duta D, Alexe G, Colcer F. [Celiac disease: diagnostic criteria and impact of gluten free diet--patients' perspective]. Rev Med Chir Soc Med Nat Iasi. 2008 Apr-Jun; 112(2):351-5. PMID: 19295003.
    Citations:    Fields:    Translation:Humans
  68. Alexe G, Dalgin GS, Scanfeld D, Tamayo P, Mesirov JP, DeLisi C, Harris L, Barnard N, Martel M, Levine AJ, Ganesan S, Bhanot G. High expression of lymphocyte-associated genes in node-negative HER2+ breast cancers correlates with lower recurrence rates. Cancer Res. 2007 Nov 15; 67(22):10669-76. PMID: 18006808.
    Citations: 96     Fields:    Translation:HumansCells
  69. Alexe G, Alexe S, Hammer PL, Kogan A. Comprehensive vs. comprehensible classifiers in Logical Analysis of Data. Discrete Applied Mathematics. 2007; 156(6):870-882.
  70. Dalgin GS, Alexe G, Scanfeld D, Tamayo P, Mesirov JP, Ganesan S, DeLisi C, Bhanot G. Portraits of breast cancer progression. BMC Bioinformatics. 2007 Aug 06; 8:291. PMID: 17683614.
    Citations: 18     Fields:    Translation:Humans
  71. Alexe G, Dalgin GS, Ganesan S, Delisi C, Bhanot G. Analysis of breast cancer progression using principal component analysis and clustering. J Biosciences. 2007; 32(5):1027-1039.
  72. Alexe G, Dalgin GS, Ganesan S, Delisi C, Bhanot G. Analysis of breast cancer progression using principal component analysis and clustering. J Biosci. 2007 Aug; 32(5):1027-39. PMID: 17914245.
    Citations: 10     Fields:    Translation:HumansCells
  73. Alexe G, Dalgin GS, Ramaswamy R, Delisi C, Bhanot G. Data perturbation independent diagnosis and validation of breast cancer subtypes using clustering and patterns. Cancer Inform. 2007 Feb 19; 2:243-74. PMID: 19458770.
    Citations: 7     
  74. Alexe G, Fuku N, Bilal E, Ueno H, Nishigaki Y, Fujita Y, Ito M, Arai Y, Hirose N, Bhanot G, Tanaka M. Enrichment of longevity phenotype in mtDNA haplogroups D4b2b, D4a, and D5 in the Japanese population. Hum Genet. 2007 May; 121(3-4):347-56. PMID: 17308896.
    Citations: 33     Fields:    Translation:Humans
  75. Alexe G, Alexe S, Bonates T, Kogan A. Logical Analysis of Data – the vision of Peter L Hammer. Annals of Mathematics and Artificial Intelligence. 2007; 49:265-312.
  76. Alexe G, Dalgin GS, Scanfeld D, Tamayo P, Mesirov JP, Ganesan S, Delisi C, Bhanot G. Breast cancer stratification from analysis of micro-array data of micro-dissected specimens. Genome Inform. 2007; 18:130-40. PMID: 18546481.
    Citations: 4     Fields:    Translation:Humans
  77. Satya RV, Mukherjee A, Alexe G, Parida L, Bhanot G. Constructing near-perfect phylogenies with multiple homoplasy events. Bioinformatics. 2006 Jul 15; 22(14):e514-22. PMID: 16873515.
    Citations: 2     Fields:    Translation:HumansCells
  78. Bond GL, Hirshfield KM, Kirchhoff T, Alexe G, Bond EE, Robins H, Bartel F, Taubert H, Wuerl P, Hait W, Toppmeyer D, Offit K, Levine AJ. MDM2 SNP309 accelerates tumor formation in a gender-specific and hormone-dependent manner. Cancer Res. 2006 May 15; 66(10):5104-10. PMID: 16707433.
    Citations: 150     Fields:    Translation:Humans
  79. Royyuru A, Alexe G, Platt D, Vijaya-Satya R, Parida L, Rosset S, Bhanot G. Inferring Common Origins from mtDNA. Lecture Notes in Computer Science, Springer Berlin Heidelberg. 2006; 3909:246-247.
  80. Alexe G, Hammer P. Spanned patterns in Logical Analysis of Data. Discrete Applied Mathematics. 2006; 154:1039-1049.
  81. Alexe G, Alexe S, Hammer PL, Vizvari B. Pattern-based feature selection in genomics and proteomics. Annals of Operations Research. 2006; 148(1):189-201.
  82. Alexe G, Alexe S, Hammer PL. Pattern-based clustering and attribute analysis. Soft Computing. 2006; 10(5):442-452.
  83. Bhanot G, Alexe G, Venkataraghavan B, Levine AJ. A robust meta-classification strategy for cancer detection from MS data. Proteomics. 2006 Jan; 6(2):592-604. PMID: 16342141.
    Citations: 8     Fields:    Translation:Humans
  84. Alexe G, Alexe S, Axelrod DE, Bonates TO, Lozina II, Reiss M, Hammer PL. Breast cancer prognosis by combinatorial analysis of gene expression data. Breast Cancer Res. 2006; 8(4):R41. PMID: 16859500; PMCID: PMC1779471.
    Citations: 13     Fields:    Translation:Humans
  85. Alexe G, Alexe S, Axelrod DE, Hammer PL, Weissmann D. Logical analysis of diffuse large B-cell lymphomas. Artif Intell Med. 2005 Jul; 34(3):235-67. PMID: 16023562.
    Citations: 4     Fields:    Translation:Humans
  86. Alexe G, Alexe S, Axelrod DE, Hammer PL, Weissmann D. Logical analysis of diffuse large B-cell lymphomas. Artificial Intelligence and Medicine. 2005; 34(3):235-267.
  87. Abramson SD, Alexe G, Hammer PL, Kohn J. A computational approach to predicting cell growth on polymeric biomaterials. J Biomed Mater Res A. 2005 Apr 01; 73(1):116-24. PMID: 15714501.
    Citations: 6     Fields:    Translation:HumansAnimalsCells
  88. Bhanot G, Alexe G, Levine AJ, Venkataraghavan B. A Robust Classification Strategy for Cancer Detection from Mass Spectrometry Data. 2005.
  89. Alexe G, Bhanot G, Venkataraghavan B, Ramaswamy R, Lepre J, Levine AJ, Stolovitzky G. A robust meta-classification strategy for cancer diagnosis from gene expression data. Proc IEEE Comput Syst Bioinform Conf. 2005; 322-5. PMID: 16447989.
    Citations: 3     Fields:    Translation:Humans
  90. Bhanot G, Alexe G, Levine AJ, Stolovitzky G. Robust diagnosis of non-Hodgkin lymphoma phenotypes validated on gene expression data from different laboratories. Genome Inform. 2005; 16(1):233-44. PMID: 16362926.
    Citations: 6     Fields:    Translation:HumansCells
  91. Alexe G, Alexe S, Crama Y, Foldes S, Hammer PL, Simeone B. Consensus algorithms for the generation of all maximal bicliques. Discrete Applied Mathematics. 2004; 145(1):11-21.
  92. Alexe G, Alexe S, Liotta LA, Petricoin E, Reiss M, Hammer PL. Ovarian cancer detection by logical analysis of proteomic data. Proteomics. 2004 Mar; 4(3):766-83. PMID: 14997498.
    Citations: 16     Fields:    Translation:Humans
  93. Alexe G, Hammer PL, Lozin V, de Werra D. Struction revisited. Discrete Applied Mathematics. 2004; 132(1-3):27-46.
  94. Alexe G, Alexe S . The clique structure of a graph. Ann Sci Univ Al I Cuza Iasi Inform (NS). 2000; 8:1-16.
  95. Alexe G. A new proof of Tutte's exclusion criterion for a matroid to be binary. Libertas Mathematica. 1999; 19:139-141.
  96. Olaru E, Alexe G, Mandrescu E. Strong perfectness of the tensor graph product. Rev Roumaine Math Pure Appl. 1998; 43:627-639.
  97. Alexe G, Olaru E. On the graph structure of k-transitive symmetric relations. Studies and Research in Mathematics. 1998; 50:395-407.
  98. Alexe G, Olaru E. The strong perfectness of the normal product of t-perfect graphs. Graphs and Combinatorics. 1997; 19:209-215.
  99. Alexe G. On the unitary, irreducible representations of the classical Lie algebras. Ann Math Theor Phy. 1993; 8(13):25-29.
  100. Alexe G. On the irreducible, finite dimensional representations of Lie groups. Ann Math Theor Phy. 1993; 8(13):29-32.
  101. Alexe G. On the unitary, irreducible representations of the group of diffeomorphisms of a compact manifold. Ann Math Theor Phy. 1992; 10(15):21-26.
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Funded by the NIH National Center for Advancing Translational Sciences through its Clinical and Translational Science Awards Program, grant number UL1TR002541.