Harvard Catalyst Profiles

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Gabriela Alexe, Ph.D.

Title
Institution
Department
Address
Phone

Overview
Other Positions

Title: Research Scientist II (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
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. 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 Apr 30; 5. PMID: 31039138.
    Citations:    
  2. 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 Apr 12. PMID: 30979745.
    Citations:    
  3. 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.
    Citations:    
  4. 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 Dec 10; 34(6):922-938.e7. PMID: 30537514.
    Citations:    Fields:    
  5. 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 Feb 15; 25(4):1343-1357. PMID: 30397176.
    Citations:    Fields:    
  6. 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 Mar; 33(3):800-804. PMID: 30390009.
    Citations:    Fields:    
  7. 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.
    Citations:    Fields:    
  8. 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:    Fields:    
  9. 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.
    Citations: 3     Fields:    Translation:HumansAnimals
  10. 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 Mar 07; 10(431). PMID: 29515000.
    Citations: 1     Fields:    
  11. 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: 1     Fields:    Translation:HumansCells
  12. 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:    
  13. 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.
    Citations: 16     Fields:    Translation:HumansAnimalsCells
  14. 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.
    Citations: 3     Fields:    
  15. 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:    Fields:    Translation:HumansAnimalsCells
  16. 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: 1     Fields:    
  17. 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.
    Citations: 8     Fields:    Translation:HumansAnimalsCells
  18. 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.
    Citations: 3     Fields:    Translation:HumansCells
  19. 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.
    Citations: 5     Fields:    Translation:HumansAnimalsCells
  20. 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.
    Citations: 6     Fields:    Translation:HumansAnimalsCells
  21. 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.
    Citations: 7     Fields:    Translation:HumansCells
  22. 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.
  23. 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: 20     Fields:    Translation:HumansAnimalsCells
  24. 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: 4     Fields:    Translation:HumansCells
  25. 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: 6     Fields:    Translation:HumansAnimalsCells
  26. 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.
    Citations: 18     Fields:    Translation:HumansCells
  27. 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.
    Citations: 27     Fields:    Translation:HumansAnimalsCellsCTClinical Trials
  28. 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: 69     Fields:    Translation:HumansCells
  29. 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: 24     Fields:    Translation:HumansAnimalsCells
  30. 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: 41     Fields:    Translation:HumansAnimalsCells
  31. 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: 36     Fields:    Translation:AnimalsCells
  32. 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: 54     Fields:    Translation:HumansAnimalsCells
  33. 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: 166     Fields:    Translation:HumansAnimalsCells
  34. 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: 11     Fields:    Translation:Humans
  35. 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.
  36. 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: 5     Fields:    Translation:Humans
  37. 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.
    Citations: 33     Fields:    Translation:HumansCells
  38. 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: 72     Fields:    Translation:AnimalsCells
  39. 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: 6     
  40. 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: 97     Fields:    Translation:Humans
  41. 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: 1853     Fields:    Translation:Humans
  42. 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: 102     Fields:    Translation:Humans
  43. 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.
  44. Alexe G, Bhanot G, Royyuru A. YOR8-2006-0476, Robust Cluster Discovery by Principal Component Analysis and Unsupervised Consensus Ensemble Clustering. 2008.
  45. 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.
  46. Cancer Genome Atlas Research Network. Comprehensive genomic characterization defines human glioblastoma genes and core pathways. Nature. 2008; 455(7216):1061-1068.
  47. 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: 2     Fields:    Translation:HumansAnimals
  48. 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.
    Citations: 56     Fields:    Translation:HumansAnimalsCells
  49. Comprehensive genomic characterization defines human glioblastoma genes and core pathways. Nature. 2008 Oct 23; 455(7216):1061-8. PMID: 18772890.
    Citations: 2485     Fields:    Translation:HumansCells
  50. 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: 33     Fields:    Translation:Humans
  51. 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: 246     Fields:    Translation:HumansAnimalsCells
  52. 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
  53. 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: 80     Fields:    Translation:HumansCells
  54. 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.
  55. 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: 14     Fields:    Translation:Humans
  56. 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: 4     Fields:    Translation:HumansCells
  57. 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.
  58. 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: 6     
  59. 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: 26     Fields:    Translation:Humans
  60. 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.
  61. 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
  62. 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: 1     Fields:    Translation:HumansCells
  63. 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: 128     Fields:    Translation:Humans
  64. 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.
  65. 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.
  66. Alexe G, Hammer P. Spanned patterns in Logical Analysis of Data. Discrete Applied Mathematics. 2006; 154:1039-1049.
  67. Alexe G, Alexe S, Hammer PL. Pattern-based clustering and attribute analysis. Soft Computing. 2006; 10(5):442-452.
  68. 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.
    Citations: 12     Fields:    Translation:Humans
  69. 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: 6     Fields:    Translation:Humans
  70. 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.
  71. 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
  72. 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
  73. 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
  74. 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
  75. Bhanot G, Alexe G, Levine AJ, Venkataraghavan B. A Robust Classification Strategy for Cancer Detection from Mass Spectrometry Data. 2005.
  76. 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.
  77. 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
  78. Alexe G, Hammer PL, Lozin V, de Werra D. Struction revisited. Discrete Applied Mathematics. 2004; 132(1-3):27-46.
  79. Alexe G, Alexe S . The clique structure of a graph. Ann Sci Univ Al I Cuza Iasi Inform (NS). 2000; 8:1-16.
  80. Alexe G. A new proof of Tutte's exclusion criterion for a matroid to be binary. Libertas Mathematica. 1999; 19:139-141.
  81. Olaru E, Alexe G, Mandrescu E. Strong perfectness of the tensor graph product. Rev Roumaine Math Pure Appl. 1998; 43:627-639.
  82. Alexe G, Olaru E. On the graph structure of k-transitive symmetric relations. Studies and Research in Mathematics. 1998; 50:395-407.
  83. Alexe G, Olaru E. The strong perfectness of the normal product of t-perfect graphs. Graphs and Combinatorics. 1997; 19:209-215.
  84. Alexe G. On the unitary, irreducible representations of the classical Lie algebras. Ann Math Theor Phy. 1993; 8(13):25-29.
  85. Alexe G. On the irreducible, finite dimensional representations of Lie groups. Ann Math Theor Phy. 1993; 8(13):29-32.
  86. 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.