Aristotelis Tsirigos, Ph.D. - Publications

Affiliations: 
2006 New York University, New York, NY, United States 
Area:
Computer Science, Artificial Intelligence

142 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2021 Hu H, Khodadadi-Jamayran A, Dolgalev I, Cho H, Badri S, Chiriboga LA, Zeck B, Lopez De Rodas Gregorio M, Dowling CM, Labbe K, Deng J, Chen T, Zhang H, Zappile P, Chen Z, ... ... Tsirigos A, et al. Targeting the Atf7ip-Setdb1 complex augments antitumor immunity by boosting tumor immunogenicity. Cancer Immunology Research. PMID 34462284 DOI: 10.1158/2326-6066.CIR-21-0543  1
2021 Tang KH, Li S, Khodadadi-Jamayran A, Jen J, Han H, Guidry K, Chen T, Hao Y, Fedele C, Zebala JA, Maeda DY, Christensen JG, Olson P, Athanas A, Loomis CA, ... Tsirigos A, et al. Combined Inhibition of SHP2 and CXCR1/2 Promotes Anti-Tumor T Cell Response in NSCLC. Cancer Discovery. PMID 34353854 DOI: 10.1158/2159-8290.CD-21-0369  1
2021 Deng J, Thennavan A, Dolgalev I, Chen T, Li J, Marzio A, Poirier JT, Peng D, Bulatovic M, Mukhopadhyay S, Silver H, Papadopoulos E, Pyon V, Thakurdin C, Han H, ... ... Tsirigos A, et al. ULK1 inhibition overcomes compromised antigen presentation and restores antitumor immunity in LKB1 mutant lung cancer. Nature Cancer. 2: 503-514. PMID 34142094 DOI: 10.1038/s43018-021-00208-6  1
2021 Vali-Betts E, Krause KJ, Dubrovsky A, Olson K, Graff JP, Mitra A, Datta-Mitra A, Beck K, Tsirigos A, Loomis C, Neto AG, Adler E, Rashidi HH. Effects of Image Quantity and Image Source Variation on Machine Learning Histology Differential Diagnosis Models. Journal of Pathology Informatics. 12: 5. PMID 34012709 DOI: 10.4103/jpi.jpi_69_20  0.01
2021 Wang Y, Coudray N, Zhao Y, Li F, Hu C, Zhang YZ, Imoto S, Tsirigos A, Webb GI, Daly RJ, Song J. HEAL: an automated deep learning framework for cancer histopathology image analysis. Bioinformatics (Oxford, England). PMID 34009289 DOI: 10.1093/bioinformatics/btab380  1
2021 Grigoriou M, Banos A, Hatzioannou A, Kloetgen A, Kouzis P, Aggouraki D, Zakopoulou R, Bamias G, Kassi E, Mavroudis D, Bamias A, Boumpas DT, Tsirigos A, Gogas HJ, Alissafi T, et al. Regulatory T cell transcriptomic reprogramming characterizes adverse events by checkpoint inhibitors in solid tumors. Cancer Immunology Research. PMID 33820810 DOI: 10.1158/2326-6066.CIR-20-0969  1
2021 Hartl J, Serpas L, Wang Y, Rashidfarrokhi A, Perez OA, Sally B, Sisirak V, Soni C, Khodadadi-Jamayran A, Tsirigos A, Caiello I, Bracaglia C, Volpi S, Ghiggeri GM, Chida AS, et al. Autoantibody-mediated impairment of DNASE1L3 activity in sporadic systemic lupus erythematosus. The Journal of Experimental Medicine. 218. PMID 33783474 DOI: 10.1084/jem.20201138  1
2021 Liu M, Devlin JC, Hu J, Volkova A, Battaglia TW, Ho M, Asplin JR, Byrd A, Loke P, Li H, Ruggles KV, Tsirigos A, Blaser MJ, Nazzal L. Microbial genetic and transcriptional contributions to oxalate degradation by the gut microbiota in health and disease. Elife. 10. PMID 33769280 DOI: 10.7554/eLife.63642  1
2021 Pelham-Webb B, Polyzos A, Wojenski L, Kloetgen A, Li J, Di Giammartino DC, Sakellaropoulos T, Tsirigos A, Core L, Apostolou E. H3K27ac bookmarking promotes rapid post-mitotic activation of the pluripotent stem cell program without impacting 3D chromatin reorganization. Molecular Cell. PMID 33730542 DOI: 10.1016/j.molcel.2021.02.032  1
2021 Katzman A, Khodadadi-Jamayran A, Kapeller-Libermann D, Ye X, Tsirigos A, Heguy A, Alberini CM. Distinct transcriptomic profiles in the dorsal hippocampus and prelimbic cortex are transiently regulated following episodic learning. The Journal of Neuroscience : the Official Journal of the Society For Neuroscience. PMID 33536202 DOI: 10.1523/JNEUROSCI.1557-20.2021  1
2021 Wang E, Zhou H, Nadorp B, Cayanan G, Chen X, Yeaton AH, Nomikou S, Witkowski MT, Narang S, Kloetgen A, Thandapani P, Ravn-Boess N, Tsirigos A, Aifantis I. Surface antigen-guided CRISPR screens identify regulators of myeloid leukemia differentiation. Cell Stem Cell. PMID 33450187 DOI: 10.1016/j.stem.2020.12.005  1
2021 Rivas MA, Meydan C, Chin CR, Challman MF, Kim D, Bhinder B, Kloetgen A, Viny AD, Teater MR, McNally DR, Doane AS, Béguelin W, Fernández MTC, Shen H, Wang X, ... ... Tsirigos A, et al. Smc3 dosage regulates B cell transit through germinal centers and restricts their malignant transformation. Nature Immunology. PMID 33432228 DOI: 10.1038/s41590-020-00827-8  1
2020 Vergetis V, Skaltsas D, Gorgoulis VG, Tsirigos A. Assessing drug development risk using Big Data and Machine Learning. Cancer Research. PMID 33355183 DOI: 10.1158/0008-5472.CAN-20-0866  0.01
2020 Yusufova N, Kloetgen A, Teater M, Osunsade A, Camarillo JM, Chin CR, Doane AS, Venters BJ, Portillo-Ledesma S, Conway J, Phillip JM, Elemento O, Scott DW, Béguelin W, Licht JD, ... ... Tsirigos A, et al. Histone H1 loss drives lymphoma by disrupting 3D chromatin architecture. Nature. PMID 33299181 DOI: 10.1038/s41586-020-3017-y  1
2020 Zhang N, Mendieta-Esteban J, Magli A, Lilja KC, Perlingeiro RCR, Marti-Renom MA, Tsirigos A, Dynlacht BD. Muscle progenitor specification and myogenic differentiation are associated with changes in chromatin topology. Nature Communications. 11: 6222. PMID 33277476 DOI: 10.1038/s41467-020-19999-w  0.01
2020 Vasudevaraja V, Rodriguez JH, Pelorosso C, Zhu K, Buccoliero AM, Onozato M, Mohamed H, Serrano J, Tredwin L, Garonzi M, Forcato C, Zeck B, Ramaswami S, Stafford J, Faustin A, ... ... Tsirigos A, et al. Somatic Focal Copy Number Gains of Noncoding Regions of Receptor Tyrosine Kinase Genes in Treatment-Resistant Epilepsy. Journal of Neuropathology and Experimental Neurology. PMID 33274363 DOI: 10.1093/jnen/nlaa137  1
2020 Johannet P, Coudray N, Donnelly DM, Jour G, Illa-Bochaca I, Xia Y, Johnson DB, Wheless L, Patrinely JR, Nomikou S, Rimm DL, Pavlick AC, Weber JS, Zhong J, Tsirigos A, et al. Using Machine Learning Algorithms to Predict Immunotherapy Response in Patients with Advanced Melanoma. Clinical Cancer Research : An Official Journal of the American Association For Cancer Research. PMID 33208341 DOI: 10.1158/1078-0432.CCR-20-2415  1
2020 Tsay JJ, Wu BG, Sulaiman I, Gershner K, Schluger R, Li Y, Yie TA, Meyn P, Olsen E, Perez L, Franca B, Carpenito J, Iizumi T, El-Ashmawy M, Badri M, ... ... Tsirigos A, et al. Lower airway dysbiosis affects lung cancer progression. Cancer Discovery. PMID 33177060 DOI: 10.1158/2159-8290.CD-20-0263  1
2020 Saint Fleur-Lominy S, Evensen NA, Bhatla T, Sethia G, Narang S, Choi JH, Ma X, Yang JJ, Kelly S, Raetz E, Harvey RC, Willman C, Loh ML, Hunger SP, Brown PA, ... ... Tsirigos A, et al. Evolution of the epigenetic landscape in childhood B acute lymphoblastic leukemia and its role in drug resistance. Cancer Research. PMID 33067268 DOI: 10.1158/0008-5472.CAN-20-1145  1
2020 Vidal SE, Polyzos A, Chatterjee K, Ee LS, Swanzey E, Morales-Valencia J, Wang H, Parikh CN, Amlani B, Tu S, Gong Y, Snetkova V, Skok JA, Tsirigos A, Kim S, et al. Context-Dependent Requirement of Euchromatic Histone Methyltransferase Activity during Reprogramming to Pluripotency. Stem Cell Reports. PMID 32976761 DOI: 10.1016/j.stemcr.2020.08.011  1
2020 Cui X, Ma C, Vasudevaraja V, Serrano J, Tong J, Peng Y, Delorenzo M, Shen G, Frenster J, Morales RT, Qian W, Tsirigos A, Chi AS, Jain R, Kurz SC, et al. Dissecting the immunosuppressive tumor microenvironments in Glioblastoma-on-a-Chip for optimized PD-1 immunotherapy. Elife. 9. PMID 32909947 DOI: 10.7554/Elife.52253  1
2020 Moro L, Simoneschi D, Kurz E, Arbini AA, Jang S, Guaragnella N, Giannattasio S, Wang W, Chen YA, Pires G, Dang A, Hernandez E, Kapur P, Mishra A, Tsirigos A, et al. Epigenetic silencing of the ubiquitin ligase subunit FBXL7 impairs c-SRC degradation and promotes epithelial-to-mesenchymal transition and metastasis. Nature Cell Biology. PMID 32839549 DOI: 10.1038/S41556-020-0560-6  0.01
2020 Frazzette N, Khodadadi-Jamayran A, Doudican N, Santana A, Felsen D, Pavlick AC, Tsirigos A, Carucci JA. Decreased cytotoxic T cells and TCR clonality in organ transplant recipients with squamous cell carcinoma. Npj Precision Oncology. 4: 13. PMID 32550269 DOI: 10.1038/s41698-020-0119-9  1
2020 Nishana M, Ha C, Rodriguez-Hernaez J, Ranjbaran A, Chio E, Nora EP, Badri SB, Kloetgen A, Bruneau BG, Tsirigos A, Skok JA. Author Correction: Defining the relative and combined contribution of CTCF and CTCFL to genomic regulation. Genome Biology. 21: 133. PMID 32487268 DOI: 10.1186/S13059-020-02056-6  1
2020 Witkowski MT, Dolgalev I, Evensen NA, Ma C, Chambers T, Roberts KG, Sreeram S, Dai Y, Tikhonova AN, Lasry A, Qu C, Pei D, Cheng C, Robbins GA, Pierro J, ... ... Tsirigos A, et al. Extensive Remodeling of the Immune Microenvironment in B Cell Acute Lymphoblastic Leukemia. Cancer Cell. PMID 32470390 DOI: 10.1016/J.Ccell.2020.04.015  1
2020 Zhou Y, Han C, Wang E, Lorch AH, Serafin V, Cho BK, Guttierrez Diaz BT, Calvo J, Fang C, Khodadadi-Jamayran A, Tabaglio T, Marier C, Kuchmiy A, Sun L, Yacu G, ... ... Tsirigos A, et al. Posttranslational regulation of the exon skipping machinery controls aberrant splicing in leukemia. Cancer Discovery. PMID 32444465 DOI: 10.1158/2159-8290.Cd-19-1436  1
2020 Nishana M, Ha C, Rodriguez-Hernaez J, Ranjbaran A, Chio E, Nora EP, Badri SB, Kloetgen A, Bruneau BG, Tsirigos A, Skok JA. Defining the relative and combined contribution of CTCF and CTCFL to genomic regulation. Genome Biology. 21: 108. PMID 32393311 DOI: 10.1186/S13059-020-02024-0  1
2020 Pierro J, Saliba J, Narang S, Sethia G, Saint Fleur-Lominy S, Chowdhury A, Qualls A, Fay H, Kilberg HL, Moriyama T, Fuller TJ, Teachey DT, Schmiegelow K, Yang JJ, Loh ML, ... ... Tsirigos A, et al. The NSD2 p.E1099K Mutation is Enriched at Relapse and Confers Drug Resistance in a Cell Context Dependent Manner in Pediatric Acute Lymphoblastic Leukemia. Molecular Cancer Research : McR. PMID 32332049 DOI: 10.1158/1541-7786.Mcr-20-0092  1
2020 Kloetgen A, Thandapani P, Ntziachristos P, Ghebrechristos Y, Nomikou S, Lazaris C, Chen X, Hu H, Bakogianni S, Wang J, Fu Y, Boccalatte F, Zhong H, Paietta E, Trimarchi T, ... ... Tsirigos A, et al. Three-dimensional chromatin landscapes in T cell acute lymphoblastic leukemia. Nature Genetics. PMID 32203470 DOI: 10.1038/S41588-020-0602-9  1
2020 Lazaris C, Aifantis I, Tsirigos A. On Epigenetic Plasticity and Genome Topology. Trends in Cancer. 6: 177-180. PMID 32101721 DOI: 10.1016/J.Trecan.2020.01.006  1
2020 Hanniford D, Ulloa-Morales A, Karz A, Berzoti-Coelho MG, Moubarak RS, Sánchez-Sendra B, Kloetgen A, Davalos V, Imig J, Wu P, Vasudevaraja V, Argibay D, Lilja K, Tabaglio T, Monteagudo C, ... ... Tsirigos A, et al. Epigenetic Silencing of CDR1as Drives IGF2BP3-Mediated Melanoma Invasion and Metastasis. Cancer Cell. 37: 55-70.e15. PMID 31935372 DOI: 10.1016/J.Ccell.2019.12.007  1
2020 Giro-Perafita A, Luo L, Khodadadi-Jamayran A, Thompson M, Akgol Oksuz B, Tsirigos A, Dynlacht BD, Sánchez I, Esteva FJ. LncRNA RP11-19E11 is an E2F1 target required for proliferation and survival of basal breast cancer. Npj Breast Cancer. 6: 1. PMID 31934613 DOI: 10.1038/s41523-019-0144-4  1
2020 Hatzioannou A, Banos A, Sakelaropoulos T, Fedonidis C, Vidali MS, Köhne M, Händler K, Boon L, Henriques A, Koliaraki V, Georgiadis P, Zoidakis J, Termentzi A, Beyer M, Chavakis T, ... ... Tsirigos A, et al. An intrinsic role of IL-33 in T cell-mediated tumor immunoevasion. Nature Immunology. 21: 75-85. PMID 31844326 DOI: 10.1038/S41590-019-0555-2  1
2020 Cui X, Ma C, Vasudevaraja V, Serrano J, Tong J, Peng Y, Delorenzo M, Shen G, Frenster J, Morales RT, Qian W, Tsirigos A, Chi AS, Jain R, Kurz SC, et al. Author response: Dissecting the immunosuppressive tumor microenvironments in Glioblastoma-on-a-Chip for optimized PD-1 immunotherapy Elife. DOI: 10.7554/Elife.52253.Sa2  1
2020 Johannet P, Coudray N, Donnelly DM, Jour G, Illa-Bochaca I, Xia Y, Johnson DB, Wheless LE, Patrinely JR, Pavlick AC, Weber JS, Zhong H, Tsirigos A, Osman I. Using machine learning to predict immunotherapy response in advanced melanoma. Journal of Clinical Oncology. 38: 10010-10010. DOI: 10.1200/Jco.2020.38.15_Suppl.10010  1
2020 Pierro J, Saliba J, Narang S, Sethia G, Fleur-Lominy SS, Chowdhury A, Moriyama T, Schmiegelow K, Yang JJ, Loh ML, Brown PA, Zhang J, Ma X, Tsirigos A, Evensen NA, et al. Abstract 5399: The NSD2 p.E1099K mutation is enriched at relapse and confers drug resistance in a cell context dependent manner in pediatric acute lymphoblastic leukemia Cancer Research. 80: 5399-5399. DOI: 10.1158/1538-7445.Am2020-5399  1
2020 Doudican N, Frazzette N, Khodadadi-Jamayran A, Tsirigos A, Carucci J. 137 Decreased cytotoxic T cells, decreased cytotoxic/regulatory T-cell ratio, and decreased TCR clonality are associated with increased numbers of primary cutaneous squamous cell carcinomas in solid organ transplant recipients Journal of Investigative Dermatology. 140. DOI: 10.1016/J.Jid.2020.03.140  1
2019 Halaby MJ, Hezaveh K, Lamorte S, Ciudad MT, Kloetgen A, MacLeod BL, Guo M, Chakravarthy A, Medina TDS, Ugel S, Tsirigos A, Bronte V, Munn DH, Pugh TJ, De Carvalho DD, et al. GCN2 drives macrophage and MDSC function and immunosuppression in the tumor microenvironment. Science Immunology. 4. PMID 31836669 DOI: 10.1126/Sciimmunol.Aax8189  1
2019 Sakellaropoulos T, Vougas K, Narang S, Koinis F, Kotsinas A, Polyzos A, Moss TJ, Piha-Paul S, Zhou H, Kardala E, Damianidou E, Alexopoulos LG, Aifantis I, Townsend PA, Panayiotidis MI, ... ... Tsirigos A, et al. A Deep Learning Framework for Predicting Response to Therapy in Cancer. Cell Reports. 29: 3367-3373.e4. PMID 31825821 DOI: 10.1016/J.Celrep.2019.11.017  1
2019 Ostroff LE, Santini E, Sears R, Deane Z, Kanadia RN, LeDoux JE, Lhakhang T, Tsirigos A, Heguy A, Klann E. Axon TRAP reveals learning-associated alterations in cortical axonal mRNAs in the lateral amgydala. Elife. 8. PMID 31825308 DOI: 10.7554/Elife.51607  1
2019 Li F, Huang Q, Luster TA, Hu H, Zhang H, Ng WL, Khodadadi-Jamayran A, Wang W, Chen T, Deng J, Ranieri M, Fang Z, Pyon V, Dowling CM, Bagdatlioglu E, ... ... Tsirigos A, et al. In vivo epigenetic CRISPR screen identifies Asf1a as an immunotherapeutic target in Kras-mutant lung adenocarcinoma. Cancer Discovery. PMID 31744829 DOI: 10.1158/2159-8290.Cd-19-0780  1
2019 Bledea R, Vasudevaraja V, Patel S, Stafford J, Serrano J, Esposito G, Tredwin LM, Goodman N, Kloetgen A, Golfinos JG, Zagzag D, Weigelt B, Iafrate AJ, Sulman EP, Chi AS, ... ... Tsirigos A, et al. Functional and topographic effects on DNA methylation in IDH1/2 mutant cancers. Scientific Reports. 9: 16830. PMID 31727977 DOI: 10.1038/S41598-019-53262-7  1
2019 Yusufova N, Teater MR, Soshnev A, Kloetgen A, Osunsade A, Conway J, Doane A, Skoultchi A, Tsirigos A, David Y, Allis CD, Cesarman E, Melnick A. Histone 1 Mutations Drive Lymphomagenesis By Inducing Primitive Stem Cell Functions and Epigenetic Instructions through Profound 3D Re-Organization of the B-Cell Genome. Blood. 134: 23. PMID 31723979 DOI: 10.1182/Blood-2019-127774  1
2019 Lhoumaud P, Badri S, Rodriguez-Hernaez J, Sakellaropoulos T, Sethia G, Kloetgen A, Cornwell M, Bhattacharyya S, Ay F, Bonneau R, Tsirigos A, Skok JA. NSD2 overexpression drives clustered chromatin and transcriptional changes in a subset of insulated domains. Nature Communications. 10: 4843. PMID 31649247 DOI: 10.1038/S41467-019-12811-4  1
2019 Di Giammartino DC, Kloetgen A, Polyzos A, Liu Y, Kim D, Murphy D, Abuhashem A, Cavaliere P, Aronson B, Shah V, Dephoure N, Stadtfeld M, Tsirigos A, Apostolou E. KLF4 is involved in the organization and regulation of pluripotency-associated three-dimensional enhancer networks. Nature Cell Biology. PMID 31548608 DOI: 10.1038/S41556-019-0390-6  1
2019 Saldaña-Meyer R, Rodriguez-Hernaez J, Escobar T, Nishana M, Jácome-López K, Nora EP, Bruneau BG, Tsirigos A, Furlan-Magaril M, Skok J, Reinberg D. RNA Interactions Are Essential for CTCF-Mediated Genome Organization. Molecular Cell. PMID 31522988 DOI: 10.1016/J.Molcel.2019.08.015  1
2019 Kloetgen A, Thandapani P, Tsirigos A, Aifantis I. 3D Chromosomal Landscapes in Hematopoiesis and Immunity. Trends in Immunology. PMID 31422902 DOI: 10.1016/J.It.2019.07.003  1
2019 Guillamot M, Ouazia D, Dolgalev I, Yeung ST, Kourtis N, Dai Y, Corrigan K, Zea-Redondo L, Saraf A, Florens L, Washburn MP, Tikhonova AN, Malumbres M, Gong Y, Tsirigos A, et al. The E3 ubiquitin ligase SPOP controls resolution of systemic inflammation by triggering MYD88 degradation. Nature Immunology. PMID 31406379 DOI: 10.1038/S41590-019-0454-6  1
2019 Vougas K, Sakelaropoulos T, Kotsinas A, Foukas GP, Ntargaras A, Koinis F, Polyzos A, Myrianthopoulos V, Zhou H, Narang S, Georgoulias V, Alexopoulos L, Aifantis I, Townsend PA, Sfikakis P, ... ... Tsirigos A, et al. Machine learning and data mining frameworks for predicting drug response in cancer: An overview and a novel in silico screening process based on association rule mining. Pharmacology & Therapeutics. 107395. PMID 31374225 DOI: 10.1016/J.Pharmthera.2019.107395  1
2019 Yu M, Scherwitzl I, Opp S, Tsirigos A, Meruelo D. Molecular and metabolic pathways mediating curative treatment of a non-Hodgkin B cell lymphoma by Sindbis viral vectors and anti-4-1BB monoclonal antibody. Journal For Immunotherapy of Cancer. 7: 185. PMID 31307539 DOI: 10.1186/S40425-019-0664-3  0.08
2019 Tikhonova AN, Dolgalev I, Hu H, Sivaraj KK, Hoxha E, Cuesta-Domínguez Á, Pinho S, Akhmetzyanova I, Gao J, Witkowski M, Guillamot M, Gutkin MC, Zhang Y, Marier C, Diefenbach C, ... ... Tsirigos A, et al. Author Correction: The bone marrow microenvironment at single-cell resolution. Nature. PMID 31296938 DOI: 10.1038/S41586-019-1394-X  1
2019 Lignitto L, LeBoeuf SE, Homer H, Jiang S, Askenazi M, Karakousi TR, Pass HI, Bhutkar AJ, Tsirigos A, Ueberheide B, Sayin VI, Papagiannakopoulos T, Pagano M. Nrf2 Activation Promotes Lung Cancer Metastasis by Inhibiting the Degradation of Bach1. Cell. PMID 31257023 DOI: 10.1016/J.Cell.2019.06.003  0.01
2019 Chen X, Glytsou C, Zhou H, Narang S, Reyna DE, Lopez A, Sakellaropoulos T, Gong Y, Kloetgen A, Yap YS, Wang E, Gavathiotis E, Tsirigos A, Tibes R, Aifantis I. Targeting mitochondrial structure sensitizes acute myeloid leukemia to Venetoclax treatment. Cancer Discovery. PMID 31048321 DOI: 10.1158/2159-8290.Cd-19-0117  1
2019 Tikhonova AN, Dolgalev I, Hu H, Sivaraj KK, Hoxha E, Cuesta-Domínguez Á, Pinho S, Akhmetzyanova I, Gao J, Witkowski M, Guillamot M, Gutkin MC, Zhang Y, Marier C, Diefenbach C, ... ... Tsirigos A, et al. The bone marrow microenvironment at single-cell resolution. Nature. PMID 30971824 DOI: 10.1038/S41586-019-1104-8  1
2019 Tetz G, Vikina D, Brown S, Zappile P, Dolgalev I, Tsirigos A, Heguy A, Tetz V. Draft Genome Sequence of Streptococcus halitosis sp. nov., Isolated from the Dorsal Surface of the Tongue of a Patient with Halitosis. Microbiology Resource Announcements. 8. PMID 30701262 DOI: 10.1128/MRA.01704-18  1
2019 Ostroff LE, Santini E, Sears R, Deane Z, Kanadia RN, LeDoux JE, Lhakhang T, Tsirigos A, Heguy A, Klann E. Author response: Axon TRAP reveals learning-associated alterations in cortical axonal mRNAs in the lateral amygdala Elife. DOI: 10.7554/Elife.51607.Sa2  1
2019 Deng J, Thennavan A, Pan Y, Dolgalev I, Chen T, Silver H, Harris M, Pyon V, Li F, Lee C, Tsirigos A, Rothenberg E, Perou CM, Wong K. Abstract 3223: Overcome LKB1 mutated cancer resistance to anti-PD1 treatment Cancer Research. 79: 3223-3223. DOI: 10.1158/1538-7445.Am2019-3223  1
2018 Xiong X, Schober M, Tassone E, Khodadadi-Jamayran A, Sastre-Perona A, Zhou H, Tsirigos A, Shen S, Chang M, Melamed J, Ossowski L, Wilson EL. KLF4, A Gene Regulating Prostate Stem Cell Homeostasis, Is a Barrier to Malignant Progression and Predictor of Good Prognosis in Prostate Cancer. Cell Reports. 25: 3006-3020.e7. PMID 30540935 DOI: 10.1016/J.Celrep.2018.11.065  1
2018 Spino M, Kurz SC, Chiriboga L, Serrano J, Zeck B, Sen N, Patel S, Shen G, Vasudevaraja V, Tsirigos A, Suryadevara CM, Frenster JD, Tateishi K, Wakimoto H, Jain R, et al. Cell surface Notch ligand DLL3 is a therapeutic target in isocitrate dehydrogenase mutant glioma. Clinical Cancer Research : An Official Journal of the American Association For Cancer Research. PMID 30397180 DOI: 10.1158/1078-0432.Ccr-18-2312  1
2018 Licciardi F, Lhakhang T, Kramer YG, Zhang Y, Heguy A, Tsirigos A. Human blastocysts of normal and abnormal karyotypes display distinct transcriptome profiles. Scientific Reports. 8: 14906. PMID 30297919 DOI: 10.1038/S41598-018-33279-0  1
2018 Coudray N, Ocampo PS, Sakellaropoulos T, Narula N, Snuderl M, Fenyö D, Moreira AL, Razavian N, Tsirigos A. Classification and mutation prediction from non-small cell lung cancer histopathology images using deep learning. Nature Medicine. PMID 30224757 DOI: 10.1038/S41591-018-0177-5  1
2018 Adeegbe DO, Liu S, Hattersley M, Bowden M, Zhou CW, Li S, Vlahos R, Grondine M, Dolgalev I, Ivanova E, Quinn MM, Gao P, Hammerman PS, Bradner JE, Diehl JA, ... ... Tsirigos A, et al. BET bromodomain inhibition cooperates with PD-1 blockade to facilitate antitumor response in Kras-mutant non-small cell lung cancer. Cancer Immunology Research. PMID 30087114 DOI: 10.1158/2326-6066.Cir-18-0077  1
2018 Marcantoni E, Allen N, Cambria MR, Dann R, Cammer M, Lhakhang T, O'Brien MP, Kim B, Worgall T, Heguy A, Tsirigos A, Berger JS. Platelet Transcriptome Profiling in HIV and ATP-Binding Cassette Subfamily C Member 4 (ABCC4) as a Mediator of Platelet Activity. Jacc. Basic to Translational Science. 3: 9-22. PMID 30062189 DOI: 10.1016/J.Jacbts.2017.10.005  1
2018 Kourtis N, Lazaris C, Hockemeyer K, Balandrán JC, Jimenez AR, Mullenders J, Gong Y, Trimarchi T, Bhatt K, Hu H, Shrestha L, Ambesi-Impiombato A, Kelliher M, Paietta E, Chiosis G, ... ... Tsirigos A, et al. Oncogenic hijacking of the stress response machinery in T cell acute lymphoblastic leukemia. Nature Medicine. PMID 30038221 DOI: 10.1038/S41591-018-0105-8  1
2018 Smith-Raska MR, Arenzana TL, D'Cruz LM, Khodadadi-Jamayran A, Tsirigos A, Goldrath AW, Reizis B. The Transcription Factor Zfx Regulates Peripheral T Cell Self-Renewal and Proliferation. Frontiers in Immunology. 9: 1482. PMID 30022979 DOI: 10.3389/Fimmu.2018.01482  1
2018 Shekhar A, Lin X, Lin B, Liu FY, Zhang J, Khodadadi-Jamayran A, Tsirigos A, Bu L, Fishman GI, Park DS. ETV1 activates a rapid conduction transcriptional program in rodent and human cardiomyocytes. Scientific Reports. 8: 9944. PMID 29967479 DOI: 10.1038/S41598-018-28239-7  1
2018 Kirkling ME, Cytlak U, Lau CM, Lewis KL, Resteu A, Khodadadi-Jamayran A, Siebel CW, Salmon H, Merad M, Tsirigos A, Collin M, Bigley V, Reizis B. Notch Signaling Facilitates In Vitro Generation of Cross-Presenting Classical Dendritic Cells. Cell Reports. 23: 3658-3672.e6. PMID 29925006 DOI: 10.1016/J.Celrep.2018.05.068  1
2018 Tsay JJ, Wu BG, Badri MH, Clemente JC, Shen N, Meyn P, Li Y, Yie TA, Lhakhang T, Olsen E, Murthy V, Michaud G, Sulaiman I, Tsirigos A, Heguy A, et al. Airway Microbiota Is Associated with Up-Regulation of the PI3K Pathway in Lung Cancer. American Journal of Respiratory and Critical Care Medicine. PMID 29864375 DOI: 10.1164/Rccm.201710-2118Oc  1
2018 Shinde R, Hezaveh K, Halaby MJ, Kloetgen A, Chakravarthy A, da Silva Medina T, Deol R, Manion KP, Baglaenko Y, Eldh M, Lamorte S, Wallace D, Chodisetti SB, Ravishankar B, Liu H, ... ... Tsirigos A, et al. Apoptotic cell-induced AhR activity is required for immunological tolerance and suppression of systemic lupus erythematosus in mice and humans. Nature Immunology. PMID 29760532 DOI: 10.1038/S41590-018-0107-1  1
2018 Khodadadi-Jamayran A, Akgol-Oksuz B, Afanasyeva Y, Heguy A, Thompson M, Ray K, Giro-Perafita A, Sánchez I, Wu X, Tripathy D, Zeleniuch-Jacquotte A, Tsirigos A, Esteva FJ. Prognostic role of elevated mir-24-3p in breast cancer and its association with the metastatic process. Oncotarget. 9: 12868-12878. PMID 29560116 DOI: 10.18632/Oncotarget.24403  1
2018 Capper D, Jones DTW, Sill M, Hovestadt V, Schrimpf D, Sturm D, Koelsche C, Sahm F, Chavez L, Reuss DE, Kratz A, Wefers AK, Huang K, Pajtler KW, Schweizer L, ... ... Tsirigos A, et al. DNA methylation-based classification of central nervous system tumours. Nature. PMID 29539639 DOI: 10.1038/Nature26000  1
2018 Gong Y, Lazaris C, Sakellaropoulos T, Lozano A, Kambadur P, Ntziachristos P, Aifantis I, Tsirigos A. Stratification of TAD boundaries reveals preferential insulation of super-enhancers by strong boundaries. Nature Communications. 9: 542. PMID 29416042 DOI: 10.1038/S41467-018-03017-1  1
2018 Sen R, Dolgalev I, Bayin NS, Heguy A, Tsirigos A, Placantonakis DG. Single-Cell RNA Sequencing of Glioblastoma Cells. Methods in Molecular Biology (Clifton, N.J.). 1741: 151-170. PMID 29392698 DOI: 10.1007/978-1-4939-7659-1_12  1
2018 Harper L, Balasubramanian D, Ohneck EA, Sause WE, Chapman J, Mejia-Sosa B, Lhakhang T, Heguy A, Tsirigos A, Ueberheide B, Boyd JM, Lun DS, Torres VJ. Staphylococcus aureus Responds to the Central Metabolite Pyruvate To Regulate Virulence. Mbio. 9. PMID 29362239 DOI: 10.1128/Mbio.02272-17  1
2018 Nancy P, Siewiera J, Rizzuto G, Tagliani E, Osokine I, Manandhar P, Dolgalev I, Clementi C, Tsirigos A, Erlebacher A. H3K27me3 dynamics dictate evolving uterine states in pregnancy and parturition. The Journal of Clinical Investigation. 128: 233-247. PMID 29202469 DOI: 10.1172/Jci95937  1
2018 Hogan M, Zhou H, Lhakhang T, Barrett TJ, O'Reilly D, Smilowitz N, Heguy A, Maldonado T, Tsirigos A, Berger J. Identification of a Whole Blood Signature for Venous Thromboembolism Blood. 132: 3809-3809. DOI: 10.1182/Blood-2018-99-110225  1
2018 Kloetgen A, Serrano J, Patel S, Bowman C, Shen G, Zagzag D, Karajannis MA, Golfinos JG, Placantonakis D, Tsirigos A, Chi AS, Snuderl M. Abstract 3658: DNA methylation of circulating tumor educated leukocytes predicts IDH1/2 mutation status in adult patients with diffuse gliomas Cancer Research. 78: 3658-3658. DOI: 10.1158/1538-7445.Am2018-3658  1
2018 Thandapani P, Kloetgen A, Lazaris C, Chen X, Ntziachristos P, Tsirigos A, Aifantis I. Abstract 2998: Dynamic 3d chromosomal landscapes in acute leukemia Cancer Research. 78: 2998-2998. DOI: 10.1158/1538-7445.Am2018-2998  1
2018 Maxwell SM, Lhakhang T, Kramer YG, Zhang Y, Heguy A, Tsirigos A, Grifo JA, Licciardi F. Mosaic blastocysts diagnosed with next generation sequencing (NGS) have unique transcriptomic profiles different from those of euploid or aneuploid embryos Fertility and Sterility. 110. DOI: 10.1016/J.Fertnstert.2018.07.243  1
2017 Brown JA, Yonekubo Y, Hanson N, Sastre-Perona A, Basin A, Rytlewski JA, Dolgalev I, Meehan S, Tsirigos A, Beronja S, Schober M. TGF-β-Induced Quiescence Mediates Chemoresistance of Tumor-Propagating Cells in Squamous Cell Carcinoma. Cell Stem Cell. 21: 650-664.e8. PMID 29100014 DOI: 10.1016/J.Stem.2017.10.001  1
2017 Modrek AS, Golub D, Khan T, Bready D, Prado J, Bowman C, Deng J, Zhang G, Rocha PP, Raviram R, Lazaris C, Stafford JM, LeRoy G, Kader M, Dhaliwal J, ... ... Tsirigos A, et al. Low-Grade Astrocytoma Mutations in IDH1, P53, and ATRX Cooperate to Block Differentiation of Human Neural Stem Cells via Repression of SOX2. Cell Reports. 21: 1267-1280. PMID 29091765 DOI: 10.1016/J.Celrep.2017.10.009  1
2017 Tetz G, Vecherkovskaya M, Zappile P, Dolgalev I, Tsirigos A, Heguy A, Tetz V. Complete Genome Sequence of Kluyvera intestini sp. nov., Isolated from the Stomach of a Patient with Gastric Cancer. Genome Announcements. 5. PMID 29074664 DOI: 10.1128/Genomea.01184-17  1
2017 Bayin NS, Frenster JD, Sen R, Si S, Modrek AS, Galifianakis N, Dolgalev I, Ortenzi V, Illa-Bochaca I, Khahera A, Serrano J, Chiriboga L, Zagzag D, Golfinos JG, Doyle W, ... Tsirigos A, et al. Notch signaling regulates metabolic heterogeneity in glioblastoma stem cells. Oncotarget. 8: 64932-64953. PMID 29029402 DOI: 10.18632/Oncotarget.18117  1
2017 Cimmino L, Dolgalev I, Wang Y, Yoshimi A, Martin GH, Wang J, Ng V, Xia B, Witkowski MT, Mitchell-Flack M, Grillo I, Bakogianni S, Ndiaye-Lobry D, Martín MT, Guillamot M, ... ... Tsirigos A, et al. Restoration of TET2 Function Blocks Aberrant Self-Renewal and Leukemia Progression. Cell. PMID 28823558 DOI: 10.1016/J.Cell.2017.07.032  1
2017 Tetz GV, Ruggles KV, Zhou H, Heguy A, Tsirigos A, Tetz V. Bacteriophages as potential new mammalian pathogens. Scientific Reports. 7: 7043. PMID 28765534 DOI: 10.1038/S41598-017-07278-6  1
2017 Bayin NS, Frenster JD, Sen R, Si S, Modrek AS, Galifianakis N, Dolgalev I, Ortenzi V, Illa-Bochaca I, Khahera A, Serrano J, Chiriboga L, Zagzag D, Golfinos JG, Doyle W, ... Tsirigos A, et al. Notch signaling regulates metabolic heterogeneity in glioblastoma stem cells. Oncotarget. PMID 28586758 DOI: 10.18632/oncotarget.18117  1
2017 Gong Y, Huang HT, Liang Y, Trimarchi T, Aifantis I, Tsirigos A. lncRNA-screen: an interactive platform for computationally screening long non-coding RNAs in large genomics datasets. Bmc Genomics. 18: 434. PMID 28583068 DOI: 10.1186/S12864-017-3817-0  1
2017 Rigoutsos I, Lee SK, Nam SY, Anfossi S, Pasculli B, Pichler M, Jing Y, Rodriguez-Aguayo C, Telonis AG, Rossi S, Ivan C, Catela Ivkovic T, Fabris L, Clark PM, Ling H, ... ... Tsirigos A, et al. N-BLR, a primate-specific non-coding transcript leads to colorectal cancer invasion and migration. Genome Biology. 18: 98. PMID 28535802 DOI: 10.1186/S13059-017-1224-0  1
2017 Strikoudis A, Lazaris C, Ntziachristos P, Tsirigos A, Aifantis I. Opposing functions of H2BK120 ubiquitylation and H3K79 methylation in the regulation of pluripotency by the Paf1 complex. Cell Cycle (Georgetown, Tex.). 0. PMID 28272987 DOI: 10.1080/15384101.2017.1295194  1
2017 Lazaris C, Kelly S, Ntziachristos P, Aifantis I, Tsirigos A. HiC-bench: comprehensive and reproducible Hi-C data analysis designed for parameter exploration and benchmarking. Bmc Genomics. 18: 22. PMID 28056762 DOI: 10.1186/S12864-016-3387-6  1
2017 Gowen M, Tchack J, Zhou H, Giles KM, Paschke S, Moran U, Fenyo D, Tsirigos A, Pacold M, Pavlick AC, Krogsgaard M, Osman I. Predictive biomarkers of ipilimumab toxicity in metastatic melanoma. Journal of Clinical Oncology. 35: 9559-9559. DOI: 10.1200/Jco.2017.35.15_Suppl.9559  1
2017 Fleur-Lominy SS, Bhatla T, Kelly S, Vasudevaraja V, Tsirigos A, Carroll WL. Genomic and Epigenetic Effects of DNA Methyltransferase Inhibition in Acute Lymphoblastic Leukemia Blood. 130: 2479-2479. DOI: 10.1182/Blood.V130.Suppl_1.2479.2479  1
2017 Brown J, Yonekubo Y, Tsirigos A. 131 Defining cellular quiescence as a multi-drug resistance mechanism in squamous cell carcinoma Journal of Investigative Dermatology. 137. DOI: 10.1016/J.Jid.2017.02.145  1
2017 Licciardi F, Kramer YG, Lhakhang T, Zhang Y, Tsirigos A, Heguy A. Comprehensive transcriptome characterization of human blastocysts for normals and every known karyotype Fertility and Sterility. 108. DOI: 10.1016/J.Fertnstert.2017.07.326  1
2016 Gutiérrez GD, Bender AS, Cirulli V, Mastracci TL, Kelly SM, Tsirigos A, Kaestner KH, Sussel L. Pancreatic β cell identity requires continual repression of non-β cell programs. The Journal of Clinical Investigation. PMID 27941248 DOI: 10.1172/Jci88017  0.01
2016 Strikoudis A, Lazaris C, Trimarchi T, Galvao Neto AL, Yang Y, Ntziachristos P, Rothbart S, Buckley S, Dolgalev I, Stadtfeld M, Strahl BD, Dynlacht BD, Tsirigos A, Aifantis I. Regulation of transcriptional elongation in pluripotency and cell differentiation by the PHD-finger protein Phf5a. Nature Cell Biology. PMID 27749823 DOI: 10.1038/Ncb3424  1
2016 Aranda-Orgilles B, Saldaña-Meyer R, Wang E, Trompouki E, Fassl A, Lau S, Mullenders J, Rocha PP, Raviram R, Guillamot M, Sánchez-Díaz M, Wang K, Kayembe C, Zhang N, Amoasii L, ... ... Tsirigos A, et al. MED12 Regulates HSC-Specific Enhancers Independently of Mediator Kinase Activity to Control Hematopoiesis. Cell Stem Cell. PMID 27570068 DOI: 10.1016/J.Stem.2016.08.004  1
2016 Kannan KS, Tsirigos A, Serrano J, Forrester LA, Faustin A, Thomas C, Capper D, Hovestadt V, Pfister SM, Jones DTW, Sill M, Schrimpf D, Deimling Av, Heguy A, Gardner SL, et al. Abstract 11: Advancing methylation profiling in neuropathology: Diagnosis and clinical management Clinical Cancer Research. 22: 11-11. DOI: 10.1158/1557-3265.Pmsclingen15-11  1
2016 Montenont E, Lhakhan T, Newman JD, Bissoon E, Cambria M, Rubin M, Suarez Y, Heguy A, Tsirigos A, Berger JS. Rnaseq Identifies Differential Expression Of Platelet Transcripts In Subjects With Peripheral Artery Disease Journal of the American College of Cardiology. 67: 2237. DOI: 10.1016/S0735-1097(16)32238-0  1
2015 Mullenders J, Aranda-Orgilles B, Lhoumaud P, Keller M, Pae J, Wang K, Kayembe C, Rocha PP, Raviram R, Gong Y, Premsrirut PK, Tsirigos A, Bonneau R, Skok JA, Cimmino L, et al. Cohesin loss alters adult hematopoietic stem cell homeostasis, leading to myeloproliferative neoplasms. The Journal of Experimental Medicine. PMID 26438359 DOI: 10.1084/Jem.20151323  1
2015 Pitt LA, Tikhonova AN, Hu H, Trimarchi T, King B, Gong Y, Sanchez-Martin M, Tsirigos A, Littman DR, Ferrando AA, Morrison SJ, Fooksman DR, Aifantis I, Schwab SR. CXCL12-Producing Vascular Endothelial Niches Control Acute T Cell Leukemia Maintenance. Cancer Cell. 27: 755-68. PMID 26058075 DOI: 10.1016/J.Ccell.2015.05.002  1
2015 Kourtis N, Moubarak RS, Aranda-Orgilles B, Lui K, Aydin IT, Trimarchi T, Darvishian F, Salvaggio C, Zhong J, Bhatt K, Chen EI, Celebi JT, Lazaris C, Tsirigos A, Osman I, et al. FBXW7 modulates cellular stress response and metastatic potential through ​HSF1 post-translational modification. Nature Cell Biology. 17: 322-32. PMID 25720964 DOI: 10.1038/Ncb3121  1
2015 Pitt LA, Tikhonova AN, Trimarchi T, King B, Hu H, Gong Y, Tsirigos A, Sanchez-Martin M, Littman DR, Ferrando A, Morrison SJ, Fooksman DR, Aifantis I, Schwab S. Abstract A06: The chemokine receptor CXCR4 is essential for the maintenance of T cell acute lymphoblastic leukemia. Clinical Cancer Research. 21. DOI: 10.1158/1557-3265.Hemmal14-A06  1
2014 Vidal SE, Amlani B, Chen T, Tsirigos A, Stadtfeld M. Combinatorial modulation of signaling pathways reveals cell-type-specific requirements for highly efficient and synchronous iPSC reprogramming. Stem Cell Reports. 3: 574-84. PMID 25358786 DOI: 10.1016/J.Stemcr.2014.08.003  1
2014 Di Micco R, Fontanals-Cirera B, Low V, Ntziachristos P, Yuen SK, Lovell CD, Dolgalev I, Yonekubo Y, Zhang G, Rusinova E, Gerona-Navarro G, Cañamero M, Ohlmeyer M, Aifantis I, Zhou MM, ... Tsirigos A, et al. Control of embryonic stem cell identity by BRD4-dependent transcriptional elongation of super-enhancer-associated pluripotency genes. Cell Reports. 9: 234-47. PMID 25263550 DOI: 10.1016/J.Celrep.2014.08.055  1
2014 Ntziachristos P, Tsirigos A, Welstead GG, Trimarchi T, Bakogianni S, Xu L, Loizou E, Holmfeldt L, Strikoudis A, King B, Mullenders J, Becksfort J, Nedjic J, Paietta E, Tallman MS, et al. Contrasting roles of histone 3 lysine 27 demethylases in acute lymphoblastic leukaemia. Nature. 514: 513-7. PMID 25132549 DOI: 10.1038/Nature13605  1
2014 Trimarchi T, Bilal E, Ntziachristos P, Fabbri G, Dalla-Favera R, Tsirigos A, Aifantis I. Genome-wide mapping and characterization of Notch-regulated long noncoding RNAs in acute leukemia. Cell. 158: 593-606. PMID 25083870 DOI: 10.1016/J.Cell.2014.05.049  1
2014 Siegle JM, Basin A, Sastre-Perona A, Yonekubo Y, Brown J, Sennett R, Rendl M, Tsirigos A, Carucci JA, Schober M. SOX2 is a cancer-specific regulator of tumour initiating potential in cutaneous squamous cell carcinoma. Nature Communications. 5: 4511. PMID 25077433 DOI: 10.1038/Ncomms5511  1
2014 Lisanti MP, Tsirigos A, Pavlides S, Reeves KJ, Peiris-Pagès M, Chadwick AL, Sanchez-Alvarez R, Lamb R, Howell A, Martinez-Outschoorn UE, Sotgia F. JNK1 stress signaling is hyper-activated in high breast density and the tumor stroma: connecting fibrosis, inflammation, and stemness for cancer prevention. Cell Cycle (Georgetown, Tex.). 13: 580-99. PMID 24434780 DOI: 10.4161/Cc.27379  1
2013 Ntziachristos P, Tsirigos A, Trimarchi T, Loizou E, Luyao X, Vlierberghe PV, King B, Welstead G, Mullighan C, Jaenisch R, Ferrando A, Aifantis I. Abstract A07: Characterizing the specific oncogenic and tumor suppressor roles of H3K27me3 epigenetic modulators in T cell leukemia Cancer Research. 73. DOI: 10.1158/1538-7445.Cec13-A07  1
2012 Sotgia F, Whitaker-Menezes D, Martinez-Outschoorn UE, Salem AF, Tsirigos A, Lamb R, Sneddon S, Hulit J, Howell A, Lisanti MP. Mitochondria "fuel" breast cancer metabolism: fifteen markers of mitochondrial biogenesis label epithelial cancer cells, but are excluded from adjacent stromal cells. Cell Cycle (Georgetown, Tex.). 11: 4390-401. PMID 23172368 DOI: 10.4161/Cc.22777  1
2012 Bonuccelli G, Castello-Cros R, Capozza F, Martinez-Outschoorn UE, Lin Z, Tsirigos A, Xuanmao J, Whitaker-Menezes D, Howell A, Lisanti MP, Sotgia F. The milk protein α-casein functions as a tumor suppressor via activation of STAT1 signaling, effectively preventing breast cancer tumor growth and metastasis. Cell Cycle (Georgetown, Tex.). 11: 3972-82. PMID 23047602 DOI: 10.4161/Cc.22227  1
2012 Capparelli C, Guido C, Whitaker-Menezes D, Bonuccelli G, Balliet R, Pestell TG, Goldberg AF, Pestell RG, Howell A, Sneddon S, Birbe R, Tsirigos A, Martinez-Outschoorn U, Sotgia F, Lisanti MP. Autophagy and senescence in cancer-associated fibroblasts metabolically supports tumor growth and metastasis via glycolysis and ketone production. Cell Cycle (Georgetown, Tex.). 11: 2285-302. PMID 22684298 DOI: 10.4161/Cc.20718  1
2012 Ntziachristos P, Tsirigos A, Van Vlierberghe P, Nedjic J, Trimarchi T, Flaherty MS, Ferres-Marco D, da Ros V, Tang Z, Siegle J, Asp P, Hadler M, Rigo I, De Keersmaecker K, Patel J, et al. Genetic inactivation of the polycomb repressive complex 2 in T cell acute lymphoblastic leukemia. Nature Medicine. 18: 298-301. PMID 22237151 DOI: 10.1038/Nm.2651  1
2012 Ertel A, Tsirigos A, Whitaker-Menezes D, Birbe RC, Pavlides S, Martinez-Outschoorn UE, Pestell RG, Howell A, Sotgia F, Lisanti MP. Is cancer a metabolic rebellion against host aging? In the quest for immortality, tumor cells try to save themselves by boosting mitochondrial metabolism. Cell Cycle (Georgetown, Tex.). 11: 253-63. PMID 22234241 DOI: 10.4161/Cc.11.2.19006  1
2012 Tsirigos A, Haiminen N, Bilal E, Utro F. GenomicTools: a computational platform for developing high-throughput analytics in genomics. Bioinformatics (Oxford, England). 28: 282-3. PMID 22113082 DOI: 10.1093/Bioinformatics/Btr646  1
2012 Tsirigos As, Haiminen Na, Bilal En, Utro Fo. GenomicTools: An open source platform for developing high-throughput analytics in genomics Open Source Software in Life Science Research: Practical Solutions to Common Challenges in the Pharmaceutical Industry and Beyond. 189-220. DOI: 10.1016/B978-1-907568-97-8.50008-4  1
2011 Whitaker-Menezes D, Martinez-Outschoorn UE, Flomenberg N, Birbe RC, Witkiewicz AK, Howell A, Pavlides S, Tsirigos A, Ertel A, Pestell RG, Broda P, Minetti C, Lisanti MP, Sotgia F. Hyperactivation of oxidative mitochondrial metabolism in epithelial cancer cells in situ: visualizing the therapeutic effects of metformin in tumor tissue. Cell Cycle (Georgetown, Tex.). 10: 4047-64. PMID 22134189 DOI: 10.4161/Cc.10.23.18151  1
2011 Witkiewicz AK, Kline J, Queenan M, Brody JR, Tsirigos A, Bilal E, Pavlides S, Ertel A, Sotgia F, Lisanti MP. Molecular profiling of a lethal tumor microenvironment, as defined by stromal caveolin-1 status in breast cancers. Cell Cycle (Georgetown, Tex.). 10: 1794-809. PMID 21521946 DOI: 10.4161/Cc.10.11.15675  1
2011 Martinez-Outschoorn UE, Prisco M, Ertel A, Tsirigos A, Lin Z, Pavlides S, Wang C, Flomenberg N, Knudsen ES, Howell A, Pestell RG, Sotgia F, Lisanti MP. Ketones and lactate increase cancer cell "stemness," driving recurrence, metastasis and poor clinical outcome in breast cancer: achieving personalized medicine via Metabolo-Genomics. Cell Cycle (Georgetown, Tex.). 10: 1271-86. PMID 21512313 DOI: 10.4161/Cc.10.8.15330  1
2011 Rossi S, Tsirigos A, Amoroso A, Mascellani N, Rigoutsos I, Calin GA, Volinia S. OMiR: Identification of associations between OMIM diseases and microRNAs. Genomics. 97: 71-6. PMID 20974243 DOI: 10.1016/J.Ygeno.2010.10.004  1
2011 Witkiewicz AK, Kline J, Queenan M, Brody J, Sotgia F, Tsirigos A, Lisanti MP. Abstract 1510: Transcriptional profiling of a lethal breast cancer tumor microenvironment Cancer Research. 71: 1510-1510. DOI: 10.1158/1538-7445.Am2011-1510  1
2010 Martinez-Outschoorn UE, Whitaker-Menezes D, Pavlides S, Chiavarina B, Bonuccelli G, Casey T, Tsirigos A, Migneco G, Witkiewicz A, Balliet R, Mercier I, Wang C, Flomenberg N, Howell A, Lin Z, et al. The autophagic tumor stroma model of cancer or "battery-operated tumor growth": A simple solution to the autophagy paradox. Cell Cycle (Georgetown, Tex.). 9: 4297-306. PMID 21051947 DOI: 10.4161/Cc.9.21.13817  1
2010 Pavlides S, Tsirigos A, Migneco G, Whitaker-Menezes D, Chiavarina B, Flomenberg N, Frank PG, Casimiro MC, Wang C, Pestell RG, Martinez-Outschoorn UE, Howell A, Sotgia F, Lisanti MP. The autophagic tumor stroma model of cancer: Role of oxidative stress and ketone production in fueling tumor cell metabolism. Cell Cycle (Georgetown, Tex.). 9: 3485-505. PMID 20861672 DOI: 10.4161/Cc.9.17.12721  1
2010 Lisanti MP, Martinez-Outschoorn UE, Chiavarina B, Pavlides S, Whitaker-Menezes D, Tsirigos A, Witkiewicz A, Lin Z, Balliet R, Howell A, Sotgia F. Understanding the "lethal" drivers of tumor-stroma co-evolution: emerging role(s) for hypoxia, oxidative stress and autophagy/mitophagy in the tumor micro-environment. Cancer Biology & Therapy. 10: 537-42. PMID 20861671 DOI: 10.4161/Cbt.10.6.13370  1
2010 Bonuccelli G, Tsirigos A, Whitaker-Menezes D, Pavlides S, Pestell RG, Chiavarina B, Frank PG, Flomenberg N, Howell A, Martinez-Outschoorn UE, Sotgia F, Lisanti MP. Ketones and lactate "fuel" tumor growth and metastasis: Evidence that epithelial cancer cells use oxidative mitochondrial metabolism. Cell Cycle (Georgetown, Tex.). 9: 3506-14. PMID 20818174 DOI: 10.4161/Cc.9.17.12731  1
2010 Migneco G, Whitaker-Menezes D, Chiavarina B, Castello-Cros R, Pavlides S, Pestell RG, Fatatis A, Flomenberg N, Tsirigos A, Howell A, Martinez-Outschoorn UE, Sotgia F, Lisanti MP. Glycolytic cancer associated fibroblasts promote breast cancer tumor growth, without a measurable increase in angiogenesis: evidence for stromal-epithelial metabolic coupling. Cell Cycle (Georgetown, Tex.). 9: 2412-22. PMID 20562527 DOI: 10.4161/Cc.9.12.11989  1
2010 Pavlides S, Tsirigos A, Vera I, Flomenberg N, Frank PG, Casimiro MC, Wang C, Fortina P, Addya S, Pestell RG, Martinez-Outschoorn UE, Sotgia F, Lisanti MP. Loss of stromal caveolin-1 leads to oxidative stress, mimics hypoxia and drives inflammation in the tumor microenvironment, conferring the "reverse Warburg effect": a transcriptional informatics analysis with validation. Cell Cycle (Georgetown, Tex.). 9: 2201-19. PMID 20519932 DOI: 10.4161/Cc.9.11.11848  1
2010 Pavlides S, Tsirigos A, Vera I, Flomenberg N, Frank PG, Casimiro MC, Wang C, Pestell RG, Martinez-Outschoorn UE, Howell A, Sotgia F, Lisanti MP. Transcriptional evidence for the "Reverse Warburg Effect" in human breast cancer tumor stroma and metastasis: similarities with oxidative stress, inflammation, Alzheimer's disease, and "Neuron-Glia Metabolic Coupling". Aging. 2: 185-99. PMID 20442453 DOI: v2/n4/full/100134.html  1
2010 Laurent L, Wong E, Li G, Huynh T, Tsirigos A, Ong CT, Low HM, Kin Sung KW, Rigoutsos I, Loring J, Wei CL. Dynamic changes in the human methylome during differentiation. Genome Research. 20: 320-31. PMID 20133333 DOI: 10.1101/Gr.101907.109  1
2010 Weiss A, Charbonnier E, Ellertsdóttir E, Tsirigos A, Wolf C, Schuh R, Pyrowolakis G, Affolter M. A conserved activation element in BMP signaling during Drosophila development. Nature Structural & Molecular Biology. 17: 69-76. PMID 20010841 DOI: 10.1038/Nsmb.1715  1
2009 Tsirigos A, Rigoutsos I. Alu and b1 repeats have been selectively retained in the upstream and intronic regions of genes of specific functional classes. Plos Computational Biology. 5: e1000610. PMID 20019790 DOI: 10.1371/Journal.Pcbi.1000610  1
2009 Ochoa-Espinosa A, Yu D, Tsirigos A, Struffi P, Small S. Anterior-posterior positional information in the absence of a strong Bicoid gradient. Proceedings of the National Academy of Sciences of the United States of America. 106: 3823-8. PMID 19237583 DOI: 10.1073/Pnas.0807878105  1
2008 Tsirigos A, Rigoutsos I. Human and mouse introns are linked to the same processes and functions through each genome's most frequent non-conserved motifs. Nucleic Acids Research. 36: 3484-93. PMID 18450818 DOI: 10.1093/Nar/Gkn155  1
2007 McHardy AC, Martín HG, Tsirigos A, Hugenholtz P, Rigoutsos I. Accurate phylogenetic classification of variable-length DNA fragments. Nature Methods. 4: 63-72. PMID 17179938 DOI: 10.1038/Nmeth976  1
2006 Rigoutsos I, Huynh T, Miranda K, Tsirigos A, McHardy A, Platt D. Short blocks from the noncoding parts of the human genome have instances within nearly all known genes and relate to biological processes. Proceedings of the National Academy of Sciences of the United States of America. 103: 6605-10. PMID 16636294 DOI: 10.1073/Pnas.0601688103  1
2005 Tsirigos A, Rigoutsos I. A sensitive, support-vector-machine method for the detection of horizontal gene transfers in viral, archaeal and bacterial genomes. Nucleic Acids Research. 33: 3699-707. PMID 16006619 DOI: 10.1093/Nar/Gki660  1
2005 Tsirigos A, Rigoutsos I. A new computational method for the detection of horizontal gene transfer events. Nucleic Acids Research. 33: 922-33. PMID 15716310 DOI: 10.1093/Nar/Gki187  1
2004 Tsirigos A, Haas ZJ. Analysis of Multipath Routing, Part 2: Mitigation of the Effects of Frequently Changing Network Topologies Ieee Transactions On Wireless Communications. 3: 500-511. DOI: 10.1109/Twc.2004.825355  1
2004 Tsirigos A, Haas ZJ. Analysis of Multipath Routing - Part I: The Effect on the Packet Delivery Ratio Ieee Transactions On Wireless Communications. 3: 138-146. DOI: 10.1109/Twc.2003.821207  1
2001 Tsirigos A, Haas ZJ. Multipath routing in the presence of frequent topological changes Ieee Communications Magazine. 39: 132-138. DOI: 10.1109/35.965371  1
2001 Tsirigos A, Haas ZJ. Multipath routing in mobile ad hoc networks or how to route in the presence of frequent topology changes Proceedings - Ieee Military Communications Conference Milcom. 2: 878-883.  1
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