We provide access to high-performance computing resources for research, and we support researchers in using these resources. This page shows a selection of papers in which SCU resources were utilized.
If you'd like us to include another paper, please let us know at scu@med.cornell.edu.
Acknowledging the SCU in your publications
To acknowledge use of SCU resources in your publications, please use the following text as a guideline:
The computations in this paper were run on HPC resources supported by the Scientific Computing Unit at Weill Cornell Medicine.
List of publications
| Citation | Links |
|---|---|
Modern Methods for Delineating Metagenomic Complexity Afshinnekoo E*, Meydan C*, Chowdhury S, Jaroudi D, Boyer C, Bernstein N, Maritz JM, Reeves D, Gandara J, Chhangawala S, Ahsanuddin S, Simmons A, Nessel T, Sundaresh B, Pereira E, Jorgensen E, Kolokotronis SO, Kirchberger N, Garcia I, Gandara D, Dhanraj S, Nawrin T, Saletore Y, Alexander N, Vijay P, Hénaff EM, Zumbo P, Walsh M, O’Mullan GD, Tighe S, Dudley JT, Dunaif A, Ennis S, O’Halloran E, Magalhaes TR, Boone B, Jones AL, Muth TR, Paolantonio KS, Alter E, Schadt EE, Garbarino J, Prill RJ, Carlton JM, Levy S, Mason CE. Cell Systems. 2015. doi:10.1016/j.cels.2015.07.007 | VIVO |
Geospatial Resolution of Human and Bacterial Diversity with City-Scale Metagenomics Afshinnekoo E*, Meydan C*, Chowdhury S, Jaroudi D, Boyer C, Bernstein N, Maritz JM, Reeves D, Gandara J, Chhangawala S, Ahsanuddin S, Simmons A, Nessel T, Sundaresh B, Pereira E, Jorgensen E, Kolokotronis SO, Kirchberger N, Garcia I, Gandara D, Dhanraj S, Nawrin T, Saletore Y, Alexander N, Vijay P, Hénaff EM, Zumbo P, Walsh M, O’Mullan GD, Tighe S, Dudley JT, Dunaif A, Ennis S, O’Halloran E, Magalhaes TR, Boone B, Jones AL, Muth TR, Paolantonio KS, Alter E, Schadt EE, Garbarino J, Prill RJ, Carlton JM, Levy S, Mason CE. Cell Systems. 2015. doi:10.1016/j.cels.2015.01.001 | VIVO |
Mutational Cooperativity Linked to Combinatorial Epigenetic Gain of Function in Acute Myeloid Leukemia Shih A, Jiang Y, Meydan C, Shank K, Pandey S, Barreyro L, Antony-Debre I, Viale A, Socci N, Sun Y, Robertson A, Cavatore M, de Stanchina E, Hricik T, Rapaport F, Woods B, Wei C, Hatlen M, Baljevic M, Nimer S, Tallman M, Paietta E, Cimmino L, Aifantis I, Steidl U, Mason C, Melnick A, Levine R. Cancer Cell. 2015 Apr 13;27(4):502-15. PMID: 25873173 | VIVO |
An integrative computational approach for prioritization of genomic variants Dubchak I, Balasubramanian S, Wang S, Meydan C, Sulakhe D, Poliakov A, Börnigen D, Xie B, Taylor A, Ma J, Paciorkowski A, Mirzaa G, Dave P, Agam G, Xu J, Al-Gazali L, Mason C, Ross E, Maltsev N, Gilliam T. PLoS One. 2014 Dec 15;9(12):e114903. PMID: 25506935 | VIVO |
Single-nucleotide-resolution mapping of m6A and m6Am throughout the transcriptome Linder B, Grozhik A V., Olarerin-George AO, Meydan C, Mason CE, Jaffrey SR. Nature Methods. 2015. doi:10.1038/nmeth.3453 | VIVO |
Dose-dependent role of the cohesin complex in normal and malignant hematopoiesis Viny AD, Ott CJ, Spitzer B, Rivas M, Meydan C, Papalexi E, Yelin D, Shank K, Reyes J, Chiu A, Romin Y, Boyko V, Thota S, Maciejewski JP, Melnick A, Bradner JE, Levine RL. Journal of Experimental Medicine. 2015. doi:10.1084/jem.20151317 | VIVO |
The metagenomics and metadesign of the subways and Urban biomes (MetaSUB) international consortium inaugural meeting report The MetaSUB International Consortium Microbiome. 2016. doi:10.1186/s40168-016-0168-z | VIVO |
CREBBP inactivation promotes the development of HDAC3-dependent lymphomas Jiang Y, Ortega-Molina A, Geng H, Ying HY, Hatzi K, Parsa S, McNally D, Wang L, Doane AS, Agirre X, Teater M, Meydan C, Li Z, Poloway D, Wang S, Ennishi D, Scott DW, Stengel KR, Kranz JE, Holson E, Sharma S, Young JW, Chu CS, Roeder RG, Shaknovich R, Hiebert SW, Gascoyne RD, Tam W, Elemento O, Wendel HG, Melnick AM. Cancer Discovery. 2017. doi:10.1158/2159-8290.CD-16-0975 | VIVO |
Aid is a key regulator of myeloid/erythroid differentiation and DNA methylation in hematopoietic stem/progenitor cells Kunimoto H, McKenney AS, Meydan C, Shank K, Nazir A, Rapaport F, Durham B, Garrett-Bakelman FE, Pronier E, Shih AH, Melnick A, Chaudhuri J, Levine RL. Blood. 2017. doi:10.1182/blood-2016-06-721977 | VIVO |
Combination targeted therapy to disrupt aberrant oncogenic signaling and reverse epigenetic dysfunction in IDH2- and TET2-mutant acute myeloid leukemia Shih AH*, Meydan C*, Shank K, Garrett-Bakelman FE, Ward PS, Intlekofer AM, Nazir A, Stein EM, Knapp K, Glass J, Travins J, Straley K, Gliser C, Mason CE, Yen K, Thompson CB, Melnick A, Levine RL. Cancer Discovery. 2017. doi:10.1158/2159-8290.CD-16-1049 | VIVO |
Epigenetic identity in AML depends on disruption of nonpromoter regulatory elements and is affected by antagonistic effects of mutations in epigenetic modifiers Glass JL, Hassane D, Wouters BJ, Kunimoto H, Avellino R, Garrett-Bakelman FE, Guryanova OA, Bowman R, Redlich S, Intlekofer AM, Meydan C, Qin T, Fall M, Alonso A, Guzman ML, Valk PJM, Thompson CB, Levine R, Elemento O, Delwel R, Melnick A, Figueroa ME. Cancer Discovery. 2017. doi:10.1158/2159-8290.CD-16-1032 | VIVO |
rahu is a mutant allele of Dnmt3c, encoding a DNA methyltransferase homolog required for meiosis and transposon repression in the mouse male germline Jain D, Meydan C, Lange J, Claeys Bouuaert C, Mason CE, Anderson K V., Keeney S. PLoS Genetics. 2017. doi:10.1371/journal.pgen.1006964 | VIVO |
Cooperative epigenetic remodeling by TET2 loss and NRAS mutation drives myeloid transformation and MEK inhibitor sensitivity Kunimoto H, Meydan C, Nazir A, Whitfield J, Shank K, Rapaport F, Maher R, Pronier E, Meyer SC, Garrett-Bakelman FE, Tallman M, Melnick A, Levine RL, Shih AH. Cancer cell. 2018. doi:10.1016/j.ccell.2017.11.012 | Pubmed |
ketu mutant mice uncover an essential meiotic function for the ancient RNA helicase YTHDC2 Jain D, Puno MR, Meydan C, Lailler N, Mason CE, Lima CD, Anderson KV, Keeney S eLife. 2018. doi:10.7554/eLife.30919.001 | VIVO |
Formate hydrogenlyase and formate secretion ameliorate H2 inhibition in the hyperthermophilic archaeon Thermococcus paralvinellae Topçuoğlu B, Meydan C, Orellana R, Holden JF Environmental microbiology. 2018. doi:10.1111/1462-2920.14022 | Pubmed |
Histone demethylase LSD1 is required for germinal center formation and BCL6-driven lymphomagenesis Hatzi K, Geng H, Doane AS, Meydan C, LaRiviere R, Cardenas M, Duy C, Shen H, Vidal MNC, Baslan T, Mohammad HP, Kruger RG, Shaknovich R, Haberman AM, Inghirami G, Lowe SW, Melnick A Nature immunology. 2019. doi:10.1038/s41590-018-0273-1 | VIVO |
Long non-coding RNAs discriminate the stages and gene regulatory states of human humoral immune response Agirre X*, Meydan C*, Jiang Y, Garate L, Doane AS, Li Z, Verma A, Paiva B, Martín-Subero JI, Elemento O, Mason CE, Prosper F, Melnick A Nature Communications. 2019. doi:10.1038/s41467-019-08679-z | VIVO |
The NASA Twins Study: A multi-dimensional analysis of a year-long human spaceflight NASA Twins Investigators Group Science. 2019 (in press) | NASA |