Mount Sinai Center for Bioinformatics

2021

Recent Progress in Lyme Disease and Remaining Challenges

Bobe, J. R., Jutras, B. L., Horn, E. J., Embers, M. E., Bailey, A., Moritz, R. L., Zhang, Y., Soloski, M. J., Ostfeld, R. S., Marconi, R. T., Aucott, J., Ma'ayan, A., Keesing, F., Lewis, K., Ben Mamoun, C., Rebman, A. W., McClune, M. E., Breitschwerdt, E. B., Reddy, P. J., Maggi, R., & 11 othersYang, F., Nemser, B., Ozcan, A., Garner, O., Di Carlo, D., Ballard, Z., Joung, H. A., Garcia-Romeu, A., Griffiths, R. R., Baumgarth, N. & Fallon, B. A., 18 Aug 2021, In: Frontiers in Medicine. 8, 666554.

Research output: Contribution to journal › Review article › peer-review

Open Access

29 Scopus citations

2020

Interoperable RNA-Seq analysis in the cloud

Lachmann, A., Clarke, D. J. B., Torre, D., Xie, Z. & Ma'ayan, A., Jun 2020, In: Biochimica et Biophysica Acta - Gene Regulatory Mechanisms. 1863, 6, 194521.

Research output: Contribution to journal › Review article › peer-review

12 Scopus citations

2019

Connectivity Mapping: Methods and Applications

Keenan, A. B., Wojciechowicz, M. L., Wang, Z., Jagodnik, K. M., Jenkins, S. L., Lachmann, A. & Ma'ayan, A., 20 Jul 2019, In: Annual review of biomedical data science. 2, p. 69-92 24 p.

Research output: Contribution to journal › Review article › peer-review

29 Scopus citations

Mining data and metadata from the gene expression omnibus

Wang, Z., Lachmann, A. & Ma’ayan, A., 7 Feb 2019, In: Biophysical Reviews. 11, 1, p. 103-110 8 p.

Research output: Contribution to journal › Review article › peer-review

Open Access

42 Scopus citations

2018

The Library of Integrated Network-Based Cellular Signatures NIH Program: System-Level Cataloging of Human Cells Response to Perturbations

Keenan, A. B., Jenkins, S. L., Jagodnik, K. M., Koplev, S., He, E., Torre, D., Wang, Z., Dohlman, A. B., Silverstein, M. C., Lachmann, A., Kuleshov, M. V., Ma'ayan, A., Stathias, V., Terryn, R., Cooper, D., Forlin, M., Koleti, A., Vidovic, D., Chung, C., Schürer, S. C., & 87 othersVasiliauskas, J., Pilarczyk, M., Shamsaei, B., Fazel, M., Ren, Y., Niu, W., Clark, N. A., White, S., Mahi, N., Zhang, L., Kouril, M., Reichard, J. F., Sivaganesan, S., Medvedovic, M., Meller, J., Koch, R. J., Birtwistle, M. R., Iyengar, R., Sobie, E. A., Azeloglu, E. U., Kaye, J., Osterloh, J., Haston, K., Kalra, J., Finkbiener, S., Li, J., Milani, P., Adam, M., Escalante-Chong, R., Sachs, K., Lenail, A., Ramamoorthy, D., Fraenkel, E., Daigle, G., Hussain, U., Coye, A., Rothstein, J., Sareen, D., Ornelas, L., Banuelos, M., Mandefro, B., Ho, R., Svendsen, C. N., Lim, R. G., Stocksdale, J., Casale, M. S., Thompson, T. G., Wu, J., Thompson, L. M., Dardov, V., Venkatraman, V., Matlock, A., Van Eyk, J. E., Jaffe, J. D., Papanastasiou, M., Subramanian, A., Golub, T. R., Erickson, S. D., Fallahi-Sichani, M., Hafner, M., Gray, N. S., Lin, J. R., Mills, C. E., Muhlich, J. L., Niepel, M., Shamu, C. E., Williams, E. H., Wrobel, D., Sorger, P. K., Heiser, L. M., Gray, J. W., Korkola, J. E., Mills, G. B., LaBarge, M., Feiler, H. S., Dane, M. A., Bucher, E., Nederlof, M., Sudar, D., Gross, S., Kilburn, D. F., Smith, R., Devlin, K., Margolis, R., Derr, L., Lee, A. & Pillai, A., 24 Jan 2018, In: Cell Systems. 6, 1, p. 13-24 12 p.

Research output: Contribution to journal › Review article › peer-review

Open Access

226 Scopus citations

Unexplored therapeutic opportunities in the human genome

Oprea, T. I., Bologa, C. G., Brunak, S., Campbell, A., Gan, G. N., Gaulton, A., Gomez, S. M., Guha, R., Hersey, A., Holmes, J., Jadhav, A., Jensen, L. J., Johnson, G. L., Karlson, A., Leach, A. R., Ma'ayan, A., Malovannaya, A., Mani, S., Mathias, S. L., McManus, M. T., & 21 othersMeehan, T. F., Von Mering, C., Muthas, D., Nguyen, D. T., Overington, J. P., Papadatos, G., Qin, J., Reich, C., Roth, B. L., Schürer, S. C., Simeonov, A., Sklar, L. A., Southall, N., Tomita, S., Tudose, I., Ursu, O., Vidović, D., Waller, A., Westergaard, D., Yang, J. J. & Zahoránszky-Köhalmi, G., 27 Apr 2018, In: Nature Reviews Drug Discovery. 17, 5, p. 317-332 16 p.

Research output: Contribution to journal › Review article › peer-review

189 Scopus citations

2015

Abstraction for data integration: Fusing mammalian molecular, cellular and phenotype big datasets for better knowledge extraction

Rouillard, A. D., Wang, Z. & Ma'Ayan, A., 22 Jun 2015, In: Computational Biology and Chemistry. 58, p. 104-119 16 p.

Research output: Contribution to journal › Review article › peer-review

3 Scopus citations

Reprint of "abstraction for data integration: Fusing mammalian molecular, cellular and phenotype big datasets for better knowledge extraction"

Rouillard, A. D., Wang, Z. & Ma'ayan, A., Dec 2015, In: Computational Biology and Chemistry. 59, p. 123-138 16 p.

Research output: Contribution to journal › Review article › peer-review

6 Scopus citations

2014

Lean Big Data integration in systems biology and systems pharmacology

Ma'ayan, A., Rouillard, A. D., Clark, N. R., Wang, Z., Duan, Q. & Kou, Y., 1 Sep 2014, In: Trends in Pharmacological Sciences. 35, 9, p. 450-460 11 p.

Research output: Contribution to journal › Review article › peer-review