Computational regulatory genomics : motifs, networks, and dynamics by Kheradpour, Pouya

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ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia by Kheradpour, Pouya, Kellis, Manolis

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Systematic discovery and characterization of regulatory motifs in ENCODE TF binding experiments by Kheradpour, Pouya, Kellis, Manolis

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Beyond the Bits: Cooperative Packet Recovery Using Physical Layer Information by Woo, Grace Rusi, Kheradpour, Pouya, Katabi, Dina

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Comparative analysis of regulatory information and circuits across distant species by Kheradpour, Pouya, Kundaje, Anshul, Wu, Yi-Chieh, Kellis, Manolis

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Synchronized age-related gene expression changes across multiple tissues in human and the link to complex diseases by Ward, Lucas D., Kheradpour, Pouya, Iriarte, Benjamin, Kellis, Manolis

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The Genotype-Tissue Expression (GTEx) pilot analysis: Multitissue gene regulation in humans by Ward, Lucas D., Kheradpour, Pouya, Iriarte, Benjamin, Kamvysselis, Manolis

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A Cis-Regulatory Map of the Drosophila Genome by Bristow, Christopher A., Kheradpour, Pouya, Sealfon, Rachel Sima, Kellis, Manolis

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Evidence of reduced recombination rate in human regulatory domains by Ernst, Jason, Liu, Yaping, Sarkar, Abhishek Kulshreshtha, Kheradpour, Pouya, Kellis, Manolis

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Locating protein-coding sequences under selection for additional, overlapping functions in 29 mammalian genomes by Lin, Michael F., Kheradpour, Pouya, Mag Washietl, Stefan, Parker, Brian J., Pedersen, Jakob S., Kellis, Manolis

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A High-Resolution Map of Human Evolutionary Constraint Using 29 Mammals by Mag Washietl, Stefan, Kheradpour, Pouya, Ernst, Jason, Ward, Lucas D., Jungreis, Irwin, Rasmussen, Matthew D., Kellis, Manolis

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Systematic dissection of regulatory motifs in 2000 predicted human enhancers using a massively parallel reporter assay by Kheradpour, Pouya, Kellis, Manolis, Ernst, Jason, Melnikov, Alexandre, Rogov, Peter, Wang, Li, Zhang, Xiaolan, Alston, Jessica, Mikkelsen, Tarjei Sigurd

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Analysis of variation at transcription factor binding sites in Drosophila and humans by Spivakov, Mikhail, Akhtar, Junaid, Kheradpour, Pouya, Beal, Kathryn, Girardot, Charles, Koscielny, Gautier, Herrero, Javier, Kellis, Manolis, Furlong, Eileen E. M., Birney, Ewan

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An integrated encyclopedia of DNA elements in the human genome by Altshuler, Robert Charles, Ernst, Jason, Kellis, Manolis, Kheradpour, Pouya, Ward, Lucas D., Eaton, Matthew Lucas, Hendrix, David A., Jungreis, Irwin, Lin, Michael F., Washietl, Stefan

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An Epigenetic Signature for Monoallelic Olfactory Receptor Expression by Magklara, Angeliki, Yen, Angela, Colquitt, Bradley M., Clowney, E. Josephine, Allen, William, Markenscoff-Papadimitriou, Eirene, Evans, Zoe A., Kheradpour, Pouya, Mountoufaris, George, Carey, Catriona, Barnea, Gilad, Kellis, Manolis, Lomvardas, Stavros

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Mapping and Analysis of Chromatin State Dynamics in Nine Human Cell Types by Ernst, Jason, Kheradpour, Pouya, Mikkelsen, Tarjei Sigurd, Shoresh, Noam, Ward, Lucas D., Epstein, Charles B., Zhang, Xiaolan, Wang, Li, Issner, Robbyn, Coyne, Michael J., Ku, Manching, Durham, Timothy, Kellis, Manolis, Bernstein, Bradley E.

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A Comprehensive Map of Insulator Elements for the Drosophila Genome by White, Kevin P., Henikoff, Steven, Stein, Lincoln, White, Robert A. H., Russell, Steven, Ahmad, Kami, Feng, Xin, Henikoff, Jorja G., Morrison, Carolyn A., Shah, Parantu K., Brown, Christopher D., Negre, Nicolas, Kheradpour, Pouya, Kellis, Manolis

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Identification of Functional Elements and Regulatory Circuits by Drosophila modENCODE by Kheradpour, Pouya, Bristow, Christopher A., Mag Washietl, Stefan, Ay, Ferhat, Jungreis, Irwin, Marbach, Daniel, Sealfon, Rachel Sima, Will, Sebastian, Berger, Bonnie, Kellis, Manolis, Roy, Sushmita, Ernst, Jason, Lin, Michael F., Meyer, Patrick E., Di Stefano, Luisa, Candeias, Rogerio, Nordman, Jared T., Orr-Weaver, Terry L.

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A User's Guide to the Encyclopedia of DNA Elements (ENCODE) by Bernstein, Bradley E., Epstein, Charles B., Shoresh, Noam, Ernst, Jason, Mikkelsen, Tarjei Sigurd, Kheradpour, Pouya, Zhang, Xiaolan, Wang, Li, Issner, Robbyn, Coyne, Michael J., Durham, Timothy, Ku, Manching, Truong, Thanh, Ward, Lucas D., Altshuler, Robert Charles, Lin, Michael F., Kellis, Manolis, ENCODE Project Consortium

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The Tasmanian Devil Transcriptome Reveals Schwann Cell Origins of a Clonally Transmissible Cancer by Murchison, Elizabeth P., Tovar, Cesar, Hsu, Arthur, Bender, Hannah S., Kheradpour, Pouya, Rebbeck, Clare A., Obendorf, David, Conlan, Carly, Bahlo, Melanie, Blizzard, Catherine A., Pyecroft, Stephen, Kreiss, Alexandre, Kellis, Manolis, Stark, Alexander, Harkins, Timothy T., Graves, Jennifer A. Marshall, Woods, Gregory M., Hannon, Gregory J., Papenfuss, Anthony T.

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