Search Results - "Gusev, Alexander"

Secure large-scale genome-wide association studies using homomorphic encryption by Blatt, Marcelo, Gusev, Alexander, Polyakov, Yuriy, Goldwasser, Shafi

“…Genome-wide association studies (GWASs) seek to identify genetic variants associated with a trait, and have been a powerful approach for understanding complex…”
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Probabilistic fine-mapping of transcriptome-wide association studies by Mancuso, Nicholas, Freund, Malika K., Johnson, Ruth, Shi, Huwenbo, Kichaev, Gleb, Gusev, Alexander, Pasaniuc, Bogdan

“…Transcriptome-wide association studies using predicted expression have identified thousands of genes whose locally regulated expression is associated with…”
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Hierarchy and size distribution function of star formation regions in the spiral galaxy NGC 628 by Gusev, Alexander S.

“…Hierarchical structures and the size distribution of star formation regions in the nearby spiral galaxy NGC 628 are studied over a range of scales from 50 to…”
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Heritability enrichment of specifically expressed genes identifies disease-relevant tissues and cell types by Finucane, Hilary K., Reshef, Yakir A., Anttila, Verneri, Slowikowski, Kamil, Gusev, Alexander, Byrnes, Andrea, Gazal, Steven, Loh, Po-Ru, Lareau, Caleb, Shoresh, Noam, Genovese, Giulio, Saunders, Arpiar, Macosko, Evan, Pollack, Samuela, Perry, John R. B., Buenrostro, Jason D., Bernstein, Bradley E., Raychaudhuri, Soumya, McCarroll, Steven, Neale, Benjamin M., Price, Alkes L.

“…We introduce an approach to identify disease-relevant tissues and cell types by analyzing gene expression data together with genome-wide association study…”
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DeCAF: a novel method to identify cell-type specific regulatory variants and their role in cancer risk by Kalita, Cynthia A, Gusev, Alexander

“…Here, we propose DeCAF (DEconvoluted cell type Allele specific Function), a new method to identify cell-fraction (cf) QTLs in tumors by leveraging both allelic…”
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Partitioning heritability by functional annotation using genome-wide association summary statistics by Finucane, Hilary K, Bulik-Sullivan, Brendan, Gusev, Alexander, Trynka, Gosia, Reshef, Yakir, Loh, Po-Ru, Anttila, Verneri, Xu, Han, Zang, Chongzhi, Farh, Kyle, Ripke, Stephan, Day, Felix R, Purcell, Shaun, Stahl, Eli, Lindstrom, Sara, Perry, John R B, Okada, Yukinori, Raychaudhuri, Soumya, Daly, Mark J, Patterson, Nick, Neale, Benjamin M, Price, Alkes L

“…Hilary Finucane, Brendan Bulik-Sullivan, Benjamin Neale, Alkes Price and colleagues introduce a new method, called stratified LD score regression, for…”
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Leveraging expression from multiple tissues using sparse canonical correlation analysis and aggregate tests improves the power of transcriptome-wide association studies by Feng, Helian, Mancuso, Nicholas, Gusev, Alexander, Majumdar, Arunabha, Major, Megan, Pasaniuc, Bogdan, Kraft, Peter

“…Transcriptome-wide association studies (TWAS) test the association between traits and genetically predicted gene expression levels. The power of a TWAS depends…”
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The Relationship Between Astronomical and Developmental Times Emerging in Modeling the Evolution of Agents by Gusev, Alexander O, Martyushev, Leonid M

“…The simplest evolutionary model for catching prey by an agent (predator) is considered. The simulation is performed on the basis of a software-emulated Intel…”
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Transcriptome-wide association study of schizophrenia and chromatin activity yields mechanistic disease insights by Gusev, Alexander, Mancuso, Nicholas, Won, Hyejung, Kousi, Maria, Finucane, Hilary K., Reshef, Yakir, Song, Lingyun, Safi, Alexias, McCarroll, Steven, Neale, Benjamin M., Ophoff, Roel A., O’Donovan, Michael C., Crawford, Gregory E., Geschwind, Daniel H., Katsanis, Nicholas, Sullivan, Patrick F., Pasaniuc, Bogdan, Price, Alkes L.

“…Genome-wide association studies (GWAS) have identified over 100 risk loci for schizophrenia, but the causal mechanisms remain largely unknown. We performed a…”
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Prostate cancer reactivates developmental epigenomic programs during metastatic progression by Pomerantz, Mark M., Qiu, Xintao, Zhu, Yanyun, Takeda, David Y., Pan, Wenting, Baca, Sylvan C., Gusev, Alexander, Korthauer, Keegan D., Severson, Tesa M., Ha, Gavin, Viswanathan, Srinivas R., Seo, Ji-Heui, Nguyen, Holly M., Zhang, Baohui, Pasaniuc, Bogdan, Giambartolomei, Claudia, Alaiwi, Sarah A., Bell, Connor A., O’Connor, Edward P., Chabot, Matthew S., Stillman, David R., Lis, Rosina, Font-Tello, Alba, Li, Lewyn, Cejas, Paloma, Bergman, Andries M., Sanders, Joyce, van der Poel, Henk G., Gayther, Simon A., Lawrenson, Kate, Fonseca, Marcos A. S., Reddy, Jessica, Corona, Rosario I., Martovetsky, Gleb, Egan, Brian, Choueiri, Toni, Ellis, Leigh, Garraway, Isla P., Lee, Gwo-Shu Mary, Corey, Eva, Long, Henry W., Zwart, Wilbert, Freedman, Matthew L.

“…Epigenetic processes govern prostate cancer (PCa) biology, as evidenced by the dependency of PCa cells on the androgen receptor (AR), a prostate master…”
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Frontiers in Nanotoxicology by Gusev, Alexander A

“…The Special Issue of Nanomaterials “Frontiers in Nanotoxicology” highlights the modern problems of nanotoxicology and nanobiomedicine, including the toxicity…”
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Synthesis, Toxicity Assessment, Environmental and Biomedical Applications of MXenes: A Review by Vasyukova, Inna A, Zakharova, Olga V, Kuznetsov, Denis V, Gusev, Alexander A

“…MXenes are a family of two-dimensional (2D) composite materials based on transition metal carbides, nitrides and carbonitrides that have been attracting…”
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Leveraging molecular quantitative trait loci to understand the genetic architecture of diseases and complex traits by Hormozdiari, Farhad, Gazal, Steven, van de Geijn, Bryce, Finucane, Hilary K., Ju, Chelsea J.-T., Loh, Po-Ru, Schoech, Armin, Reshef, Yakir, Liu, Xuanyao, O’Connor, Luke, Gusev, Alexander, Eskin, Eleazar, Price, Alkes L.

“…There is increasing evidence that many risk loci found using genome-wide association studies are molecular quantitative trait loci (QTLs). Here we introduce a…”
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Contrasting genetic architectures of schizophrenia and other complex diseases using fast variance-components analysis by Loh, Po-Ru, Bhatia, Gaurav, Gusev, Alexander, Finucane, Hilary K, Bulik-Sullivan, Brendan K, Pollack, Samuela J, de Candia, Teresa R, Lee, Sang Hong, Wray, Naomi R, Kendler, Kenneth S, O'Donovan, Michael C, Neale, Benjamin M, Patterson, Nick, Price, Alkes L

“…Po-Ru Loh, Alkes Price and colleagues developed a fast algorithm for multicomponent, multi-trait variance-components analysis and use it to analyze the genetic…”
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Fast and accurate imputation of summary statistics enhances evidence of functional enrichment by Pasaniuc, Bogdan, Zaitlen, Noah, Shi, Huwenbo, Bhatia, Gaurav, Gusev, Alexander, Pickrell, Joseph, Hirschhorn, Joel, Strachan, David P, Patterson, Nick, Price, Alkes L

“…Imputation using external reference panels (e.g. 1000 Genomes) is a widely used approach for increasing power in genome-wide association studies and…”
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Identity-by-descent detection across 487,409 British samples reveals fine scale population structure and ultra-rare variant associations by Nait Saada, Juba, Kalantzis, Georgios, Shyr, Derek, Cooper, Fergus, Robinson, Martin, Gusev, Alexander, Palamara, Pier Francesco

“…Detection of Identical-By-Descent (IBD) segments provides a fundamental measure of genetic relatedness and plays a key role in a wide range of analyses. We…”
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Genetic Ancestry Contributes to Somatic Mutations in Lung Cancers from Admixed Latin American Populations by Carrot-Zhang, Jian, Soca-Chafre, Giovanny, Patterson, Nick, Thorner, Aaron R, Nag, Anwesha, Watson, Jacqueline, Genovese, Giulio, Rodriguez, July, Gelbard, Maya K, Corrales-Rodriguez, Luis, Mitsuishi, Yoichiro, Ha, Gavin, Campbell, Joshua D, Oxnard, Geoffrey R, Arrieta, Oscar, Cardona, Andres F, Gusev, Alexander, Meyerson, Matthew

“…Inherited lung cancer risk, particularly in nonsmokers, is poorly understood. Genomic and ancestry analysis of 1,153 lung cancers from Latin America revealed…”
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Constructing germline research cohorts from the discarded reads of clinical tumor sequences by Gusev, Alexander, Groha, Stefan, Taraszka, Kodi, Semenov, Yevgeniy R, Zaitlen, Noah

“…Hundreds of thousands of cancer patients have had targeted (panel) tumor sequencing to identify clinically meaningful mutations. In addition to improving…”
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Optimized homomorphic encryption solution for secure genome-wide association studies by Blatt, Marcelo, Gusev, Alexander, Polyakov, Yuriy, Rohloff, Kurt, Vaikuntanathan, Vinod

“…Genome-Wide Association Studies (GWAS) refer to observational studies of a genome-wide set of genetic variants across many individuals to see if any genetic…”
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Multi-context genetic modeling of transcriptional regulation resolves novel disease loci by Thompson, Mike, Gordon, Mary Grace, Lu, Andrew, Tandon, Anchit, Halperin, Eran, Gusev, Alexander, Ye, Chun Jimmie, Balliu, Brunilda, Zaitlen, Noah

“…A majority of the variants identified in genome-wide association studies fall in non-coding regions of the genome, indicating their mechanism of impact is…”
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