Visualizing the structure of RNA-seq expression data using grade of membership models von Dey, Kushal K, Hsiao, Chiaowen Joyce, Stephens, Matthew

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Combining SNP-to-gene linking strategies to identify disease genes and assess disease omnigenicity von Gazal, Steven, Weissbrod, Omer, Hormozdiari, Farhad, Dey, Kushal K., Nasser, Joseph, Jagadeesh, Karthik A., Weiner, Daniel J., Shi, Huwenbo, Fulco, Charles P., O’Connor, Luke J., Pasaniuc, Bogdan, Engreitz, Jesse M., Price, Alkes L.

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Improving the trans-ancestry portability of polygenic risk scores by prioritizing variants in predicted cell-type-specific regulatory elements von Amariuta, Tiffany, Ishigaki, Kazuyoshi, Sugishita, Hiroki, Ohta, Tazro, Koido, Masaru, Dey, Kushal K., Matsuda, Koichi, Murakami, Yoshinori, Price, Alkes L., Kawakami, Eiryo, Terao, Chikashi, Raychaudhuri, Soumya

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Polygenic architecture of rare coding variation across 394,783 exomes von Weiner, Daniel J., Nadig, Ajay, Jagadeesh, Karthik A., Dey, Kushal K., Neale, Benjamin M., Robinson, Elise B., Karczewski, Konrad J., O’Connor, Luke J.

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A new sequence logo plot to highlight enrichment and depletion von Dey, Kushal K, Xie, Dongyue, Stephens, Matthew

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Regional influences on community structure across the tropical-temperate divide von White, Alexander E., Dey, Kushal K., Mohan, Dhananjai, Stephens, Matthew, Price, Trevor D.

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SAIGE-GENE+ improves the efficiency and accuracy of set-based rare variant association tests von Zhou, Wei, Bi, Wenjian, Zhao, Zhangchen, Dey, Kushal K., Jagadeesh, Karthik A., Karczewski, Konrad J., Daly, Mark J., Neale, Benjamin M., Lee, Seunggeun

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Identifying disease-critical cell types and cellular processes by integrating single-cell RNA-sequencing and human genetics von Jagadeesh, Karthik A., Dey, Kushal K., Montoro, Daniel T., Mohan, Rahul, Gazal, Steven, Engreitz, Jesse M., Xavier, Ramnik J., Price, Alkes L., Regev, Aviv

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Polygenic enrichment distinguishes disease associations of individual cells in single-cell RNA-seq data von Zhang, Martin Jinye, Hou, Kangcheng, Dey, Kushal K., Sakaue, Saori, Jagadeesh, Karthik A., Weinand, Kathryn, Taychameekiatchai, Aris, Rao, Poorvi, Pisco, Angela Oliveira, Zou, James, Wang, Bruce, Gandal, Michael, Raychaudhuri, Soumya, Pasaniuc, Bogdan, Price, Alkes L.

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Single-cell multi-ome regression models identify functional and disease-associated enhancers and enable chromatin potential analysis von Mitra, Sneha, Malik, Rohan, Wong, Wilfred, Rahman, Afsana, Hartemink, Alexander J., Pritykin, Yuri, Dey, Kushal K., Leslie, Christina S.

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Characterizing and inferring quantitative cell cycle phase in single-cell RNA-seq data analysis von Hsiao, Chiaowen Joyce, Tung, PoYuan, Blischak, John D., Burnett, Jonathan E., Barr, Kenneth A., Dey, Kushal K., Stephens, Matthew, Gilad, Yoav

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Author Correction: Single-cell multi-ome regression models identify functional and disease-associated enhancers and enable chromatin potential analysis von Mitra, Sneha, Malik, Rohan, Wong, Wilfred, Rahman, Afsana, Hartemink, Alexander J., Pritykin, Yuri, Dey, Kushal K., Leslie, Christina S.

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Evaluating the informativeness of deep learning annotations for human complex diseases von Dey, Kushal K., van de Geijn, Bryce, Kim, Samuel Sungil, Hormozdiari, Farhad, Kelley, David R., Price, Alkes L.

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Leveraging single-cell ATAC-seq and RNA-seq to identify disease-critical fetal and adult brain cell types von Kim, Samuel S., Truong, Buu, Jagadeesh, Karthik, Dey, Kushal K., Shen, Amber Z., Raychaudhuri, Soumya, Kellis, Manolis, Price, Alkes L.

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Dispersal syndromes drive the formation of biogeographical regions, illustrated by the case of Wallace’s Line von White, Alexander E., Dey, Kushal K., Stephens, Matthew, Price, Trevor D., Nogué, Sandra

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Inference and visualization of DNA damage patterns using a grade of membership model von Al-Asadi, Hussein, Dey, Kushal K, Novembre, John, Stephens, Matthew

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CRISPR screening uncovers a long-range enhancer for ONECUT1 in pancreatic differentiation and links a diabetes risk variant von Kaplan, Samuel Joseph, Wong, Wilfred, Yan, Jielin, Pulecio, Julian, Cho, Hyein S., Li, Qianzi, Zhao, Jiahui, Leslie-Iyer, Jayanti, Kazakov, Jonathan, Murphy, Dylan, Luo, Renhe, Dey, Kushal K., Apostolou, Effie, Leslie, Christina S., Huangfu, Danwei

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Improving the informativeness of Mendelian disease-derived pathogenicity scores for common disease von Kim, Samuel S., Dey, Kushal K., Weissbrod, Omer, Márquez-Luna, Carla, Gazal, Steven, Price, Alkes L.

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Publisher Correction: SAIGE-GENE+ improves the efficiency and accuracy of set-based rare variant association tests von Zhou, Wei, Bi, Wenjian, Zhao, Zhangchen, Dey, Kushal K., Jagadeesh, Karthik A., Karczewski, Konrad J., Daly, Mark J., Neale, Benjamin M., Lee, Seunggeun

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Photochemical Modulation of Biosafe Manganese Nanoparticles on Vigna radiata: A Detailed Molecular, Biochemical, and Biophysical Study von Pradhan, Saheli, Patra, Prasun, Das, Sumistha, Chandra, Sourov, Mitra, Shouvik, Dey, Kushal Kumar, Akbar, Shirin, Palit, Pratip, Goswami, Arunava

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