Search Results - "Mattiazzi Usaj, Mojca"

From pixels to insights: Machine learning and deep learning for bioimage analysis by Jan, Mahta, Spangaro, Allie, Lenartowicz, Michelle, Mattiazzi Usaj, Mojca

“…Bioimage analysis plays a critical role in extracting information from biological images, enabling deeper insights into cellular structures and processes. The…”
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Systematic genetics and single‐cell imaging reveal widespread morphological pleiotropy and cell‐to‐cell variability by Mattiazzi Usaj, Mojca, Sahin, Nil, Friesen, Helena, Pons, Carles, Usaj, Matej, Masinas, Myra Paz D, Shuteriqi, Ermira, Shkurin, Aleksei, Aloy, Patrick, Morris, Quaid, Boone, Charles, Andrews, Brenda J

“…Our ability to understand the genotype‐to‐phenotype relationship is hindered by the lack of detailed understanding of phenotypes at a single‐cell level. To…”
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The mammalian-membrane two-hybrid assay (MaMTH) for probing membrane-protein interactions in human cells by Petschnigg, Julia, Groisman, Bella, Kotlyar, Max, Taipale, Mikko, Zheng, Yong, Kurat, Christoph F, Sayad, Azin, Sierra, J Rafael, Usaj, Mojca Mattiazzi, Snider, Jamie, Nachman, Alex, Krykbaeva, Irina, Tsao, Ming-Sound, Moffat, Jason, Pawson, Tony, Lindquist, Susan, Jurisica, Igor, Stagljar, Igor

“…A method based on the split-ubiquitin assay monitors interactions between membrane proteins within human cells. Cell signaling, one of key processes in both…”
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Single-cell image analysis to explore cell-to-cell heterogeneity in isogenic populations by Mattiazzi Usaj, Mojca, Yeung, Clarence Hue Lok, Friesen, Helena, Boone, Charles, Andrews, Brenda J

“…Single-cell image analysis provides a powerful approach for studying cell-to-cell heterogeneity, which is an important attribute of isogenic cell populations,…”
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Functional genomics in the study of yeast cell polarity: moving in the right direction by Styles, Erin, Youn, Ji-Young, Mattiazzi Usaj, Mojca, Andrews, Brenda

“…The budding yeast Saccharomyces cerevisiae has been used extensively for the study of cell polarity, owing to both its experimental tractability and the high…”
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High-Content Screening for Quantitative Cell Biology by Mattiazzi Usaj, Mojca, Styles, Erin B, Verster, Adrian J, Friesen, Helena, Boone, Charles, Andrews, Brenda J

“…High-content screening (HCS), which combines automated fluorescence microscopy with quantitative image analysis, allows the acquisition of unbiased…”
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Systematic analysis of complex genetic interactions by Kuzmin, Elena, VanderSluis, Benjamin, Wang, Wen, Tan, Guihong, Deshpande, Raamesh, Chen, Yiqun, Usaj, Matej, Balint, Attila, Mattiazzi Usaj, Mojca, van Leeuwen, Jolanda, Koch, Elizabeth N, Pons, Carles, Dagilis, Andrius J, Pryszlak, Michael, Wang, Jason Zi Yang, Hanchard, Julia, Riggi, Margot, Xu, Kaicong, Heydari, Hamed, San Luis, Bryan-Joseph, Shuteriqi, Ermira, Zhu, Hongwei, Van Dyk, Nydia, Sharifpoor, Sara, Costanzo, Michael, Loewith, Robbie, Caudy, Amy, Bolnick, Daniel, Brown, Grant W, Andrews, Brenda J, Boone, Charles, Myers, Chad L

“…To systematically explore complex genetic interactions, we constructed ~200,000 yeast triple mutants and scored negative trigenic interactions. We selected…”
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Systematic High-Content Screening of Fluorescently Tagged Yeast Double Mutant Strains by Garadi Suresh, Harsha, Mattiazzi Usaj, Mojca

“…We describe a protocol for high-content screening in budding yeast that can be used to study genetic interactions from a cell biological perspective. This…”
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Exploring genetic suppression interactions on a global scale by van Leeuwen, Jolanda, Pons, Carles, Mellor, Joseph C., Yamaguchi, Takafumi N., Friesen, Helena, Koschwanez, John, Ušaj, Mojca Mattiazzi, Pechlaner, Maria, Takar, Mehmet, Ušaj, Matej, VanderSluis, Benjamin, Andrusiak, Kerry, Bansal, Pritpal, Baryshnikova, Anastasia, Boone, Claire E., Cao, Jessica, Cote, Atina, Gebbia, Marinella, Horecka, Gene, Horecka, Ira, Kuzmin, Elena, Legro, Nicole, Liang, Wendy, van Lieshout, Natascha, McNee, Margaret, San Luis, Bryan-Joseph, Shaeri, Fatemeh, Shuteriqi, Ermira, Sun, Song, Yang, Lu, Youn, Ji-Young, Yuen, Michael, Costanzo, Michael, Gingras, Anne-Claude, Aloy, Patrick, Oostenbrink, Chris, Murray, Andrew, Graham, Todd R., Myers, Chad L., Andrews, Brenda J., Roth, Frederick P., Boone, Charles

“…Genetic suppression occurs when the phenotypic defects caused by a mutation in a particular gene are rescued by a mutation in a second gene. To explore the…”
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PIFiA: self-supervised approach for protein functional annotation from single-cell imaging data by Razdaibiedina, Anastasia, Brechalov, Alexander, Friesen, Helena, Mattiazzi Usaj, Mojca, Masinas, Myra Paz David, Garadi Suresh, Harsha, Wang, Kyle, Boone, Charles, Ba, Jimmy, Andrews, Brenda

“…Fluorescence microscopy data describe protein localization patterns at single-cell resolution and have the potential to reveal whole-proteome functional…”
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Reporter-Based Synthetic Genetic Array Analysis: A Functional Genomics Approach for Investigating Transcript or Protein Abundance Using Fluorescent Proteins in Saccharomyces cerevisiae by Göttert, Hendrikje, Mattiazzi Usaj, Mojca, Rosebrock, Adam P, Andrews, Brenda J

“…Fluorescent reporter genes have long been used to quantify various cell features such as transcript and protein abundance. Here, we describe a method, reporter…”
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TheCellVision.org: A Database for Visualizing and Mining High-Content Cell Imaging Projects by Masinas, Myra Paz David, Usaj, Mojca Mattiazzi, Usaj, Matej, Boone, Charles, Andrews, Brenda J

“…Abstract Advances in genome engineering and high throughput imaging technologies have enabled genome-scale screens of single cells for a variety of phenotypes,…”
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Identification of triazenyl indoles as inhibitors of fungal fatty acid biosynthesis with broad-spectrum activity by Iyer, Kali R, Li, Sheena C, Revie, Nicole M, Lou, Jennifer W, Duncan, Dustin, Fallah, Sara, Sanchez, Hiram, Skulska, Iwona, Ušaj, Mojca Mattiazzi, Safizadeh, Hamid, Larsen, Brett, Wong, Cassandra, Aman, Ahmed, Kiyota, Taira, Yoshimura, Mami, Kimura, Hiromi, Hirano, Hiroyuki, Yoshida, Minoru, Osada, Hiroyuki, Gingras, Anne-Claude, Andes, David R, Shapiro, Rebecca S, Robbins, Nicole, Mazhab-Jafari, Mohammad T, Whitesell, Luke, Yashiroda, Yoko, Boone, Charles, Cowen, Leah E

“…Rising drug resistance among pathogenic fungi, paired with a limited antifungal arsenal, poses an increasing threat to human health. To identify antifungal…”
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Determination of toxicity of neonicotinoids on the genome level using chemogenomics in yeast by Mattiazzi Ušaj, Mojca, Kaferle, Petra, Toplak, Alenka, Trebše, Polonca, Petrovič, Uroš

“…•Additives are responsible for side effects of formulations including neonicotinoids.•Chemogenomics provided a possible mechanism of toxicity for inhibition of…”
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Exploring whole-genome duplicate gene retention with complex genetic interaction analysis by Kuzmin, Elena, VanderSluis, Benjamin, Nguyen Ba, Alex N, Wang, Wen, Koch, Elizabeth N, Usaj, Matej, Khmelinskii, Anton, Usaj, Mojca Mattiazzi, van Leeuwen, Jolanda, Kraus, Oren, Tresenrider, Amy, Pryszlak, Michael, Hu, Ming-Che, Varriano, Brenda, Costanzo, Michael, Knop, Michael, Moses, Alan, Myers, Chad L, Andrews, Brenda J, Boone, Charles

“…Whole-genome duplication has played a central role in the genome evolution of many organisms, including the human genome. Most duplicated genes are eliminated,…”
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Yeast Saccharomyces cerevisiae adiponectin receptor homolog Izh2 is involved in the regulation of zinc, phospholipid and pH homeostasis by Mattiazzi Ušaj, Mojca, Prelec, Metod, Brložnik, Mojca, Primo, Cecilia, Curk, Tomaž, Ščančar, Janez, Yenush, Lynne, Petrovič, Uroš

“…The functional link between zinc homeostasis and membrane-related processes, including lipid metabolism regulation, extends from yeast to humans, and has a…”
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High-Throughput Imaging of Arrays of Fluorescently Tagged Yeast Mutant Strains by Mattiazzi Usaj, Mojca, Lo, Dara S, Grys, Ben T, Andrews, Brenda J

“…We describe a protocol for live-cell high-throughput (HTP) screening of yeast mutant strains carrying fluorescent protein markers for subcellular compartments…”
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Functional genomics in the study of yeast cell polarity: moving in the right direction by Styles, Erin, Youn, Ji-Young, Usaj, Mojca Mattiazzi, Andrews, Brenda

“…The budding yeast Saccharomyces cerevisiae has been used extensively for the study of cell polarity, owing to both its experimental tractability and the high…”
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Yeast Saccharomyces cerevisiaeadiponectin receptor homolog Izh2 is involved in the regulation of zinc, phospholipid and pH homeostasis by Mattiazzi Usaj, Mojca, Prelec, Metod, Brloznik, Mojca, Primo, Cecilia, Curk, Tomaz, Scancar, Janez, Yenush, Lynne, Petrovic, Uros

“…The functional link between zinc homeostasis and membrane-related processes, including lipid metabolism regulation, extends from yeast to humans, and has a…”
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A global interaction network maps a wiring diagram of cellular function by Costanzo, Michael, VanderSluis, Benjamin, Koch, Elizabeth N., Baryshnikova, Anastasia, Pons, Carles, Tan, Guihong, Wang, Wen, Usaj, Matej, Hanchard, Julia, Lee, Susan D., Pelechano, Vicent, Styles, Erin B., Billmann, Maximilian, van Leeuwen, Jolanda, van Dyk, Nydia, Lin, Zhen-Yuan, Kuzmin, Elena, Nelson, Justin, Piotrowski, Jeff S., Srikumar, Tharan, Bahr, Sondra, Chen, Yiqun, Deshpande, Raamesh, Kurat, Christoph F., Li, Sheena C., Li, Zhijian, Usaj, Mojca Mattiazzi, Okada, Hiroki, Pascoe, Natasha, Luis, Bryan-Joseph San, Sharifpoor, Sara, Shuteriqi, Emira, Simpkins, Scott W., Snider, Jamie, Suresh, Harsha Garadi, Tan, Yizhao, Zhu, Hongwei, Malod-Dognin, Noel, Janjic, Vuk, Przulj, Natasa, Troyanskaya, Olga G., Stagljar, Igor, Xia, Tian, Ohya, Yoshikazu, Gingras, Anne-Claude, Raught, Brian, Boutros, Michael, Steinmetz, Lars M., Moore, Claire L., Rosebrock, Adam P., Caudy, Amy A., Myers, Chad L., Andrews, Brenda, Boone, Charles

“…We generated a global genetic interaction network for Saccharomyces cerevisiae , constructing over 23 million double mutants, identifying ~550,000 negative and…”
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