Staphylococcus aureus induces an itaconate-dominated immunometabolic response that drives biofilm formation
Tomlinson, Kira L., Lung, Tania Wong Fok, Dach, Felix, Annavajhala, Medini K., Gabryszewski, Stanislaw J., Groves, Ryan A., Drikic, Marija, Francoeur, Nancy J., Sridhar, Shwetha H., Smith, Melissa L., Khanal, Sara, Britto, Clemente J., Sebra, Robert, Lewis, Ian, Uhlemann, Anne-Catrin, Kahl, Barbara C., Prince, Alice S., Riquelme, Sebastián A.
Published in Nature communications (03.03.2021)
Published in Nature communications (03.03.2021)
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Cell-specific histone modification maps in the human frontal lobe link schizophrenia risk to the neuronal epigenome
Girdhar, Kiran, Hoffman, Gabriel E., Jiang, Yan, Brown, Leanne, Kundakovic, Marija, Hauberg, Mads E., Francoeur, Nancy J., Wang, Ying-chih, Shah, Hardik, Kavanagh, David H., Zharovsky, Elizabeth, Jacobov, Rivka, Wiseman, Jennifer R., Park, Royce, Johnson, Jessica S., Kassim, Bibi S., Sloofman, Laura, Mattei, Eugenio, Weng, Zhiping, Sieberts, Solveig K., Peters, Mette A., Harris, Brent T., Lipska, Barbara K., Sklar, Pamela, Roussos, Panos, Akbarian, Schahram
Published in Nature neuroscience (01.08.2018)
Published in Nature neuroscience (01.08.2018)
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Hit-and-run transcriptional control by bZIP1 mediates rapid nutrient signaling in Arabidopsis
Para, Alessia, Li, Ying, Marshall-Colón, Amy, Varala, Kranthi, Francoeur, Nancy J., Moran, Tara M., Edwards, Molly B., Hackley, Christopher, Bargmann, Bastiaan O. R., Birnbaum, Kenneth D., McCombie, W. Richard, Krouk, Gabriel, Coruzzi, Gloria M.
Published in Proceedings of the National Academy of Sciences - PNAS (15.07.2014)
Published in Proceedings of the National Academy of Sciences - PNAS (15.07.2014)
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Isoform-resolved transcriptome of the human preimplantation embryo
Torre, Denis, Francoeur, Nancy J., Kalma, Yael, Gross Carmel, Ilana, Melo, Betsaida S., Deikus, Gintaras, Allette, Kimaada, Flohr, Ron, Fridrikh, Maya, Vlachos, Konstantinos, Madrid, Kent, Shah, Hardik, Wang, Ying-Chih, Sridhar, Shwetha H., Smith, Melissa L., Eliyahu, Efrat, Azem, Foad, Amir, Hadar, Mayshar, Yoav, Marazzi, Ivan, Guccione, Ernesto, Schadt, Eric, Ben-Yosef, Dalit, Sebra, Robert
Published in Nature communications (30.10.2023)
Published in Nature communications (30.10.2023)
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Long read, isoform aware sequencing of mouse nucleus accumbens after chronic cocaine treatment
Estill, Molly, Ribeiro, Efrain, Francoeur, Nancy J., Smith, Melissa L., Sebra, Robert, Yeh, Szu-Ying, Cunningham, Ashley M., Nestler, Eric J., Shen, Li
Published in Scientific reports (24.03.2021)
Published in Scientific reports (24.03.2021)
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Identification of Alternative Polyadenylation in Cyanidioschyzon merolae Through Long-Read Sequencing of mRNA
Schärfen, Leonard, Zigackova, Dagmar, Reimer, Kirsten A, Stark, Martha R, Slat, Viktor A, Francoeur, Nancy J, Wells, Melissa L, Zhou, Lecong, Blackshear, Perry J, Neugebauer, Karla M, Rader, Stephen D
Published in Frontiers in genetics (28.01.2022)
Published in Frontiers in genetics (28.01.2022)
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Dietary fructose improves intestinal cell survival and nutrient absorption
Taylor, Samuel R., Ramsamooj, Shakti, Liang, Roger J., Katti, Alyna, Pozovskiy, Rita, Vasan, Neil, Hwang, Seo-Kyoung, Nahiyaan, Navid, Francoeur, Nancy J., Schatoff, Emma M., Johnson, Jared L., Shah, Manish A., Dannenberg, Andrew J., Sebra, Robert P., Dow, Lukas E., Cantley, Lewis C., Rhee, Kyu Y., Goncalves, Marcus D.
Published in Nature (London) (09.09.2021)
Published in Nature (London) (09.09.2021)
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Bat pluripotent stem cells reveal unusual entanglement between host and viruses
Déjosez, Marion, Marin, Arturo, Hughes, Graham M., Morales, Ariadna E., Godoy-Parejo, Carlos, Gray, Jonathan L., Qin, Yiren, Singh, Arun A., Xu, Hui, Juste, Javier, Ibáñez, Carlos, White, Kris M., Rosales, Romel, Francoeur, Nancy J., Sebra, Robert P., Alcock, Dominic, Volkert, Thomas L., Puechmaille, Sébastien J., Pastusiak, Andrzej, Frost, Simon D.W., Hiller, Michael, Young, Richard A., Teeling, Emma C., García-Sastre, Adolfo, Zwaka, Thomas P.
Published in Cell (02.03.2023)
Published in Cell (02.03.2023)
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Molecular states during acute COVID-19 reveal distinct etiologies of long-term sequelae
Thompson, Ryan C., Simons, Nicole W., Wilkins, Lillian, Cheng, Esther, Del Valle, Diane Marie, Hoffman, Gabriel E., Cervia, Carlo, Fennessy, Brian, Mouskas, Konstantinos, Francoeur, Nancy J., Johnson, Jessica S., Lepow, Lauren, Le Berichel, Jessica, Chang, Christie, Beckmann, Aviva G., Wang, Ying-chih, Nie, Kai, Zaki, Nicholas, Tuballes, Kevin, Barcessat, Vanessa, Cedillo, Mario A., Yuan, Dan, Huckins, Laura, Roussos, Panos, Marron, Thomas U., Glicksberg, Benjamin S., Nadkarni, Girish, Heath, James R., Gonzalez-Kozlova, Edgar, Boyman, Onur, Kim-Schulze, Seunghee, Sebra, Robert, Merad, Miriam, Gnjatic, Sacha, Schadt, Eric E., Charney, Alexander W., Beckmann, Noam D.
Published in Nature medicine (2023)
Published in Nature medicine (2023)
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Downregulation of exhausted cytotoxic T cells in gene expression networks of multisystem inflammatory syndrome in children
Beckmann, Noam D., Comella, Phillip H., Cheng, Esther, Lepow, Lauren, Beckmann, Aviva G., Tyler, Scott R., Mouskas, Konstantinos, Simons, Nicole W., Hoffman, Gabriel E., Francoeur, Nancy J., Del Valle, Diane Marie, Kang, Gurpawan, Do, Anh, Moya, Emily, Wilkins, Lillian, Le Berichel, Jessica, Chang, Christie, Marvin, Robert, Calorossi, Sharlene, Lansky, Alona, Walker, Laura, Yi, Nancy, Yu, Alex, Chung, Jonathan, Hartnett, Matthew, Eaton, Melody, Hatem, Sandra, Jamal, Hajra, Akyatan, Alara, Tabachnikova, Alexandra, Liharska, Lora E., Cotter, Liam, Fennessy, Brian, Vaid, Akhil, Barturen, Guillermo, Shah, Hardik, Wang, Ying-chih, Sridhar, Shwetha Hara, Soto, Juan, Bose, Swaroop, Madrid, Kent, Ellis, Ethan, Merzier, Elyze, Vlachos, Konstantinos, Fishman, Nataly, Tin, Manying, Smith, Melissa, Xie, Hui, Patel, Manishkumar, Nie, Kai, Argueta, Kimberly, Harris, Jocelyn, Karekar, Neha, Batchelor, Craig, Lacunza, Jose, Yishak, Mahlet, Tuballes, Kevin, Scott, Ieisha, Kumar, Arvind, Jaladanki, Suraj, Agashe, Charuta, Thompson, Ryan, Clark, Evan, Losic, Bojan, Peters, Lauren, Roussos, Panagiotis, Zhu, Jun, Wang, Wenhui, Kasarskis, Andrew, Glicksberg, Benjamin S., Nadkarni, Girish, Bogunovic, Dusan, Elaiho, Cordelia, Gangadharan, Sandeep, Ofori-Amanfo, George, Alesso-Carra, Kasey, Onel, Kenan, Wilson, Karen M., Argmann, Carmen, Bunyavanich, Supinda, Alarcón-Riquelme, Marta E., Marron, Thomas U., Rahman, Adeeb, Kim-Schulze, Seunghee, Gnjatic, Sacha, Gelb, Bruce D., Merad, Miriam, Sebra, Robert, Schadt, Eric E., Charney, Alexander W.
Published in Nature communications (11.08.2021)
Published in Nature communications (11.08.2021)
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The Breast Cancer Single-Cell Atlas: Defining cellular heterogeneity within model cell lines and primary tumors to inform disease subtype, stemness, and treatment options
Dave, Arpit, Charytonowicz, Daniel, Francoeur, Nancy J., Beaumont, Michael, Beaumont, Kristin, Schmidt, Hank, Zeleke, Tizita, Silva, Jose, Sebra, Robert
Published in Cellular oncology (Dordrecht) (01.06.2023)
Published in Cellular oncology (Dordrecht) (01.06.2023)
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FLAIRR-Seq: A Method for Single-Molecule Resolution of Near Full-Length Antibody H Chain Repertoires
Ford, Easton E, Tieri, David, Rodriguez, Oscar L, Francoeur, Nancy J, Soto, Juan, Kos, Justin T, Peres, Ayelet, Gibson, William S, Silver, Catherine A, Deikus, Gintaras, Hudson, Elizabeth, Woolley, Cassandra R, Beckmann, Noam, Charney, Alexander, Mitchell, Thomas C, Yaari, Gur, Sebra, Robert P, Watson, Corey T, Smith, Melissa L
Published in The Journal of immunology (1950) (15.05.2023)
Published in The Journal of immunology (1950) (15.05.2023)
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Cytotoxic lymphocytes are dysregulated in multisystem inflammatory syndrome in children
Beckmann, Noam D, Comella, Phillip H, Cheng, Esther, Lepow, Lauren, Beckmann, Aviva G, Mouskas, Konstantinos, Simons, Nicole W, Hoffman, Gabriel E, Francoeur, Nancy J, Del Valle, Diane Marie, Kang, Gurpawan, Moya, Emily, Wilkins, Lillian, Le Berichel, Jessica, Chang, Christie, Marvin, Robert, Calorossi, Sharlene, Lansky, Alona, Walker, Laura, Yi, Nancy, Yu, Alex, Hartnett, Matthew, Eaton, Melody, Hatem, Sandra, Jamal, Hajra, Akyatan, Alara, Tabachnikova, Alexandra, Liharska, Lora E, Cotter, Liam, Fennessey, Brian, Vaid, Akhil, Barturen, Guillermo, Tyler, Scott R, Shah, Hardik, Wang, Ying-Chih, Sridhar, Shwetha Hara, Soto, Juan, Bose, Swaroop, Madrid, Kent, Ellis, Ethan, Merzier, Elyze, Vlachos, Konstantinos, Fishman, Nataly, Tin, Manying, Smith, Melissa, Xie, Hui, Patel, Manishkumar, Argueta, Kimberly, Harris, Jocelyn, Karekar, Neha, Batchelor, Craig, Lacunza, Jose, Yishak, Mahlet, Tuballes, Kevin, Scott, Leisha, Kumar, Arvind, Jaladanki, Suraj, Thompson, Ryan, Clark, Evan, Losic, Bojan, Zhu, Jun, Wang, Wenhui, Kasarskis, Andrew, Glicksberg, Benjamin S, Nadkarni, Girish, Bogunovic, Dusan, Elaiho, Cordelia, Gangadharan, Sandeep, Ofori-Amanfo, George, Alesso-Carra, Kasey, Onel, Kenan, Wilson, Karen M, Argmann, Carmen, Alarcón-Riquelme, Marta E, Marron, Thomas U, Rahman, Adeeb, Kim-Schulze, Seunghee, Gnjatic, Sacha, Gelb, Bruce D, Merad, Miriam, Sebra, Robert, Schadt, Eric E, Charney, Alexander W
Published in medRxiv : the preprint server for health sciences (02.09.2020)
Published in medRxiv : the preprint server for health sciences (02.09.2020)
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Journal Article
Cell-specific histone modification maps link schizophrenia risk to the neuronal epigenome
Girdhar, Kiran, Hoffman, Gabriel E., Jiang, Yan, Brown, Leanne, Kundakovic, Marija, Hauberg, Mads E., Francoeur, Nancy J., Wang, Ying-chih, Shah, Hardik, Kavanagh, David H., Zharovsky, Elizabeth, Jacobov, Rivka, Wiseman, Jennifer R., Park, Royce, Johnson, Jessica S., Kassim, Bibi S., Sloofman, Laura, Mattei, Eugenio, Weng, Zhiping, Sieberts, Solveig K., Peters, Mette A., Harris, Brent T., Lipska, Barbara K., Sklar, Pamela, Roussos, Panos, Akbarian, Schahram
Published in Nature neuroscience (23.07.2018)
Published in Nature neuroscience (23.07.2018)
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Journal Article
The dynamic changes and sex differences of 147 immune-related proteins during acute COVID-19 in 580 individuals
Butler-Laporte, Guillaume, Gonzalez-Kozlova, Edgar, Su, Chen-Yang, Zhou, Sirui, Nakanishi, Tomoko, Brunet-Ratnasingham, Elsa, Morrison, David, Laurent, Laetitia, Afilalo, Jonathan, Afilalo, Marc, Henry, Danielle, Chen, Yiheng, Carrasco-Zanini, Julia, Farjoun, Yossi, Pietzner, Maik, Kimchi, Nofar, Afrasiabi, Zaman, Rezk, Nardin, Bouab, Meriem, Petitjean, Louis, Guzman, Charlotte, Xue, Xiaoqing, Tselios, Chris, Vulesevic, Branka, Adeleye, Olumide, Abdullah, Tala, Almamlouk, Noor, Moussa, Yara, DeLuca, Chantal, Duggan, Naomi, Schurr, Erwin, Brassard, Nathalie, Durand, Madeleine, Del Valle, Diane Marie, Thompson, Ryan, Cedillo, Mario A, Schadt, Eric, Nie, Kai, Simons, Nicole W, Mouskas, Konstantinos, Zaki, Nicolas, Patel, Manishkumar, Xie, Hui, Harris, Jocelyn, Marvin, Robert, Cheng, Esther, Tuballes, Kevin, Argueta, Kimberly, Scott, Ieisha, Greenwood, Celia M T, Paterson, Clare, Hinterberg, Michael, Langenberg, Claudia, Forgetta, Vincenzo, Mooser, Vincent, Marron, Thomas, Beckmann, Noam, Kenigsberg, Ephraim, Charney, Alexander W, Kim-Schulze, Seunghee, Merad, Miriam, Kaufmann, Daniel E, Gnjatic, Sacha, Richards, J Brent
Published in Clinical proteomics (28.09.2022)
Published in Clinical proteomics (28.09.2022)
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Journal Article
FLAIRR-seq: A novel method for single molecule resolution of near full-length immunoglobulin heavy chain repertoires
d, Easton E, Tieri, David, Rodriguez, Oscar L, Francoeur, Nancy J, Soto, Juan, Kos, Justin T, Peres, Ayelet, Gibson, William S, Silver, Catherine A, Deikus, Gintaras, Hudson, Elizabeth, Woolley, Cassandra R, Beckmann, Noam, Charney, Alexander, Mitchell, Thomas C, Yaari, Gur, Sebra, Robert P, Watson, Corey T, Smith, Melissa L
Published in bioRxiv (09.11.2022)
Published in bioRxiv (09.11.2022)
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Paper
Hit-and-run transcriptional control by bZIP1 mediates rapid nutrient signaling in Arabidopsis
Para, Alessia, Li, Ying, Marshall-Colón, Amy, Varala, Kranthi, Francoeur, Nancy J, Moran, Tara M, Edwards, Molly B, Hackley, Christopher, Bargmann, Bastiaan O R, Birnbaum, Kenneth D, McCombie, W Richard, Krouk, Gabriel, Coruzzi, Gloria M
Published in Proceedings of the National Academy of Sciences of the United States of America 28 (111), 10371-6. (2014) (2014)
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Published in Proceedings of the National Academy of Sciences of the United States of America 28 (111), 10371-6. (2014) (2014)
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