Evolution of diapause in the African turquoise killifish by remodeling the ancient gene regulatory landscape

Authors: Singh, Param Priya, Reeves, G. Adam, Contrepois, Kévin, Papsdorf, Katharina, Miklas, Jason W., Ellenberger, Mathew, Hu, Chi-Kuo, Snyder, Michael P., Brunet, Anne

Source: In Cell 20 June 2024 187(13):3338-3356

Longitudinal profiling of the microbiome at four body sites reveals core stability and individualized dynamics during health and disease

Authors: Zhou, Xin, Shen, Xiaotao, Johnson, Jethro S., Spakowicz, Daniel J., Agnello, Melissa, Zhou, Wenyu, Avina, Monica, Honkala, Alexander, Chleilat, Faye, Chen, Shirley Jingyi, Cha, Kexin, Leopold, Shana, Zhu, Chenchen, Chen, Lei, Lyu, Lin, Hornburg, Daniel, Wu, Si, Zhang, Xinyue, Jiang, Chao, Jiang, Liuyiqi, Jiang, Lihua, Jian, Ruiqi, Brooks, Andrew W., Wang, Meng, Contrepois, Kévin, Gao, Peng, Rose, Sophia Miryam Schüssler-Fiorenza, Tran, Thi Dong Binh, Nguyen, Hoan, Celli, Alessandra, Hong, Bo-Young, Bautista, Eddy J., Dorsett, Yair, Kavathas, Paula B., Zhou, Yanjiao, Sodergren, Erica, Weinstock, George M., Snyder, Michael P.

Source: In Cell Host & Microbe 10 April 2024 32(4):506-526

Untargeted metabolomic profiling in children identifies novel pathways in asthma and atopy

Authors: Lejeune, Stéphanie, Kaushik, Abhinav, Parsons, Ella S., Chinthrajah, Sharon, Snyder, Michael, Desai, Manisha, Manohar, Monali, Prunicki, Mary, Contrepois, Kévin, Gosset, Philippe, Deschildre, Antoine, Nadeau, Kari

Source: In The Journal of Allergy and Clinical Immunology February 2024 153(2):418-434

Robust and High-Throughput Analytical Flow Proteomics Analysis of Cynomolgus Monkey and Human Matrices With Zeno SWATH Data-Independent Acquisition

Authors: Sun, Weiwen, Lin, Yuan, Huang, Yue, Chan, Josolyn, Terrillon, Sonia, Rosenbaum, Anton I., Contrepois, Kévin

Source: In Molecular & Cellular Proteomics June 2023 22(6)

Challenging obesity and sex based differences in resting energy expenditure using allometric modeling, a sub-study of the DIETFITS clinical trial

Authors: Haddad, Francois, Li, Xiao, Perelman, Dalia, Santana, Everton Jose, Kuznetsova, Tatiana, Cauwenberghs, Nicholas, Busque, Vincent, Contrepois, Kevin, Snyder, Michael P., Leonard, Mary B., Gardner, Christopher

Source: In Clinical Nutrition ESPEN February 2023 53:43-52

Early prediction and longitudinal modeling of preeclampsia from multiomics

Authors: Marić, Ivana, Contrepois, Kévin, Moufarrej, Mira N., Stelzer, Ina A., Feyaerts, Dorien, Han, Xiaoyuan, Tang, Andy, Stanley, Natalie, Wong, Ronald J., Traber, Gavin M., Ellenberger, Mathew, Chang, Alan L., Fallahzadeh, Ramin, Nassar, Huda, Becker, Martin, Xenochristou, Maria, Espinosa, Camilo, De Francesco, Davide, Ghaemi, Mohammad S., Costello, Elizabeth K., Culos, Anthony, Ling, Xuefeng B., Sylvester, Karl G., Darmstadt, Gary L., Winn, Virginia D., Shaw, Gary M., Relman, David A., Quake, Stephen R., Angst, Martin S., Snyder, Michael P., Stevenson, David K., Gaudilliere, Brice, Aghaeepour, Nima

Source: In Patterns 9 December 2022 3(12)

Proteomic signatures predict preeclampsia in individual cohorts but not across cohorts – implications for clinical biomarker studies

Authors: Ghaemi, Mohammad S., Tarca, Adi L., Romero, Roberto, Stanley, Natalie, Fallahzadeh, Ramin, Tanada, Athena, Culos, Anthony, Ando, Kazuo, Han, Xiaoyuan, Blumenfeld, Yair J., Druzin, Maurice L., El-Sayed, Yasser Y., Gibbs, Ronald S., Winn, Virginia D., Contrepois, Kevin, Ling, Xuefeng B., Wong, Ronald J., Shaw, Gary M., Stevenson, David K., Gaudilliere, Brice, Aghaeepour, Nima, Angst, Martin S.

Source: Journal of maternal-fetal & neonatal medicine. 35(25):5621-5628

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100167101789.0x000001&indx=1&recIds=ETOCvdc_100167101789.0x000001

The Right Heart Network and Risk Stratification in Pulmonary Arterial Hypertension

Authors: Haddad, Francois, Contrepois, Kevin, Amsallem, Myriam, Denault, Andre Y., Bernardo, Roberto J., Jha, Alokkumar, Taylor, Shalina, Arthur Ataam, Jennifer, Mercier, Olaf, Kuznetsova, Tatiana, Vonk Noordegraaf, Anton, Zamanian, Roham T., Sweatt, Andrew J.

Source: Chest. 161(5):1347-1359

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100161598806.0x000001&indx=1&recIds=ETOCvdc_100161598806.0x000001

Robust identification of temporal biomarkers in longitudinal omics studies

Authors: Metwally, Ahmed A, Zhang, Tom, Wu, Si, Kellogg, Ryan, Zhou, Wenyu, Contrepois, Kevin, Tang, Hua, Snyder, Michael

Source: Bioinformatics. 38(15):3802-3811

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100161607511.0x000001&indx=1&recIds=ETOCvdc_100161607511.0x000001

Global, distinctive, and personal changes in molecular and microbial profiles by specific fibers in humans

Authors: Lancaster, Samuel M., Lee-McMullen, Brittany, Abbott, Charles Wilbur, Quijada, Jeniffer V., Hornburg, Daniel, Park, Heyjun, Perelman, Dalia, Peterson, Dylan J., Tang, Michael, Robinson, Aaron, Ahadi, Sara, Contrepois, Kévin, Hung, Chia-Jui, Ashland, Melanie, McLaughlin, Tracey, Boonyanit, Anna, Horning, Aaron, Sonnenburg, Justin L., Snyder, Michael P.

Source: In Cell Host & Microbe 8 June 2022 30(6):848-862

In-depth triacylglycerol profiling using MS3 Q-Trap mass spectrometry

Authors: Cabruja, Matias, Priotti, Josefina, Domizi, Pablo, Papsdorf, Katharina, Kroetz, Deanna L., Brunet, Anne, Contrepois, Kévin, Snyder, Michael P.

Source: In Analytica Chimica Acta 1 November 2021 1184

Temporal changes in soluble angiotensin-converting enzyme 2 associated with metabolic health, body composition, and proteome dynamics during a weight loss diet intervention: a randomized trial with implications for the COVID-19 pandemic

Authors: Cauwenberghs, Nicholas, Prunicki, Mary, Sabovčik, František, Perelman, Dalia, Contrepois, Kévin, Li, Xiao, Snyder, Michael P, Nadeau, Kari C, Kuznetsova, Tatiana, Haddad, Francois, Gardner, Christopher D ^*

Source: In The American Journal of Clinical Nutrition November 2021 114(5):1655-1665

Peripheral Oxygen Extraction and Exercise Limitation in Asymptomatic Patients with Diabetes Mellitus

Authors: Kobayashi, Yukari, Christle, Jeffrey W., Contrepois, Kévin, Nishi, Tomoko, Moneghetti, Kegan, Cauwenberghs, Nicholas, Myers, Jonathan, Kuznetsova, Tatiana, Palaniappan, Latha, Haddad, Francois

Source: In The American Journal of Cardiology 15 June 2021 149:132-139

Metabolic Dynamics and Prediction of Gestational Age and Time to Delivery in Pregnant Women

Authors: Liang, Liang, Rasmussen, Marie-Louise Hee, Piening, Brian, Shen, Xiaotao, Chen, Songjie, Röst, Hannes, Snyder, John K., Tibshirani, Robert, Skotte, Line, Lee, Norman CY., Contrepois, Kévin, Feenstra, Bjarke, Zackriah, Hanyah, Snyder, Michael, Melbye, Mads

Source: In Cell 25 June 2020 181(7):1680-1692

Molecular Choreography of Acute Exercise

Authors: Contrepois, Kévin, Wu, Si, Moneghetti, Kegan J., Hornburg, Daniel, Ahadi, Sara, Tsai, Ming-Shian, Metwally, Ahmed A., Wei, Eric, Lee-McMullen, Brittany, Quijada, Jeniffer V., Chen, Songjie, Christle, Jeffrey W., Ellenberger, Mathew, Balliu, Brunilda, Taylor, Shalina, Durrant, Matthew G., Knowles, David A., Choudhry, Hani, Ashland, Melanie, Bahmani, Amir, Enslen, Brooke, Amsallem, Myriam, Kobayashi, Yukari, Avina, Monika, Perelman, Dalia, Schüssler-Fiorenza Rose, Sophia Miryam, Zhou, Wenyu, Ashley, Euan A., Montgomery, Stephen B., Chaib, Hassan, Haddad, Francois, Snyder, Michael P.

Source: In Cell 28 May 2020 181(5):1112-1130

The Human Tumor Atlas Network: Charting Tumor Transitions across Space and Time at Single-Cell Resolution

Authors: Aberle, Denise, Achilefu, Samuel I., Ademuyiwa, Foluso O., Adey, Andrew C., Aft, Rebecca L., Agarwal, Rachana, Aguilar, Ruben A., Alikarami, Fatemeh, Allaj, Viola, Amos, Christopher, Anders, Robert A., Angelo, Michael R., Anton, Kristen, Ashenberg, Orr, Aster, Jon C., Babur, Ozgun, Bahmani, Amir, Balsubramani, Akshay, Barrett, David, Beane, Jennifer, Bender, Diane E., Bernt, Kathrin, Berry, Lynne, Betts, Courtney B., Bletz, Julie, Blise, Katie, Boire, Adrienne, Boland, Genevieve, Borowsky, Alexander, Bosse, Kristopher, Bott, Matthew, Boyden, Ed, Brooks, James, Bueno, Raphael, Burlingame, Erik A., Cai, Qiuyin, Campbell, Joshua, Caravan, Wagma, Cerami, Ethan, Chaib, Hassan, Chan, Joseph M., Chang, Young Hwan, Chatterjee, Deyali, Chaudhary, Ojasvi, Chen, Alyce A., Chen, Bob, Chen, Changya, Chen, Chia-hui, Chen, Feng, Chen, Yu-An, Chheda, Milan G., Chin, Koei, Chiu, Roxanne, Chu, Shih-Kai, Chuaqui, Rodrigo, Chun, Jaeyoung, Cisneros, Luis, Coffey, Robert J., Colditz, Graham A., Cole, Kristina, Collins, Natalie, Contrepois, Kevin, Coussens, Lisa M., Creason, Allison L., Crichton, Daniel, Curtis, Christina, Davidsen, Tanja, Davies, Sherri R., de Bruijn, Ino, Dellostritto, Laura, De Marzo, Angelo, Demir, Emek, DeNardo, David G., Diep, Dinh, Ding, Li, Diskin, Sharon, Doan, Xengie, Drewes, Julia, Dubinett, Stephen, Dyer, Michael, Egger, Jacklynn, Eng, Jennifer, Engelhardt, Barbara, Erwin, Graham, Esplin, Edward D., Esserman, Laura, Felmeister, Alex, Feiler, Heidi S., Fields, Ryan C., Fisher, Stephen, Flaherty, Keith, Flournoy, Jennifer, Ford, James M., Fortunato, Angelo, Frangieh, Allison, Frye, Jennifer L., Fulton, Robert S., Galipeau, Danielle, Gan, Siting, Gao, Jianjiong, Gao, Long, Gao, Peng, Gao, Vianne R., Geiger, Tim, George, Ajit, Getz, Gad, Ghosh, Sharmistha, Giannakis, Marios, Gibbs, David L., Gillanders, William E., Goecks, Jeremy, Goedegebuure, Simon P., Gould, Alanna, Gowers, Kate, Gray, Joe W., Greenleaf, William, Gresham, Jeremy, Guerriero, Jennifer L., Guha, Tuhin K., Guimaraes, Alexander R., Guinney, Justin, Gutman, David, Hacohen, Nir, Hanlon, Sean, Hansen, Casey R., Harismendy, Olivier, Harris, Kathleen A., Hata, Aaron, Hayashi, Akimasa, Heiser, Cody, Helvie, Karla, Herndon, John M., Hirst, Gilliam, Hodi, Frank, Hollmann, Travis, Horning, Aaron, Hsieh, James J., Hughes, Shannon, Huh, Won Jae, Hunger, Stephen, Hwang, Shelley E., Iacobuzio-Donahue, Christine A., Ijaz, Heba, Izar, Benjamin, Jacobson, Connor A., Janes, Samuel, Jané-Valbuena, Judit, Jayasinghe, Reyka G., Jiang, Lihua, Johnson, Brett E., Johnson, Bruce, Ju, Tao, Kadara, Humam, Kaestner, Klaus, Kagan, Jacob, Kalinke, Lukas, Keith, Robert, Khan, Aziz, Kibbe, Warren, Kim, Albert H., Kim, Erika, Kim, Junhyong, Kolodzie, Annette, Kopytra, Mateusz, Kotler, Eran, Krueger, Robert, Krysan, Kostyantyn, Kundaje, Anshul, Ladabaum, Uri, Lake, Blue B., Lam, Huy, Laquindanum, Rozelle, Lau, Ken S., Laughney, Ashley M., Lee, Hayan, Lenburg, Marc, Leonard, Carina, Leshchiner, Ignaty, Levy, Rochelle, Li, Jerry, Lian, Christine G., Lim, Kian-Huat, Lin, Jia-Ren, Lin, Yiyun, Liu, Qi, Liu, Ruiyang, Lively, Tracy, Longabaugh, William J.R., Longacre, Teri, Ma, Cynthia X., Macedonia, Mary Catherine, Madison, Tyler, Maher, Christopher A., Maitra, Anirban, Makinen, Netta, Makowski, Danika, Maley, Carlo, Maliga, Zoltan, Mallo, Diego, Maris, John, Markham, Nick, Marks, Jeffrey, Martinez, Daniel, Mashl, Robert J., Masilionais, Ignas, Mason, Jennifer, Massagué, Joan, Massion, Pierre, Mattar, Marissa, Mazurchuk, Richard, Mazutis, Linas, Mazzilli, Sarah A., McKinley, Eliot T., McMichael, Joshua F., Merrick, Daniel, Meyerson, Matthew, Miessner, Julia R., Mills, Gordon B., Mills, Meredith, Mondal, Suman B., Mori, Motomi, Mori, Yuriko, Moses, Elizabeth, Mosse, Yael, Muhlich, Jeremy L., Murphy, George F., Navin, Nicholas E., Nawy, Tal, Nederlof, Michel, Ness, Reid, Nevins, Stephanie, Nikolov, Milen, Nirmal, Ajit Johnson, Nolan, Garry, Novikov, Edward, Oberdoerffer, Philipp, O’Connell, Brendan, Offin, Michael, Oh, Stephen T., Olson, Anastasiya, Ooms, Alex, Ossandon, Miguel, Owzar, Kouros, Parmar, Swapnil, Patel, Tasleema, Patti, Gary J., Pe’er, Dana, Pe'er, Itsik, Peng, Tao, Persson, Daniel, Petty, Marvin, Pfister, Hanspeter, Polyak, Kornelia, Pourfarhangi, Kamyar, Puram, Sidharth V., Qiu, Qi, Quintanal-Villalonga, Álvaro, Raj, Arjun, Ramirez-Solano, Marisol, Rashid, Rumana, Reeb, Ashley N., Regev, Aviv, Reid, Mary, Resnick, Adam, Reynolds, Sheila M., Riesterer, Jessica L., Rodig, Scott, Roland, Joseph T., Rosenfield, Sonia, Rotem, Asaf, Roy, Sudipta, Rozenblatt-Rosen, Orit, Rudin, Charles M., Ryser, Marc D., Santagata, Sandro, Santi-Vicini, Maria, Sato, Kazuhito, Schapiro, Denis, Schrag, Deborah, Schultz, Nikolaus, Sears, Cynthia L., Sears, Rosalie C., Sen, Subrata, Sen, Triparna, Shalek, Alex, Sheng, Jeff, Sheng, Quanhu, Shoghi, Kooresh I., Shrubsole, Martha J., Shyr, Yu, Sibley, Alexander B., Siex, Kiara, Simmons, Alan J., Singer, Dinah S., Sivagnanam, Shamilene, Slyper, Michal, Snyder, Michael P., Sokolov, Artem, Song, Sheng-Kwei, Sorger, Peter K., Southard-Smith, Austin, Spira, Avrum, Srivastava, Sudhir, Stein, Janet, Storm, Phillip, Stover, Elizabeth, Strand, Siri H., Su, Timothy, Sudar, Damir, Sullivan, Ryan, Surrey, Lea, Suvà, Mario, Tan, Kai, Terekhanova, Nadezhda V., Ternes, Luke, Thammavong, Lisa, Thibault, Guillaume, Thomas, George V., Thorsson, Vésteinn, Todres, Ellen, Tran, Linh, Tyler, Madison, Uzun, Yasin, Vachani, Anil, Van Allen, Eliezer, Vandekar, Simon, Veis, Deborah J., Vigneau, Sébastien, Vossough, Arastoo, Waanders, Angela, Wagle, Nikhil, Wang, Liang-Bo, Wendl, Michael C., West, Robert, Williams, Elizabeth H., Wu, Chi-yun, Wu, Hao, Wu, Hung-Yi, Wyczalkowski, Matthew A., Xie, Yubin, Yang, Xiaolu, Yapp, Clarence, Yu, Wenbao, Yuan, Yinyin, Zhang, Dadong, Zhang, Kun, Zhang, Mianlei, Zhang, Nancy, Zhang, Yantian, Zhao, Yanyan, Zhou, Daniel Cui, Zhou, Zilu, Zhu, Houxiang, Zhu, Qin, Zhu, Xiangzhu, Zhu, Yuankun, Zhuang, Xiaowei, Hupalowska, Anna, Rood, Jennifer E., Hanlon, Sean E., Hughes, Shannon K., Hwang, E. Shelley, Johnson, Bruce E., Shalek, Alex K., Spira, Avrum E., West, Robert B.

Source: In Cell 16 April 2020 181(2):236-249

Systematic Identification of Regulators of Oxidative Stress Reveals Non-canonical Roles for Peroxisomal Import and the Pentose Phosphate Pathway

Authors: Dubreuil, Michael M., Morgens, David W., Okumoto, Kanji, Honsho, Masanori, Contrepois, Kévin, Lee-McMullen, Brittany, Traber, Gavin McAllister, Sood, Ria S., Dixon, Scott J., Snyder, Michael P., Fujiki, Yukio, Bassik, Michael C.

Source: In Cell Reports 4 February 2020 30(5):1417-1433

Multiomic immune clockworks of pregnancy

Authors: Peterson, Laura S., Stelzer, Ina A., Tsai, Amy S., Ghaemi, Mohammad S., Han, Xiaoyuan, Ando, Kazuo, Winn, Virginia D., Martinez, Nadine R., Contrepois, Kevin, Moufarrej, Mira N., Quake, Stephen, Relman, David A., Snyder, Michael P., Shaw, Gary M., Stevenson, David K., Wong, Ronald J., Arck, Petra, Angst, Martin S., Aghaeepour, Nima, Gaudilliere, Brice

Source: Seminars in immunopathology. 42(4):397-412

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100167860828.0x000001&indx=1&recIds=ETOCvdc_100167860828.0x000001

Integrative Personal Omics Profiles during Periods of Weight Gain and Loss

Authors: Piening, Brian D., Zhou, Wenyu, Contrepois, Kévin, Röst, Hannes, Gu Urban, Gucci Jijuan, Mishra, Tejaswini, Hanson, Blake M., Bautista, Eddy J., Leopold, Shana, Yeh, Christine Y., Spakowicz, Daniel, Banerjee, Imon, Chen, Cynthia, Kukurba, Kimberly, Perelman, Dalia, Craig, Colleen, Colbert, Elizabeth, Salins, Denis, Rego, Shannon, Lee, Sunjae, Zhang, Cheng, Wheeler, Jessica, Sailani, M. Reza, Liang, Liang, Abbott, Charles, Gerstein, Mark, Mardinoglu, Adil, Smith, Ulf, Rubin, Daniel L., Pitteri, Sharon, Sodergren, Erica, McLaughlin, Tracey L., Weinstock, George M., Snyder, Michael P.

Source: In Cell Systems 28 February 2018 6(2):157-170

Deep Metabolic Phenotyping of Newborn Cord Blood Reveals Maternal-Fetal Interactions and Diet-Disease Associations

Authors: Lancaster, Samuel M ¹, Matarso, Samson M ¹, Reiss, Jonathan ¹, Contrepois, Kevin ², Trowbridge, Casandra ¹, Michael, Basil ¹, Simms, Ian ¹, Gibson, Michelle ¹, Clary, Max ¹, Canfield, Ethan ¹, Cotter, Daniel ¹, McGuire, Lettie ¹, Nair, Ramesh ¹, Wang, Tao ¹, Wong, Frank ¹, Yang, Yan ¹, Stevenson, David ¹, Bianco, Ylayaly K ¹, Bernstein, Jonathan A ¹, Cowan, Tina ¹, Aghaeepour, Nima ¹, Kasowski, Maya ¹, Sylvester, Karl ¹, Snyder, Michael P ¹

Source: In Current Developments in Nutrition July 2024 8 Supplement 2