flowDensity: reproducing manual gating of flow cytometry data by automated density-based cell population identification

by Malek, Mehrnoush, Taghiyar, Mohammad Jafar, Chong, Lauren, Finak, Greg, Gottardo, Raphael, Brinkman, Ryan R.
Published in Bioinformatics (2015)

A Benchmark for Evaluation of Algorithms for Identification of Cellular Correlates of Clinical Outcomes

by Aghaeepour, Nima, Chattopadhyay, Pratip, Chikina, Maria, Dhaene, Tom, Van Gassen, Sofie, Kursa, Miron, Lambrecht, Bart N., Malek, Mehrnoush, Qian, Yu, Qiu, Peng, Saeys, Yvan, Stanton, Rick, Tong, Dong, Vens, Celine, Walkowiak, Sławomir, Wang, Kui, Finak, Greg, Gottardo, Raphael, Mosmann, Tim, Nolan, Garry, Scheuermann, Richard H., Brinkman, Ryan R.
Published in Cytometry A (2015)

A standardized immune phenotyping and automated data analysis platform for multicenter biomarker studies

by Ivison, Sabine, Malek, Mehrnoush, Garcia, Rosa V., Broady, Raewyn, Halpin, Anne, Richaud, Manon, Brant, Rollin F., Wang, Szu-I, Goupil, Mathieu, Guan, Qingdong, Ashton, Peter, Warren, Jason, Rajab, Amr, Urschel, Simon, Kumar, Deepali, Streitz, Mathias, Sawitzki, Birgit, Schlickeiser, Stephan, Bijl, Janetta J., Wall, Donna A., Delisle, Jean-Sebastien, West, Lori J., Brinkman, Ryan R., Levings, Megan K.
Published in JCI Insight (2018)

Standardizing Flow Cytometry Immunophenotyping Analysis from the Human ImmunoPhenotyping Consortium

by Finak, Greg, Langweiler, Marc, Jaimes, Maria, Malek, Mehrnoush, Taghiyar, Jafar, Korin, Yael, Raddassi, Khadir, Devine, Lesley, Obermoser, Gerlinde, Pekalski, Marcin L., Pontikos, Nikolas, Diaz, Alain, Heck, Susanne, Villanova, Federica, Terrazzini, Nadia, Kern, Florian, Qian, Yu, Stanton, Rick, Wang, Kui, Brandes, Aaron, Ramey, John, Aghaeepour, Nima, Mosmann, Tim, Scheuermann, Richard H., Reed, Elaine, Palucka, Karolina, Pascual, Virginia, Blomberg, Bonnie B., Nestle, Frank, Nussenblatt, Robert B., Brinkman, Ryan Remy, Gottardo, Raphael, Maecker, Holden, McCoy, J Philip
Published in Sci Rep (2016)

Dynamic molecular changes during the first week of human life follow a robust developmental trajectory

by Lee, Amy H., Shannon, Casey P., Amenyogbe, Nelly, Bennike, Tue B., Diray-Arce, Joann, Idoko, Olubukola T., Gill, Erin E., Ben-Othman, Rym, Pomat, William S., van Haren, Simon D., Cao, Kim-Anh Lê, Cox, Momoudou, Darboe, Alansana, Falsafi, Reza, Ferrari, Davide, Harbeson, Daniel J., He, Daniel, Bing, Cai, Hinshaw, Samuel J., Ndure, Jorjoh, Njie-Jobe, Jainaba, Pettengill, Matthew A., Richmond, Peter C., Ford, Rebecca, Saleu, Gerard, Masiria, Geraldine, Matlam, John Paul, Kirarock, Wendy, Roberts, Elishia, Malek, Mehrnoush, Sanchez-Schmitz, Guzmán, Singh, Amrit, Angelidou, Asimenia, Smolen, Kinga K., Brinkman, Ryan R., Ozonoff, Al, Hancock, Robert E. W., van den Biggelaar, Anita H. J., Steen, Hanno, Tebbutt, Scott J., Kampmann, Beate, Levy, Ofer, Kollmann, Tobias R.
Published in Nat Commun (2019)