Ensemble-based prediction of RNA secondary structures

Por Aghaeepour, Nima, Hoos, Holger H
Publicado em 2013

Flow Cytometry Bioinformatics

Por O'Neill, Kieran, Aghaeepour, Nima, Špidlen, Josef, Brinkman, Ryan
Publicado em 2013

Rapid Cell Population Identification in Flow Cytometry Data

Por Aghaeepour, Nima, Nikolic, Radina, Hoos, Holger H., Brinkman, Ryan R.
Publicado em 2011

Enhanced flowType/RchyOptimyx: a Bioconductor pipeline for discovery in high-dimensional cytometry data

Por O’Neill, Kieran, Jalali, Adrin, Aghaeepour, Nima, Hoos, Holger, Brinkman, Ryan R.
Publicado em 2014

Reply to MS #ALN-D-16-00130

Por Angst, Martin S., Fragiadakis, Gabriela K., Gaudillière, Brice, Aghaeepour, Nima, Nolan, Garry P.
Publicado no Anesthesiology (2016)

Critical assessment of automated flow cytometry data analysis techniques

Por Aghaeepour, Nima, Finak, Greg, Hoos, Holger, Mosmann, Tim R, Brinkman, Ryan, Gottardo, Raphael, Scheuermann, Richard H
Publicado em 2013

Deep profiling of multitube flow cytometry data

Por O’Neill, Kieran, Aghaeepour, Nima, Parker, Jeremy, Hogge, Donna, Karsan, Aly, Dalal, Bakul, Brinkman, Ryan R.
Publicado no Bioinformatics (2015)

Patient-specific Immune States before Surgery are Strong Correlates of Surgical Recovery

Por Fragiadakis, Gabriela K., Gaudillière, Brice, Ganio, Edward A., Aghaeepour, Nima, Tingle, Martha, Nolan, Garry P., Angst, Martin S.
Publicado no Anesthesiology (2015)

RchyOptimyx: Cellular Hierarchy Optimization for Flow Cytometry

Por Aghaeepour, Nima, Jalali, Adrin, O’Neill, Kieran, Chattopadhyay, Pratip K., Roederer, Mario, Hoos, Holger H., Brinkman, Ryan R.
Publicado em 2012

Early immunologic correlates of HIV protection can be identified from computational analysis of complex multivariate T-cell flow cytometry assays(*)

Por Aghaeepour, Nima, Chattopadhyay, Pratip K., Ganesan, Anuradha, O'Neill, Kieran, Zare, Habil, Jalali, Adrin, Hoos, Holger H., Roederer, Mario, Brinkman, Ryan R.
Publicado em 2012

Automated analysis of multidimensional flow cytometry data improves diagnostic accuracy between mantle cell lymphoma and small lymphocytic lymphoma

Por Zare, Habil, Bashashati, Ali, Kridel, Robert, Aghaeepour, Nima, Haffari, Gholamreza, Connors, Joseph M., Gascoyne, Randy D., Gupta, Arvind, Brinkman, Ryan R., Weng, Andrew P.
Publicado em 2012

A Dominant-Negative Isoform of IKAROS Expands Primitive Normal Human Hematopoietic Cells

Por Beer, Philip A., Knapp, David J.H.F., Kannan, Nagarajan, Miller, Paul H., Babovic, Sonja, Bulaeva, Elizabeth, Aghaeepour, Nima, Rabu, Gabrielle, Rostamirad, Shabnam, Shih, Kingsley, Wei, Lisa, Eaves, Connie J.
Publicado no Stem Cell Reports (2014)

Integration of Lyoplate Based Flow Cytometry and Computational Analysis for Standardized Immunological Biomarker Discovery

Por Villanova, Federica, Di Meglio, Paola, Inokuma, Margaret, Aghaeepour, Nima, Perucha, Esperanza, Mollon, Jennifer, Nomura, Laurel, Hernandez-Fuentes, Maria, Cope, Andrew, Prevost, A. Toby, Heck, Susanne, Maino, Vernon, Lord, Graham, Brinkman, Ryan R., Nestle, Frank O.
Publicado em 2013

Implementing Mass Cytometry at the Bedside to Study the Immunological Basis of Human Diseases: Distinctive Immune Features in Patients with a History of Term or Preterm Birth

Por Gaudillière, Brice, Ganio, Edward A., Tingle, Martha, Lancero, Hope L., Fragiadakis, Gabriela K., Baca, Quentin J., Aghaeepour, Nima, Wong, Ronald J., Quaintance, Cele, El-Sayed, Yasser Y., Shaw, Gary M., Lewis, David B., Stevenson, David K., Nolan, Garry P., Angst, Martin S.
Publicado no Cytometry A (2015)

Thinking Outside the Gate: Single-Cell Assessments in Multiple Dimensions

Por Kvistborg, Pia, Gouttefangeas, Cécile, Aghaeepour, Nima, Cazaly, Angelica, Chattopadhyay, Pratip K., Chan, Cliburn, Eckl, Judith, Finak, Greg, Hadrup, Sine Reker, Maecker, Holden T., Maurer, Dominik, Mosmann, Tim, Qiu, Peng, Scheuermann, Richard H., Welters, Marij J.P., Ferrari, Guido, Brinkman, Ryan R., Britten, Cedrik M.
Publicado no Immunity (2015)

Distinct signaling programs control human hematopoietic stem cell survival and proliferation

Por Knapp, David J. H. F., Hammond, Colin A., Aghaeepour, Nima, Miller, Paul H., Pellacani, Davide, Beer, Philip A., Sachs, Karen, Qiao, Wenlian, Wang, WeiJia, Humphries, R. Keith, Sauvageau, Guy, Zandstra, Peter W., Bendall, Sean C., Nolan, Garry P., Hansen, Carl, Eaves, Connie J.
Publicado no Blood (2017)

Multicenter Systems Analysis of Human Blood Reveals Immature Neutrophils in Males and During Pregnancy

Por Blazkova, Jana, Gupta, Sarthak, Liu, Yudong, Gaudilliere, Brice, Ganio, Edward A., Bolen, Christopher R., Saar-Dover, Ron, Fragiadakis, Gabriela K., Angst, Martin S., Hasni, Sarfaraz, Aghaeepour, Nima, Stevenson, David, Baldwin, Nicole, Anguiano, Esperanza, Chaussabel, Damien, Altman, Matthew C., Kaplan, Mariana J., Davis, Mark M., Furman, David
Publicado no J Immunol (2017)

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

Por 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.
Publicado no Cytometry A (2015)

Mapping the Fetomaternal Peripheral Immune System at Term Pregnancy

Por Fragiadakis, Gabriela K., Baca, Quentin J., Gherardini, Pier Federico, Ganio, Edward A., Gaudilliere, Dyani K., Tingle, Martha, Lancero, Hope L., McNeil, Leslie S., Spitzer, Matthew H., Wong, Ronald J., Shaw, Gary M., Darmstadt, Gary L., Sylvester, Karl G., Winn, Virginia D., Carvalho, Brendan, Lewis, David B., Stevenson, David K., Nolan, Garry P., Aghaeepour, Nima, Angst, Martin S., Gaudilliere, Brice L.
Publicado no J Immunol (2016)

Standardizing Flow Cytometry Immunophenotyping Analysis from the Human ImmunoPhenotyping Consortium

Por 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
Publicado no Sci Rep (2016)