Impact of Data Preprocessing on Integrative Matrix Factorization of Single Cell Data

por Hsu, Lauren L., Culhane, Aedin C.
Publicado 2020

Correspondence analysis for dimension reduction, batch integration, and visualization of single-cell RNA-seq data

por Hsu, Lauren L., Culhane, Aedín C.
Publicado 2023

Cross-platform comparison and visualisation of gene expression data using co-inertia analysis

por Culhane, Aedín C, Perrière, Guy, Higgins, Desmond G
Publicado 2003

Comparison and evaluation of methods for generating differentially expressed gene lists from microarray data

por Jeffery, Ian B, Higgins, Desmond G, Culhane, Aedín C
Publicado 2006

A multivariate approach to the integration of multi-omics datasets

por Meng, Chen, Kuster, Bernhard, Culhane, Aedín C, Gholami, Amin Moghaddas
Publicado 2014

iBBiG: iterative binary bi-clustering of gene sets

por Gusenleitner, Daniel, Howe, Eleanor A., Bentink, Stefan, Quackenbush, John, Culhane, Aedín C.
Publicado 2012

Optimized between-group classification: a new jackknife-based gene selection procedure for genome-wide expression data

por Baty, Florent, Bihl, Michel P, Perrière, Guy, Culhane, Aedín C, Brutsche, Martin H
Publicado 2005

MOGSA: Integrative Single Sample Gene-set Analysis of Multiple Omics Data

por Meng, Chen, Basunia, Azfar, Peters, Bjoern, Gholami, Amin Moghaddas, Kuster, Bernhard, Culhane, Aedín C.
Publicado 2019

In Reply

por de Velasco, Guillermo, Culhane, Aedín C., Heng, Daniel Y.C., Signoretti, Sabina, Choueiri, Toni K.
Publicado 2017

Dimension reduction techniques for the integrative analysis of multi-omics data

por Meng, Chen, Zeleznik, Oana A., Thallinger, Gerhard G., Kuster, Bernhard, Gholami, Amin M., Culhane, Aedín C.
Publicado 2016

Stem Cell-Like Gene Expression in Ovarian Cancer Predicts Type II Subtype and Prognosis

por Schwede, Matthew, Spentzos, Dimitrios, Bentink, Stefan, Hofmann, Oliver, Haibe-Kains, Benjamin, Harrington, David, Quackenbush, John, Culhane, Aedín C.
Publicado 2013

Curated single cell multimodal landmark datasets for R/Bioconductor

por Eckenrode, Kelly B., Righelli, Dario, Ramos, Marcel, Argelaguet, Ricard, Vanderaa, Christophe, Geistlinger, Ludwig, Culhane, Aedin C., Gatto, Laurent, Carey, Vincent, Morgan, Martin, Risso, Davide, Waldron, Levi
Publicado 2023

Significance Analysis of Prognostic Signatures

por Beck, Andrew H., Knoblauch, Nicholas W., Hefti, Marco M., Kaplan, Jennifer, Schnitt, Stuart J., Culhane, Aedin C., Schroeder, Markus S., Risch, Thomas, Quackenbush, John, Haibe-Kains, Benjamin
Publicado 2013

GeneSigDB—a curated database of gene expression signatures

por Culhane, Aedín C., Schwarzl, Thomas, Sultana, Razvan, Picard, Kermshlise C., Picard, Shaita C., Lu, Tim H., Franklin, Katherine R., French, Simon J., Papenhausen, Gerald, Correll, Mick, Quackenbush, John
Publicado 2010

RelA-Induced Interferon Response Negatively Regulates Proliferation

por Kochupurakkal, Bose S., Wang, Zhigang C., Hua, Tony, Culhane, Aedin C., Rodig, Scott J., Rajkovic-Molek, Koraljka, Lazaro, Jean-Bernard, Richardson, Andrea L., Biswas, Debajit K., Iglehart, J. Dirk
Publicado 2015

Enter the Matrix: Factorization Uncovers Knowledge from Omics

por Stein-O’Brien, Genevieve L., Arora, Raman, Culhane, Aedin C., Favorov, Alexander V., Garmire, Lana X., Greene, Casey S., Goff, Loyal A., Li, Yifeng, Ngom, Aloune, Ochs, Michael F., Xu, Yanxun, Fertig, Elana J.
Publicado 2018

Public data and open source tools for multi-assay genomic investigation of disease

por Kannan, Lavanya, Ramos, Marcel, Re, Angela, El-Hachem, Nehme, Safikhani, Zhaleh, Gendoo, Deena M.A., Davis, Sean, Gomez-Cabrero, David, Castelo, Robert, Hansen, Kasper D., Carey, Vincent J., Morgan, Martin, Culhane, Aedín C., Haibe-Kains, Benjamin, Waldron, Levi
Publicado 2016

GeneSigDB: a manually curated database and resource for analysis of gene expression signatures

por Culhane, Aedín C., Schröder, Markus S., Sultana, Razvan, Picard, Shaita C., Martinelli, Enzo N., Kelly, Caroline, Haibe-Kains, Benjamin, Kapushesky, Misha, St Pierre, Anne-Alyssa, Flahive, William, Picard, Kermshlise C., Gusenleitner, Daniel, Papenhausen, Gerald, O'Connor, Niall, Correll, Mick, Quackenbush, John
Publicado 2012

BRCA1-IRIS promotes human tumor progression through PTEN blockade and HIF-1α activation

por Li, Andrew G., Murphy, Elizabeth C., Culhane, Aedin C., Powell, Emily, Wang, Hua, Bronson, Roderick T., Von, Thanh, Giobbie-Hurder, Anita, Gelman, Rebecca S., Briggs, Kimberly J., Piwnica-Worms, Helen, Zhao, Jean J., Kung, Andrew L., Kaelin, William G., Livingston, David M.
Publicado 2018

Anti-CAIX BBζ CAR4/8 T cells exhibit superior efficacy in a ccRCC mouse model

por Wang, Yufei, Buck, Alicia, Grimaud, Marion, Culhane, Aedin C., Kodangattil, Sreekumar, Razimbaud, Cecile, Bonal, Dennis M., Nguyen, Quang-De, Zhu, Zhu, Wei, Kevin, O'Donnell, Madison L., Huang, Ying, Signoretti, Sabina, Choueiri, Toni K., Freeman, Gordon J., Zhu, Quan, Marasco, Wayne A.
Publicado 2021