Evaluating methods of inferring gene regulatory networks highlights their lack of performance for single cell gene expression data von Chen, Shuonan, Mar, Jessica C

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Arteriolar niches maintain haematopoietic stem cell quiescence von Kunisaki, Yuya, Bruns, Ingmar, Scheiermann, Christoph, Ahmed, Jalal, Pinho, Sandra, Zhang, Dachuan, Mizoguchi, Toshihide, Wei, Qiaozhi, Lucas, Daniel, Ito, Keisuke, Mar, Jessica C., Bergman, Aviv, Frenette, Paul S.

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The shape of gene expression distributions matter: how incorporating distribution shape improves the interpretation of cancer transcriptomic data von de Torrente, Laurence, Zimmerman, Samuel, Suzuki, Masako, Christopeit, Maximilian, Greally, John M., Mar, Jessica C.

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Investigating transcriptome-wide sex dimorphism by multi-level analysis of single-cell RNA sequencing data in ten mouse cell types von Lu, Tianyuan, Mar, Jessica C.

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Single-cell analysis of transcriptome and DNA methylome in human oocyte maturation von Yu, Bo, Doni Jayavelu, Naresh, Battle, Stephanie L., Mar, Jessica C., Schimmel, Timothy, Cohen, Jacques, Hawkins, R. David

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Protein-Protein interactions uncover candidate 'core genes' within omnigenic disease networks von Ratnakumar, Abhirami, Weinhold, Nils, Mar, Jessica C., Riaz, Nadeem, Barsh, Gregory S., Liu, Xuanyao, Barsh, Gregory S., Liu, Xuanyao, Barsh, Gregory S., Liu, Xuanyao, Barsh, Gregory S., Liu, Xuanyao

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The Majority of CD45– Ter119– CD31– Bone Marrow Cell Fraction Is of Hematopoietic Origin and Contains Erythroid and Lymphoid Progenitors von Boulais, Philip E., Mizoguchi, Toshihide, Zimmerman, Samuel, Nakahara, Fumio, Vivié, Judith, Mar, Jessica C., van Oudenaarden, Alexander, Frenette, Paul S.

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Investigating skewness to understand gene expression heterogeneity in large patient cohorts von Church, Benjamin V, Williams, Henry T, Mar, Jessica C

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Epstein-Barr virus exploits intrinsic B-lymphocyte transcription programs to achieve immortal cell growth von Zhao, Bo, Zou, James, Wang, Hongfang, Johannsen, Eric, Peng, Chih-wen, Quackenbush, John, Mar, Jessica C, Morton, Cynthia Casson, Freedman, Matthew L, Blacklow, Stephen C, Aster, Jon C, Bernstein, Bradley E, Kieff, Elliott

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Snai2 Maintains Bone Marrow Niche Cells by Repressing Osteopontin Expression von Wei, Qiaozhi, Nakahara, Fumio, Asada, Noboru, Zhang, Dachuan, Gao, Xin, Xu, Chunliang, Alfieri, Alan, Brodin, N. Patrik, Zimmerman, Samuel E., Mar, Jessica C., Guha, Chandan, Guo, Wenjun, Frenette, Paul S.

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Identification of a novel subgroup of endometrial cancer patients with loss of thyroid hormone receptor beta expression and improved survival von Pique, Daniel G., Greally, John M., Mar, Jessica C.

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Variability of Gene Expression Identifies Transcriptional Regulators of Early Human Embryonic Development von Hasegawa, Yu, Taylor, Deanne, Ovchinnikov, Dmitry A, Wolvetang, Ernst J, de Torrenté, Laurence, Mar, Jessica C

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Single-Cell Gene Expression Profiles Define Self-Renewing, Pluripotent, and Lineage Primed States of Human Pluripotent Stem Cells von Hough, Shelley R., Thornton, Matthew, Mason, Elizabeth, Mar, Jessica C., Wells, Christine A., Pera, Martin F.

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Genome-wide siRNA screen for mediators of NF-κB activation von Gewurz, Benjamin E, Towfic, Fadi, Mar, Jessica C, Shinners, Nicholas P, Takasaki, Kaoru, Zhao, Bo, Cahir-McFarland, Ellen D, Quackenbush, John, Xavier, Ramnik J, Kieff, Elliott

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Variance of gene expression identifies altered network constraints in neurological disease von Mar, Jessica C, Matigian, Nicholas A, Mackay-Sim, Alan, Mellick, George D, Sue, Carolyn M, Silburn, Peter A, McGrath, John J, Quackenbush, John, Wells, Christine A

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Decomposition of gene expression state space trajectories von Mar, Jessica C, Quackenbush, John

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Defining an informativeness metric for clustering gene expression data von MAR, Jessica C, WELLS, Christine A, QUACKENBUSH, John

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attract: A method for identifying core pathways that define cellular phenotypes von Mar, Jessica C, Matigian, Nicholas A, Quackenbush, John, Wells, Christine A

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Aneuvis: web-based exploration of numerical chromosomal variation in single cells von Piqué, Daniel G, Andriani, Grasiella A, Maggi, Elaine, Zimmerman, Samuel E, Greally, John M, Montagna, Cristina, Mar, Jessica C

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Data-driven normalization strategies for high-throughput quantitative RT-PCR von Mar, Jessica C, Kimura, Yasumasa, Schroder, Kate, Irvine, Katharine M, Hayashizaki, Yoshihide, Suzuki, Harukazu, Hume, David, Quackenbush, John

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