Calling Cards: a customizable platform to longitudinally record protein-DNA interactions over time in cells and tissues
- Allen Yen, Chase Mateusiak, Simona Sarafinovska, …, Michael R Brent, Robi D Mitra, Joseph D Dougherty
- None, 10.1101/2023.06.07.544098
How host-like signals drive gene expression and gene expression drives capsule expansion in Cryptococcus neoformans
- Jeffery Jung, Yu Sung Kang, Holly Brown, …, Chase Mateusiak, Tamara L Doering, Michael R Brent
- None, 10.1101/2023.04.19.537239
NetProphet 3: a machine learning framework for transcription factor network mapping and multi-omics integration
- Dhoha Abid, Michael R Brent, Dhoha Abid, …, Michael R Brent, Dhoha Abid, Michael R Brent
- Bioinformatics, 10.1093/bioinformatics/btad038
The Programmed Death-1 Signaling Axis Modulates Inflammation and LV Structure/Function in a Stress-Induced Cardiomyopathy Model
- Tomohiro Hayashi, Sajal K Tiwary, Kory J Lavine, …, Luigi Adamo, Attila Kovacs, Douglas L Mann
- None, 10.1016/j.jacbts.2022.05.006
Predicting which genes will respond to transcription factor perturbations
- Yiming Kang, Wooseok J Jung, Michael R Brent
- G3 (Bethesda), 10.1093/g3journal/jkac144
The Transcription Factor Pdr802 Regulates Titan Cell Formation and Pathogenicity of Cryptococcus neoformans
- Julia C V Reuwsaat, Daniel P Agustinho, Heryk Motta, …, Michael R Brent, Livia Kmetzsch, Tamara L Doering
- mBio, 10.1128/mbio.03457-20
Seven-Up Is a Novel Regulator of Insulin Signaling
- Laura Palanker Musselman, Jill L Fink, Ezekiel J Maier, …, Jared A Gatto, Michael R Brent, Thomas J Baranski
- Genetics, 10.1534/genetics.118.300770
Unintended Side Effects of Transformation Are Very Rare in Cryptococcus neoformans
- Ryan Z Friedman, Stacey R Gish, Holly Brown, …, Nicole Howard, Tamara L Doering, Michael R Brent
- G3 (Bethesda), 10.1534/g3.117.300357
NetProphet 2.0: mapping transcription factor networks by exploiting scalable data resources
- Yiming Kang, Hien-Haw Liow, Ezekiel J Maier, Michael R Brent
- Bioinformatics, 10.1093/bioinformatics/btx563
Model-based transcriptome engineering promotes a fermentative transcriptional state in yeast
- Drew G Michael, Ezekiel J Maier, Holly Brown, …, Christopher Fiore, Randall H Brown, Michael R Brent
- Proc Natl Acad Sci U S A, 10.1073/pnas.1603577113
SpDamID: Marking DNA Bound by Protein Complexes Identifies Notch-Dimer Responsive Enhancers
- Matthew R Hass, Hien-Haw Liow, Xiaoting Chen, …, Matthew T Weirauch, Michael R Brent, Raphael Kopan
- Mol Cell, 10.1016/j.molcel.2016.09.035
Computational Analysis Reveals a Key Regulator of Cryptococcal Virulence and Determinant of Host Response
- Stacey R Gish, Ezekiel J Maier, Brian C Haynes, …, Shabaana A Khader, Michael R Brent, Tamara L Doering
- mBio, 10.1128/mbio.00313-16
Model-driven mapping of transcriptional networks reveals the circuitry and dynamics of virulence regulation
- Ezekiel J Maier, Brian C Haynes, Stacey R Gish, …, Alyssa L Marulli, Tamara L Doering, Michael R Brent
- Genome Res, 10.1101/gr.184101.114
Cryptococcus neoformans dual GDP-mannose transporters and their role in biology and virulence
- Zhuo A Wang, Cara L Griffith, Michael L Skowyra, …, Hong Liu, Michael R Brent, Tamara L Doering
- None, 10.1128/ec.00054-14
Mapping functional transcription factor networks from gene expression data
- Brian C Haynes, Ezekiel J Maier, Michael H Kramer, Patricia I Wang, Holly Brown, Michael R Brent
- Genome Res, 10.1101/gr.150904.112
Role of fat body lipogenesis in protection against the effects of caloric overload in Drosophila
- Laura Palanker Musselman, Jill L Fink, Prasanna Venkatesh Ramachandran, …, Michael R Brent, John Turk, Thomas J Baranski
- J Biol Chem, 10.1074/jbc.m112.371047
GENCODE: the reference human genome annotation for The ENCODE Project
- Jennifer Harrow, Adam Frankish, Jose M Gonzalez, …, Mark Gerstein, Roderic Guigó, Tim J Hubbard
- Genome Res, 10.1101/gr.135350.111
Reduced DICER1 elicits an interferon response in endometrial cancer cells
- Katherine B Chiappinelli, Brian C Haynes, Michael R Brent, Paul J Goodfellow
- Mol Cancer Res, 10.1158/1541-7786.mcr-11-0520
Toward an integrated model of capsule regulation in Cryptococcus neoformans
- Brian C Haynes, Michael L Skowyra, Sarah J Spencer, …, Elizabeth P Held, Michael R Brent, Tamara L Doering
- PLoS Pathog, 10.1371/journal.ppat.1002411