Using ESTs to improve the accuracy of de novo gene prediction

por Wei, Chaochun, Brent, Michael R
Publicado 2006

Using several pair-wise informant sequences for de novo prediction of alternatively spliced transcripts

por Flicek, Paul, Brent, Michael R
Publicado 2006

Eval: A software package for analysis of genome annotations

por Keibler, Evan, Brent, Michael R
Publicado 2003

NetProphet 3: a machine learning framework for transcription factor network mapping and multi-omics integration

por Abid, Dhoha, Brent, Michael R
Publicado 2023

Inferring TF activities and activity regulators from gene expression data with constraints from TF perturbation data

por Ma, Cynthia Z, Brent, Michael R
Publicado 2020

Predicting which genes will respond to transcription factor perturbations

por Kang, Yiming, Jung, Wooseok J, Brent, Michael R
Publicado 2022

Pairagon+N-SCAN_EST: a model-based gene annotation pipeline

por Arumugam, Manimozhiyan, Wei, Chaochun, Brown, Randall H, Brent, Michael R
Publicado 2006

NetProphet 2.0: mapping transcription factor networks by exploiting scalable data resources

por Kang, Yiming, Liow, Hien-Haw, Maier, Ezekiel J, Brent, Michael R
Publicado 2018

How host-like signals drive gene expression and gene expression drives capsule expansion in Cryptococcus neoformans

por Jung, Jeffery, Kang, Yu Sung, Brown, Holly, Mateusiak, Chase, Doering, Tamara L., Brent, Michael R.
Publicado 2023

Mapping functional transcription factor networks from gene expression data

por Haynes, Brian C., Maier, Ezekiel J., Kramer, Michael H., Wang, Patricia I., Brown, Holly, Brent, Michael R.
Publicado 2013

Unintended Side Effects of Transformation Are Very Rare in Cryptococcus neoformans

por Friedman, Ryan Z., Gish, Stacey R., Brown, Holly, Brier, Lindsey, Howard, Nicole, Doering, Tamara L., Brent, Michael R.
Publicado 2018

Performance assessment of promoter predictions on ENCODE regions in the EGASP experiment

por Bajic, Vladimir B, Brent, Michael R, Brown, Randall H, Frankish, Adam, Harrow, Jennifer, Ohler, Uwe, Solovyev, Victor V, Tan, Sin Lam
Publicado 2006

The Transcription Factor Pdr802 Regulates Titan Cell Formation and Pathogenicity of Cryptococcus neoformans

por Reuwsaat, Julia C. V., Agustinho, Daniel P., Motta, Heryk, Chang, Andrew L., Brown, Holly, Brent, Michael R., Kmetzsch, Livia, Doering, Tamara L.
Publicado 2021

Toward an Integrated Model of Capsule Regulation in Cryptococcus neoformans

por Haynes, Brian C., Skowyra, Michael L., Spencer, Sarah J., Gish, Stacey R., Williams, Matthew, Held, Elizabeth P., Brent, Michael R., Doering, Tamara L.
Publicado 2011

Model-driven mapping of transcriptional networks reveals the circuitry and dynamics of virulence regulation

por Maier, Ezekiel J., Haynes, Brian C., Gish, Stacey R., Wang, Zhuo A., Skowyra, Michael L., Marulli, Alyssa L., Doering, Tamara L., Brent, Michael R.
Publicado 2015

Dual threshold optimization and network inference reveal convergent evidence from TF binding locations and TF perturbation responses

por Kang, Yiming, Patel, Nikhil R., Shively, Christian, Recio, Pamela Samantha, Chen, Xuhua, Wranik, Bernd J., Kim, Griffin, McIsaac, R. Scott, Mitra, Robi, Brent, Michael R.
Publicado 2020

Calling Cards: a customizable platform to longitudinally record protein-DNA interactions over time in cells and tissues

por Yen, Allen, Mateusiak, Chase, Sarafinovska, Simona, Gachechiladze, Mariam A., Guo, Juanru, Chen, Xuhua, Moudgil, Arnav, Cammack, Alexander J., Hoisington-Lopez, Jessica, Crosby, MariaLynn, Brent, Michael R., Mitra, Robi D., Dougherty, Joseph D.
Publicado 2023

Gene finding in the chicken genome

por Eyras, Eduardo, Reymond, Alexandre, Castelo, Robert, Bye, Jacqueline M, Camara, Francisco, Flicek, Paul, Huckle, Elizabeth J, Parra, Genis, Shteynberg, David D, Wyss, Carine, Rogers, Jane, Antonarakis, Stylianos E, Birney, Ewan, Guigo, Roderic, Brent, Michael R
Publicado 2005

Computational Analysis Reveals a Key Regulator of Cryptococcal Virulence and Determinant of Host Response

por Gish, Stacey R., Maier, Ezekiel J., Haynes, Brian C., Santiago-Tirado, Felipe H., Srikanta, Deepa L., Ma, Cynthia Z., Li, Lucy X., Williams, Matthew, Crouch, Erika C., Khader, Shabaana A., Brent, Michael R., Doering, Tamara L.
Publicado 2016

The Genome Sequence of Caenorhabditis briggsae: A Platform for Comparative Genomics

por Stein, Lincoln D, Bao, Zhirong, Blasiar, Darin, Blumenthal, Thomas, Brent, Michael R, Chen, Nansheng, Chinwalla, Asif, Clarke, Laura, Clee, Chris, Coghlan, Avril, Coulson, Alan, D'Eustachio, Peter, Fitch, David H. A, Fulton, Lucinda A, Fulton, Robert E, Griffiths-Jones, Sam, Harris, Todd W, Hillier, LaDeana W, Kamath, Ravi, Kuwabara, Patricia E, Mardis, Elaine R, Marra, Marco A, Miner, Tracie L, Minx, Patrick, Mullikin, James C, Plumb, Robert W, Rogers, Jane, Schein, Jacqueline E, Sohrmann, Marc, Spieth, John, Stajich, Jason E, Wei, Chaochun, Willey, David, Wilson, Richard K, Durbin, Richard, Waterston, Robert H
Publicado 2003