Group Normalization for Genomic Data

Por Ghandi, Mahmoud, Beer, Michael A.
Publicado em 2012

Identification of Predictive Cis-Regulatory Elements Using a Discriminative Objective Function and a Dynamic Search Space

Por Karnik, Rahul, Beer, Michael A.
Publicado no PLoS One (2015)

Discriminative prediction of mammalian enhancers from DNA sequence

Por Lee, Dongwon, Karchin, Rachel, Beer, Michael A.
Publicado em 2011

Robust k-mer frequency estimation using gapped k-mers

Por Ghandi, Mahmoud, Mohammad-Noori, Morteza, Beer, Michael A.
Publicado em 2013

Embryonic loss of human females with partial trisomy 19 identifies region critical for the single active X

Por Migeon, Barbara R., Beer, Michael A., Bjornsson, Hans T.
Publicado no PLoS One (2017)

Whole-Genome Discovery of Transcription Factor Binding Sites by Network-Level Conservation

Por Pritsker, Moshe, Liu, Yir-Chung, Beer, Michael A., Tavazoie, Saeed
Publicado em 2004

Enhanced Regulatory Sequence Prediction Using Gapped k-mer Features

Por Ghandi, Mahmoud, Lee, Dongwon, Mohammad-Noori, Morteza, Beer, Michael A.
Publicado em 2014

Identification of miR-21 targets in breast cancer cells using a quantitative proteomic approach

Por Yang, Yi, Chaerkady, Raghothama, Beer, Michael A., Mendell, Joshua T., Pandey, Akhilesh
Publicado em 2009

kmer-SVM: a web server for identifying predictive regulatory sequence features in genomic data sets

Por Fletez-Brant, Christopher, Lee, Dongwon, McCallion, Andrew S., Beer, Michael A.
Publicado em 2013

Functional Characterization of a Novel Ku70/80 Pause Site at the H19/Igf2 Imprinting Control Region

Por Katz, David J., Beer, Michael A., Levorse, John M., Tilghman, Shirley M.
Publicado em 2005

gkmSVM: an R package for gapped-kmer SVM

Por Ghandi, Mahmoud, Mohammad-Noori, Morteza, Ghareghani, Narges, Lee, Dongwon, Garraway, Levi, Beer, Michael A.
Publicado no Bioinformatics (2016)

Metrics of sequence constraint overlook regulatory sequences in an exhaustive analysis at phox2b

Por McGaughey, David M., Vinton, Ryan M., Huynh, Jimmy, Al-Saif, Amr, Beer, Michael A., McCallion, Andrew S.
Publicado em 2008

A method to predict the impact of regulatory variants from DNA sequence

Por Lee, Dongwon, Gorkin, David U., Baker, Maggie, Strober, Benjamin J., Asoni, Alessandro L., McCallion, Andrew S., Beer, Michael A.
Publicado no Nat Genet (2015)

Identification of Novel Phosphorylation Motifs Through an Integrative Computational and Experimental Analysis of the Human Phosphoproteome

Por Amanchy, Ramars, Kandasamy, Kumaran, Mathivanan, Suresh, Periaswamy, Balamurugan, Reddy, Raghunath, Yoon, Wan-Hee, Joore, Jos, Beer, Michael A, Cope, Leslie, Pandey, Akhilesh
Publicado em 2011

Integration of ChIP-seq and machine learning reveals enhancers and a predictive regulatory sequence vocabulary in melanocytes

Por Gorkin, David U., Lee, Dongwon, Reed, Xylena, Fletez-Brant, Christopher, Bessling, Seneca L., Loftus, Stacie K., Beer, Michael A., Pavan, William J., McCallion, Andrew S.
Publicado em 2012

Divergent functions of hematopoietic transcription factors in lineage priming and differentiation during erythro-megakaryopoiesis

Por Pimkin, Maxim, Kossenkov, Andrew V., Mishra, Tejaswini, Morrissey, Christapher S., Wu, Weisheng, Keller, Cheryl A., Blobel, Gerd A., Lee, Dongwon, Beer, Michael A., Hardison, Ross C., Weiss, Mitchell J.
Publicado no Genome Res (2014)

Lin-28B transactivation is necessary for Myc-mediated let-7 repression and proliferation

Por Chang, Tsung-Cheng, Zeitels, Lauren R., Hwang, Hun-Way, Chivukula, Raghu R., Wentzel, Erik A., Dews, Michael, Jung, Jason, Gao, Ping, Dang, Chi V., Beer, Michael A., Thomas-Tikhonenko, Andrei, Mendell, Joshua T.
Publicado em 2009

Comparison of the transcriptional landscapes between human and mouse tissues

Por Lin, Shin, Lin, Yiing, Nery, Joseph R., Urich, Mark A., Breschi, Alessandra, Davis, Carrie A., Dobin, Alexander, Zaleski, Christopher, Beer, Michael A., Chapman, William C., Gingeras, Thomas R., Ecker, Joseph R., Snyder, Michael P.
Publicado no Proc Natl Acad Sci U S A (2014)

Epigenomic landscapes of retinal rods and cones

Por Mo, Alisa, Luo, Chongyuan, Davis, Fred P, Mukamel, Eran A, Henry, Gilbert L, Nery, Joseph R, Urich, Mark A, Picard, Serge, Lister, Ryan, Eddy, Sean R, Beer, Michael A, Ecker, Joseph R, Nathans, Jeremy
Publicado no eLife (2016)

Transactivation of miR-34a by p53 broadly influences gene expression and promotes apoptosis

Por Chang, Tsung-Cheng, Wentzel, Erik A., Kent, Oliver A., Ramachandran, Kalyani, Mullendore, Michael, Lee, Kwang Hyuck, Feldmann, Georg, Yamakuchi, Munekazu, Ferlito, Marcella, Lowenstein, Charles J., Arking, Dan E., Beer, Michael A., Maitra, Anirban, Mendell, Joshua T.
Publicado em 2007