BFL: a node and edge betweenness based fast layout algorithm for large scale networks

by Hashimoto, Tatsunori B, Nagasaki, Masao, Kojima, Kaname, Miyano, Satoru
Published 2009

Tree preserving embedding

by Shieh, Albert D., Hashimoto, Tatsunori B., Airoldi, Edoardo M.
Published 2011

Universal Count Correction for High-Throughput Sequencing

by Hashimoto, Tatsunori B., Edwards, Matthew D., Gifford, David K.
Published 2014

GERV: a statistical method for generative evaluation of regulatory variants for transcription factor binding

by Zeng, Haoyang, Hashimoto, Tatsunori, Kang, Daniel D., Gifford, David K.
Published in Bioinformatics (2016)

Cloning-free CRISPR

by Arbab, Mandana, Srinivasan, Sharanya, Hashimoto, Tatsunori, Geijsen, Niels, Sherwood, Richard I.
Published in Stem Cell Reports (2015)

DNase-capture reveals differential transcription factor binding modalities

by Kang, Daniel, Sherwood, Richard, Barkal, Amira, Hashimoto, Tatsunori, Engstrom, Logan, Gifford, David
Published in PLoS One (2017)

Lineage-based identification of cellular states and expression programs

by Hashimoto, Tatsunori, Jaakkola, Tommi, Sherwood, Richard, Mazzoni, Esteban O., Wichterle, Hynek, Gifford, David
Published 2012

Cas9 Functionally Opens Chromatin

by Barkal, Amira A., Srinivasan, Sharanya, Hashimoto, Tatsunori, Gifford, David K., Sherwood, Richard I.
Published in PLoS One (2016)

Inferring Multidimensional Rates of Aging from Cross-Sectional Data

by Pierson, Emma, Koh, Pang Wei, Hashimoto, Tatsunori, Koller, Daphne, Leskovec, Jure, Eriksson, Nicholas, Liang, Percy
Published in Proc Mach Learn Res (2019)

Quantifying Condition-Dependent Intracellular Protein Levels Enables High-Precision Fitness Estimates

by Geiler-Samerotte, Kerry A., Hashimoto, Tatsunori, Dion, Michael F., Budnik, Bogdan A., Airoldi, Edoardo M., Drummond, D. Allan
Published 2013

Correction: Quantifying Condition-Dependent Intracellular Protein Levels Enables High-Precision Fitness Estimates

by Geiler-Samerotte, Kerry A., Hashimoto, Tatsunori, Dion, Michael F., Budnik, Bogdan A., Airoldi, Edoardo M., Drummond, D. Allan
Published 2013

Discovery of non-directional and directional pioneer transcription factors by modeling DNase profile magnitude and shape

by Sherwood, Richard I, Hashimoto, Tatsunori, O'Donnell, Charles W, Lewis, Sophia, Barkal, Amira A, van Hoff, John Peter, Karun, Vivek, Jaakkola, Tommi, Gifford, David K
Published 2014

A synergistic DNA logic predicts genome-wide chromatin accessibility

by Hashimoto, Tatsunori, Sherwood, Richard I., Kang, Daniel D., Rajagopal, Nisha, Barkal, Amira A., Zeng, Haoyang, Emons, Bart J.M., Srinivasan, Sharanya, Jaakkola, Tommi, Gifford, David K.
Published in Genome Res (2016)