Terence P. Speed

Publication Activity (10 Years)

Years Active: 1996-2022
Publications (10 Years): 6

Top Topics

Intelligent Data Analysis

Weak Signal Detection

Essential Proteins

Top Venues

PLoS Comput. Biol.

J. Multivar. Anal.

Publications

Terence P. Speed, Damien G. Hicks
Spectral PCA for MANOVA and data over binary trees. J. Multivar. Anal. 188 (2022)
Anna Quaglieri, Christoffer Flensburg, Terence P. Speed, Ian J. Majewski
Finding a suitable library size to call variants in RNA-Seq. BMC Bioinform. 21 (1) (2020)
Chengzhong Ye, Terence P. Speed, Agus Salim
DECENT: differential expression with capture efficiency adjustmeNT for single-cell RNA-seq data. Bioinform. 35 (24) (2019)
Damien G. Hicks, Terence P. Speed, Mohammed Yassin, Sarah M. Russell
Maps of variability in cell lineage trees. PLoS Comput. Biol. 15 (2) (2019)
Timothy J. Peters, Hugh J. French, Stephen T. Bradford, Ruth Pidsley, Clare Stirzaker, Hilal Varinli, Shalima Nair, Wenjia Qu, Jenny Song, Katherine A. Giles, Aaron L. Statham, Helen Speirs, Terence P. Speed, Susan J. Clark
Evaluation of cross-platform and interlaboratory concordance via consensus modelling of genomic measurements. Bioinform. 35 (4) (2019)
Saskia Freytag, Johann Gagnon-Bartsch, Terence P. Speed, Melanie Bahlo
Systematic noise degrades gene co-expression signals but can be corrected. BMC Bioinform. 16 (2015)
Su Yeon Kim, Laurent Jacob, Terence P. Speed
Combining calls from multiple somatic mutation-callers. BMC Bioinform. 15 (2014)
Su Yeon Kim, Terence P. Speed
Comparing somatic mutation-callers: Beyond Venn diagrams. BMC Bioinform. 14 (2013)
Nianxiang Zhang, Yan Xu, Martin O'Hely, Terence P. Speed, Curt Scharfe, Wenyi Wang
SRMA: an R package for resequencing array data analysis. Bioinform. 28 (14) (2012)
Steven M. Hill, Yiling Lu, Jennifer Molina, Laura Heiser, Paul T. Spellman, Terence P. Speed, Joe W. Gray, Gordon B. Mills, Sach Mukherjee
Bayesian Inference of Signaling Network Topology in a Cancer Cell Line. Bioinform. 28 (21) (2012)
Wenyi Wang, Peidong Shen, Sreedevi Thiyagarajan, Shengrong Lin, Curtis J. Palm, Rita Horvath, Thomas Klopstock, David Cutler, Lynn Pique, Iris Schrijver, Ronald W. Davis, Michael Mindrinos, Terence P. Speed, Curt Scharfe
Identification of rare DNA variants in mitochondrial disorders with improved array-based sequencing. Nucleic Acids Res. 39 (1) (2011)
Ben J. Woodcroft, Robert Radloff, Lee M. Yeoh, Kristie-Lee Scanlon, Maria A. Doyle, Giel G. van Dooren, Geoffrey I. McFadden, Christopher J. Tonkin, Terence P. Speed, Stuart A. Ralph
An integrative bioinformatic predictor of protein sub-cellular localisation in malaria. BMC Bioinform. 12 (S-11) (2011)
Henrik Bengtsson, Pierre Neuvial, Terence P. Speed
TumorBoost: Normalization of allele-specific tumor copy numbers from a single pair of tumor-normal genotyping microarrays. BMC Bioinform. 11 (2010)
Doron Lipson, Terence P. Speed, Margaret Taub
Methods for Allocating Ambiguous Short-reads. Commun. Inf. Syst. 10 (2) (2010)
Henrik Bengtsson, Pratyaksha Wirapati, Terence P. Speed
A single-array preprocessing method for estimating full-resolution raw copy numbers from all Affymetrix genotyping arrays including GenomeWideSNP 5 & 6. Bioinform. 25 (17) (2009)
Yunxia Sui, Xiaoyue Zhao, Terence P. Speed, Zhijin Wu
Background Adjustment for DNA Microarrays Using a Database of Microarray Experiments. J. Comput. Biol. 16 (11) (2009)
Henrik Bengtsson, Amrita Ray, Paul T. Spellman, Terence P. Speed
A single-sample method for normalizing and combining full-resolution copy numbers from multiple platforms, labs and analysis methods. Bioinform. 25 (7) (2009)
Sach Mukherjee, Steven Pelech, Richard M. Neve, Wen-Lin Kuo, Safiyyah Ziyad, Paul T. Spellman, Joe W. Gray, Terence P. Speed
Sparse combinatorial inference with an application in cancer biology. Bioinform. 25 (2) (2009)
Mark D. Robinson, Terence P. Speed
Differential splicing using whole-transcript microarrays. BMC Bioinform. 10 (2009)
Julia Brettschneider, François Collin, Benjamin M. Bolstad, Terence P. Speed
Quality Assessment for Short Oligonucleotide Microarray Data. Technometrics 50 (3) (2008)
E. Purdom, Ken M. Simpson, Mark D. Robinson, J. G. Conboy, A. V. Lapuk, Terence P. Speed
FIRMA: a method for detection of alternative splicing from exon array data. Bioinform. 24 (15) (2008)
Henrik Bengtsson, Rafael A. Irizarry, Benilton S. Carvalho, Terence P. Speed
Estimation and assessment of raw copy numbers at the single locus level. Bioinform. 24 (6) (2008)
Julia Brettschneider, François Collin, Benjamin M. Bolstad, Terence P. Speed
Rejoinder. Technometrics 50 (3) (2008)
Mark D. Robinson, Terence P. Speed
A comparison of Affymetrix gene expression arrays. BMC Bioinform. 8 (2007)
Mark D. Robinson, David P. De Souza, Woon Wai Keen, Eleanor C. Saunders, Malcolm J. McConville, Terence P. Speed, Vladimir A. Likic
A dynamic programming approach for the alignment of signal peaks in multiple gas chromatography-mass spectrometry experiments. BMC Bioinform. 8 (2007)
Nusrat Rabbee, Terence P. Speed
A genotype calling algorithm for affymetrix SNP arrays. Bioinform. 22 (1) (2006)
Tim Beißbarth, Jason A. Tye-Din, Gordon K. Smyth, Terence P. Speed, Robert P. Anderson
A systematic approach for comprehensive T-cell epitope discovery using peptide libraries. ISMB (Supplement of Bioinformatics) (2005)
Xiaoyue Zhao, Haiyan Huang, Terence P. Speed
Finding Short DNA Motifs Using Permuted Markov Models. J. Comput. Biol. 12 (6) (2005)
Xiaoyue Zhao, Haiyan Huang, Terence P. Speed
Finding short DNA motifs using permuted markov models. RECOMB (2004)
Leslie Cope, Rafael A. Irizarry, Harris A. Jaffee, Zhijin Wu, Terence P. Speed
A benchmark for Affymetrix GeneChip expression measures. Bioinform. 20 (3) (2004)
Benjamin I. P. Rubinstein, Jon D. McAuliffe, Simon Cawley, Marimuthu Palaniswami, Kotagiri Ramamohanarao, Terence P. Speed
Machine learning in low-level microarray analysis. SIGKDD Explor. 5 (2) (2003)
Benjamin M. Bolstad, Rafael A. Irizarry, Magnus Åstrand, Terence P. Speed
A comparison of normalization methods for high density oligonucleotide array data based on variance and bias. Bioinform. 19 (2) (2003)
Terence P. Speed
Low-level analyses of microarray data. RECOMB (2003)
Mauro Delorenzi, Terence P. Speed
An HMM model for coiled-coil domains and a comparison with PSSM-based predictions. Bioinform. 18 (4) (2002)
Yee Hwa Yang, Michael J. Buckley, Terence P. Speed
Analysis of CDNA Microarray Images. Briefings Bioinform. 2 (4) (2001)
Simon Cawley, Terence P. Speed
DNA Sequencing with Transposons. J. Comput. Biol. 7 (5) (2000)
Terence P. Speed
Variations on a theme of Lander and Waterman (abstract). RECOMB (1997)
Shili Lin, Terence P. Speed
An algorithm for haplotype analysis. RECOMB (1997)
Shili Lin, Terence P. Speed
An Algorithm for Haplotype Analysis. J. Comput. Biol. 4 (4) (1997)
Ming-Ying Leung, G. M. Marsh, Terence P. Speed
Over- and Underrepresentation of Short DNA Words in Herpesvirus Genomes. J. Comput. Biol. 3 (3) (1996)