Author details

Full Name

Stephanie C Hicks

Affiliation

Johns Hopkins Bloomberg School of Public Health

ORCID

Career Start Year

2011

Papers

H Index

Expertise

CM4AI Collaborator

PMID	Paper Title	Journal Title	Published Year
36063544	A scalable and unbiased discordance metric with H.	Biostatistics	2023
37864274	Performance of computational algorithms to deconvolve heterogeneous bulk ovarian tumor tissue depends on experimental factors.	Genome Biol	2023
37845779	Data-driven identification of total RNA expression genes for estimation of RNA abundance in heterogeneous cell types highlighted in brain tissue.	Genome Biol	2023
37503064	Detecting differential transcript usage in complex diseases with SPIT.	bioRxiv	2023
36993732	escheR: Unified multi-dimensional visualizations with Gestalt principles.	bioRxiv	2023
37257175	Quantification and statistical modeling of droplet-based single-nucleus RNA-sequencing data.	Biostatistics	2023
37214135	Challenges and opportunities to computationally deconvolve heterogeneous tissue with varying cell sizes using single cell RNA-sequencing datasets.	ArXiv	2023
37226416	Activity-regulated gene expression across cell types of the mouse hippocampus.	Hippocampus	2023
36747726	Performant web-based interactive visualization tool for spatially-resolved transcriptomics experiments.	bioRxiv	2023
36824961	Integrated single cell and unsupervised spatial transcriptomic analysis defines molecular anatomy of the human dorsolateral prefrontal cortex.	bioRxiv	2023
35482478	SpatialExperiment: infrastructure for spatially-resolvedÂ transcriptomics data in R using Bioconductor.	Bioinformatics	2022
35353807	Addressing the mean-correlation relationship in co-expression analysis.	PLoS Comput Biol	2022
35656596	Differential expression of single-cell RNA-seq data usingÂ Tweedie models.	Stat Med	2022
33467923	Reproducible Research: A Retrospective.	Annu Rev Public Health	2021
33603232	Publisher Correction: Transcriptome-scale spatial gene expression in the human dorsolateral prefrontal cortex.	Nat Neurosci	2021
33558695	Transcriptome-scale spatial gene expression in the human dorsolateral prefrontal cortex.	Nat Neurosci	2021
33497379	mbkmeans: Fast clustering for single cell data using mini-batch k-means.	PLoS Comput Biol	2021
34553212	Genetic demultiplexing of pooled single-cell RNA-sequencing samples in cancer facilitates effective experimental design.	Gigascience	2021
34582785	Single-nucleus transcriptome analysis reveals cell-type-specific molecular signatures across reward circuitry in the human brain.	Neuron	2021
34462593	Reproducibility standards for machine learning in the life sciences.	Nat Methods	2021
34428202	miQC: An adaptive probabilistic framework for quality control of single-cell RNA-sequencing data.	PLoS Comput Biol	2021
34778889	Fast and memory-efficient scRNA-seq <i>k</i>-means clustering with various distances.	ACM BCB	2021
34282418	A statistical framework for differential pseudotime analysis with multiple single-cell RNA-seq samples.	bioRxiv	2021
32854757	A systematic evaluation of single-cell RNA-sequencing imputation methods.	Genome Biol	2020
32033589	Eleven grand challenges in single-cell data science.	Genome Biol	2020
31827272	Publisher Correction: Orchestrating single-cell analysis with Bioconductor.	Nat Methods	2020
31792435	Orchestrating single-cell analysis with Bioconductor.	Nat Methods	2020
31164141	A practical guide to methods controlling false discoveries in computational biology.	Genome Biol	2019
31783894	methylCC: technology-independent estimation of cell type composition using differentially methylated regions.	Genome Biol	2019
31870412	Feature selection and dimension reduction for single-cell RNA-Seq based on a multinomial model.	Genome Biol	2019
29121214	Missing data and technical variability in single-cell RNA-sequencing experiments.	Biostatistics	2018
31105314	A Guide to Teaching Data Science.	Am Stat	2018
30400812	Analysis and correction of compositional bias in sparse sequencing count data.	BMC Genomics	2018
29036413	Smooth quantile normalization.	Biostatistics	2018
26906009	Pharmacogenetic characterization of naturally occurring germline NT5C1A variants to chemotherapeutic nucleoside analogs.	Pharmacogenet Genomics	2016
25691460	Evolutionary Action Score of TP53 Coding Variants Is Predictive of Platinum Response in Head and Neck Cancer Patients.	Cancer Res	2015
26040460	quantro: a data-driven approach to guide the choice of an appropriate normalization method.	Genome Biol	2015
25634208	Evolutionary Action Score of TP53 Identifies High-Risk Mutations Associated with Decreased Survival and Increased Distant Metastases in Head and Neck Cancer.	Cancer Res	2015
24480213	Recurrence and pseudorecurrence after laparoscopic ventral hernia repair: predictors and patient-focused outcomes.	Am Surg	2014
25215466	Outcomes with porcine acellular dermal matrix versus synthetic mesh and suture in complicated open ventral hernia repair.	Surg Infect (Larchmt)	2014
25241955	Abdominal reoperation and mesh explantation following open ventral hernia repair with mesh.	Am J Surg	2014
24980854	Suture versus preperitoneal polypropylene mesh for elective umbilical hernia repairs.	J Surg Res	2014
24776653	Prevalence of surgical site infection at the stoma site following four skin closure techniques: a retrospective cohort study.	Dig Surg	2014
24773169	Identifying risk factors for surgical site complications after laparoscopic ventral hernia repair: evaluation of the Ventral Hernia Working Group grading system.	Surg Infect (Larchmt)	2014
24554114	Comparison of outcomes of synthetic mesh vs suture repair of elective primary ventral herniorrhaphy: a systematic review and meta-analysis.	JAMA Surg	2014
24560428	Review of stoma site and midline incisional hernias after stoma reversal.	J Surg Res	2014
24458061	Outcomes of acute versus elective primary ventral hernia repair.	J Trauma Acute Care Surg	2014
24422861	Circular closure is associated with the lowest rate of surgical site infection following stoma reversal: a systematic review and multiple treatment meta-analysis.	Colorectal Dis	2014
22795342	Laparoscopic ventral hernia repair: primary versus secondary hernias.	J Surg Res	2013
24296099	Readmission following open ventral hernia repair: incidence, indications, and predictors.	Am J Surg	2013

1 - 50 of 59

Diana Domanska

University of Oslo

Career Start Year 2017

Number of shared co-authors 0

Rhonda Bacher

University of Florida

Career Start Year 2016

Number of shared co-authors 0

James Zou

Stanford University

Career Start Year 2016

Number of shared co-authors 2

Masanao Yajima

Boston University

Career Start Year 2015

Number of shared co-authors 1

George C Linderman

Center for Outcomes Research and Evaluation, Yale New Haven Hospital

Career Start Year 2011

Number of shared co-authors 0

Charity W Law

The Walter and Eliza Hall Institute of Medical Research

Career Start Year 2011

Number of shared co-authors 7

Michael I Love

University of North Carolina at Chapel Hill

Career Start Year 2011

Number of shared co-authors 14

Elana J Fertig

Johns Hopkins University School of Medicine

Career Start Year 2010

Number of shared co-authors 8

Kathleen M Fisch

Center for Computational Biology and Bioinformatics, University of California

Career Start Year 2009

Number of shared co-authors 2

Jonathan E Bard

University at Buffalo

Career Start Year 2007

Number of shared co-authors 0

Lana X Garmire

University of Michigan ann arbor

Career Start Year 2007

Number of shared co-authors 1

Joshua W K Ho

The University of Hong Kong

Career Start Year 2006

Number of shared co-authors 1

Matthew E Ritchie

The University of Melbourne

Career Start Year 2006

Number of shared co-authors 10

Simon Anders

Heidelberg University

Career Start Year 2006

Number of shared co-authors 14

Jessica C Mar

Australian Institute for Bioengineering and Nanotechnology, University of Queensland

Career Start Year 2005

Number of shared co-authors 2

Maria Chikina

University of Pittsburgh

Career Start Year 2005

Number of shared co-authors 2

Richard A Moffitt

Stony Brook University, and Stony Brook Cancer Center

Career Start Year 2005

Number of shared co-authors 5

Robert Sebra

Icahn School of Medicine at Mount Sinai

Career Start Year 2004

Number of shared co-authors 3

Andy G Lynch

University of St Andrews

Career Start Year 2004

Number of shared co-authors 7

Bob Chen

Vanderbilt University Medical Center

Career Start Year 2004

Number of shared co-authors 0

Gerald Quon

University of California davis

Career Start Year 2003

Number of shared co-authors 2

Terence P Speed

Walter and Eliza Hall Institute of Medical Research

Career Start Year 2003

Number of shared co-authors 0

Zhandong Liu

Jan and Dan Duncan Neurological Research Institute at Texas Children's Hospital

Career Start Year 2003

Number of shared co-authors 1

Jean Yee Hwa Yang

The University of Sydney

Career Start Year 2001

Number of shared co-authors 4

Mikhail G Dozmorov

Virginia Commonwealth University

Career Start Year 2001

Number of shared co-authors 0

Kerby Shedden

University of Michigan ann arbor

Career Start Year 1999

Number of shared co-authors 0

Christina Kendziorski

University of Wisconsin-Madison

Career Start Year 1999

Number of shared co-authors 1

Gordon K Smyth

The University of Melbourne

Career Start Year 1992

Number of shared co-authors 12

Aviv Regev

Broad Institute of MIT and Harvard

Career Start Year 1987

Number of shared co-authors 8

Yuval Kluger

Yale University School of Medicine

Career Start Year 1984

Number of shared co-authors 2

row(s) 1 - 30 of 30

Lukas M Weber

Johns Hopkins Bloomberg School of Public Health

Co-authored papers 6

Rafael A Irizarry

Dana-Farber Cancer Institute

Co-authored papers 6

Casey S Greene

Dartmouth College Geisel School of Medicine, Princeton University, University of Colorado Anschutz Medical Campus, University of Pennsylvania Perelman School of Medicine

Co-authored papers 4

Joel E Kleinman

Lieber Institute for Brain Development (LIBD)

Co-authored papers 4

Thomas M Hyde

Co-authored papers 4

Adel K El-Naggar

MD Anderson Cancer Center

Co-authored papers 3

Sharon E Plon

Baylor College of Medicine

Co-authored papers 3