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PoweREST: Statistical Power Estimation for Spatial Transcriptomics Experiments to Detect Differentially Expressed Genes Between Two Conditions
Date: 1 September 2024 PMID: PMC11384012 Category: N/A Authors: Lan Shui, Anirban Maitra, Ying Yuan, Ken Lau, Harsimran Kaur, Liang Li,...
bgtaylor1
Nov 22, 20242 min read
Consensus tissue domain detection in spatial omics data using multiplex image labeling with regional morphology (MILWRM)
Date: 30 October 2024 PMID: PMC11525554 Category: N/A Authors: Harsimran Kaur, Cody N Heiser, Eliot T McKinley, Lissa Ventura-Antunes,...
bgtaylor1
Nov 22, 20242 min read
Accurate identification of locally aneuploid cells by incorporating cytogenetic information in single cell data analysis
Date: 15 October 2024 PMID: N/A Category: N/A Authors: Ziyi Li, Ruoxing Li, Irene Ganan-Gomez, Hussein A. Abbas, Guillermo Garcia-Manero...
bgtaylor1
Nov 22, 20242 min read
EVPsort: An Atlas of Small ncRNA Profiling and Sorting in Extracellular Vesicles and Particles
Date: 1 September 2024 PMID: PMC11574917 Category: N/A Authors: Hua-Chang Chen, Jing Wang, Robert J Coffey, James G Patton, Alissa M...
bgtaylor1
Nov 22, 20241 min read
Progressive Spreading of DNA Methylation in the GSTP1 Promoter CpG Island across Transitions from Precursors to Invasive Prostate Cancer
Date: 1 August 2023 PMID: PMC10529302 Category: N/A Authors: Harshath Gupta, Hitoshi Inoue, Yasutomo Nakai, Masashi Nakayama, Tracy...
bgtaylor1
Nov 22, 20242 min read
A distribution-free and analytic method for power and sample size calculation in single-cell differential expression
Date: 4 September 2024 PMID: N/A Category: N/A Authors: Chih-Yuan Hsu, Qi Liu, Yu Shyr Abstract: Motivation Differential expression...
bgtaylor1
Nov 22, 20242 min read
FindAdapt: A python package for fast and accurate adapter detection in small RNA sequencing
Date: 22 January 2024 PMID: PMC10833567 Category: N/A Authors: Hua-Chang Chen, Jing Wang, Yu Shyr, Qi Liu Abstract: Adapter trimming...
bgtaylor1
Nov 22, 20241 min read
aKNNO: single-cell and spatial transcriptomics clustering with an optimized adaptive k-nearest neighbor graph
Date: 1 August 2024 PMID: PMC11293182 Category: N/A Authors: Jia Li, Yu Shyr, Qi Liu Abstract: Typical clustering methods for...
bgtaylor1
Nov 22, 20241 min read
Natural History of Colorectal Polyps Undergoing Longitudinal in Vivo CT Colonography Surveillance
Date: January 2024 PMID: PMC10831482 Category: N/A Authors: B Dustin Pooler, David H Kim, Kristina A Matkowskyj, Michael A Newton,...
bgtaylor1
Nov 22, 20242 min read
Mapping the core senescence phenotype of primary human colon fibroblasts
Date: 21 February 2024 PMID: PMC10929841 Category: N/A Authors: Namita Ganesh Hattangady, Kelly Carter, Brett Maroni-Rana, Ting Wang,...
bgtaylor1
Nov 22, 20242 min read
Colorectal Cancer Is Associated with the Presence of Cancer Driver Mutations in Normal Colon
Date: 15 April 2022 PMID: PMC9022358 Category: N/A Authors: Julia Matas, Brendan Kohrn, Jeanne Fredrickson, Kelly Carter, Ming Yu, Ting...
bgtaylor1
Nov 22, 20242 min read
Single-cell and Spatial Transcriptomics Clustering with an Optimized Adaptive K-Nearest Neighbor Graph
Date: 17 October 2023 PMID: PMC10614787 Category: N/A Authors: Jia Li, Yu Shyr, Qi Liu Abstract: Single-cell and spatial...
bgtaylor1
Nov 22, 20241 min read
Systematic Assessment of Small RNA Profiling in Human Extracellular Vesicles
Date: 30 June 2023 PMID: PMC10340377 Category: N/A Authors: Jing Wang, Hua-Chang Chen, Quanhu Sheng, T Renee Dawson, Robert J Coffey,...
bgtaylor1
Nov 22, 20242 min read
mxfda: a comprehensive toolkit for functional data analysis of single-cell spatial data
Date: 13 November 2024 PMID: 39552929 Category: N/A Authors: Julia Wrobel, Alex C Soupir, Mitchell T Hayes, Lauren C Peres, Thao Vu,...
bgtaylor1
Nov 22, 20241 min read
scDemultiplex: An iterative beta-binomial model-based method for accurate demultiplexing with hashtag oligos
Date: 19 August 2023 PMID: PMC10469060 Category: N/A Authors: Li-Ching Huang, Lindsey K Stolze, Hua-Chang Chen, Alexander Gelbard, Yu...
bgtaylor1
Nov 22, 20241 min read
Elevated EVL Methylation Level in the Normal Colon Mucosa Is a Potential Risk Biomarker for Developing Recurrent Adenomas
Date: 1 September 2023 PMID: PMC10529338 Category: N/A Authors: Ming Yu, Kelly T Carter, Kelsey K Baker, Mary W Redman, Ting Wang, Kathy...
bgtaylor1
Nov 22, 20242 min read
A contamination focused approach for optimizing the single-cell RNA-seq experiment
Date: 29 June 2023 PMID: PMC10366499 Category: N/A Authors: Deronisha Arceneaux, Zhengyi Chen, Alan J Simmons, Cody N Heiser, Austin N...
bgtaylor1
Nov 22, 20242 min read
Digitize your Biology! Modeling multicellular systems through interpretable cell behavior
Date: 5 November 2023 PMID: PMC10516032 Category: N/A Authors: Jeanette A I Johnson, Genevieve L Stein-O'Brien, Max Booth, Randy Heiland,...
bgtaylor1
Nov 22, 20242 min read
Regional analysis to delineate intrasample heterogeneity with RegionalST
Date: 24 March 2024 PMID: PMC11026142 Category: N/A Authors: Yue Lyu, Chong Wu, Wei Sun, Ziyi Li Abstract: Motivation: Spatial...
bgtaylor1
Nov 22, 20242 min read
Temporal recording of mammalian development and precancer
Date: 6 October 2024 PMID: PMC11525190 Category: N/A Authors: Mirazul Islam, Yilin Yang, Alan J Simmons, Vishal M Shah, Krushna Pavan...
bgtaylor1
Nov 22, 20242 min read
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