Exploring Allele Specific Expression from RNA-Seq Data Using Logistic Mixed Effects Regression

Line Skotte , Melissa Sayres , Rasmus Nielsen
HUMAN HEREDITY 76 ( 2) 93 -93

2013
High-throughput sequencing of SARS-CoV-2 in wastewater provides insights into circulating variants

Rolf U Halden , Arvind Varsani , Matthew Scotch , Philip Brown
medRxiv

81
2021
Discovery of a New TLR Gene and Gene Expansion Event through Improved Desert Tortoise Genome Assembly with Chromosome-Scale Scaffolds.

Greer A Dolby , Matheo Morales , Timothy H Webster , Dale F DeNardo
Genome Biology and Evolution 12 ( 2) 3917 -3925

1
2020
Identifying, understanding, and correcting technical artifacts on the sex chromosomes in next-generation sequencing data.

Timothy H Webster , Madeline Couse , Bruno M Grande , Eric Karlins
GigaScience 8 ( 7)

57
2019
High GILT Expression Is Associated with Improved Survival in Metastatic Melanoma Patients Treated with Immune Checkpoint Inhibition

Anngela C Adams , Elizabeth S Borden , Anne M Macy , Nick Thomson
Cancers 14 ( 9) 2200

2022
Multiregion transcriptomic profiling of the primate brain reveals signatures of aging and the social environment

Kenneth L Chiou , Alex R DeCasien , Katherina P Rees , Camille Testard
Nature neuroscience 25 ( 12) 1714 -1723

2
2022
The role of Neanderthal introgression in liver cancer

Angela M Taravella Oill , Kenneth H Buetow , Melissa A Wilson
BMC Medical Genomics 15 ( 1) 255

2022
Lack of dosage balance and incomplete dosage compensation in the ZZ/ZW Gila monster (Heloderma suspectum) revealed by de novo genome assembly

Timothy H Webster , Annika Vannan , Brendan J Pinto , Grant Denbrock
Genome biology and evolution 16 ( 3) evae018 -evae018

1
2024
The complete sequence and comparative analysis of ape sex chromosomes

Kateryna D Makova , Brandon D Pickett , Robert S Harris , Gabrielle A Hartley
Nature 1 -11

10
2024
Distinct sets of molecular characteristics define tumor-rejecting neoantigens

Anngela C Adams , Anne M Macy , Elizabeth S Borden , Lauren M Herrmann
bioRxiv 2024.02. 13.579546 -2024.02. 13.579546

2024
An approach for prioritizing candidate genes from RNA-seq using preclinical cocaine self-administration datasets as a test case

Annika Vannan , Michela Dell’Orco , Nora I Perrone-Bizzozero , Janet L Neisewander
G3: Genes, Genomes, Genetics 13 ( 10) jkad143 -jkad143

2023
An approach for prioritizing candidate genes from RNA-seq using preclinical cocaine craving datasets as a test case

Annika Vannan , Michela Dell'Orco , Nora I Perrone-Bizzozero , Janet L Neisewander

2022
Concerning the eXclusion in human genomics: the choice of sex chromosome representation in the human genome drastically affects the number of identified variants

Brendan J Pinto , Brian O’Connor , Michael C Schatz , Samantha Zarate
G3: Genes, Genomes, Genetics 13 ( 10) jkad169 -jkad169

3
2023
Quality control and analytic best practices for testing genetic models of sex differences in large populations

Ekaterina A Khramtsova , Melissa A Wilson , Joanna Martin , Stacey J Winham
Cell 186 ( 10) 2044 -2061

13
2023
Toward a deeper understanding of gene-by-sex interaction models

Ekaterina A Khramtsova , Stacey J Winham , Lea K Davis , Barbara E Stranger
Cell Genomics 3 ( 5)

2
2023
Evolutionary and biomedical implications of sex differences in the primate brain transcriptome

Alex R DeCasien , Kenneth L Chiou , Camille Testard , Arianne Mercer
bioRxiv 2022.10. 03.510711 -2022.10. 03.510711

2
2022
Genomic skimming and nanopore sequencing uncover cryptic hybridization in one of world’s most threatened primates

Joanna Malukiewicz , Reed A Cartwright , Jorge A Dergam , Claudia S Igayara
Scientific reports 11 ( 1) 17279 -17279

16
2021
A lizard is never late: squamate genomics as a recent catalyst for understanding sex chromosome and microchromosome evolution

Brendan J Pinto , Tony Gamble , Chase H Smith , Melissa A Wilson
Journal of Heredity 114 ( 5) 445 -458

9
2023