Work with R. Alan Harris, Ph.D. | NotedSource
My interests broadly lie in the fields of bioinformatics
and genomics. My particular areas of emphasis are primate
comparative genomics in the context of both evolutionary
mechanisms and applications to developing nonhuman primate
models of human diseases.
https://cv.notedsource.io/me/ralanharris
R. Alan Harris, Ph.D.
Assistant Professor in the Human Genome Sequencing Center at Baylor College of Medicine
Houston, Texas, United States of
America
Research Expertise
Genomics
Epigenomics
Bioinformatics
Primate Comparative Analysis
Evolution
Biotechnology
Molecular Medicine
Genetics
Molecular Biology
Cancer Research
Ecology, Evolution, Behavior and Systematics
Obstetrics and Gynecology
Cell Biology
Reproductive Medicine
Gastroenterology
Animal Science and Zoology
Computer Science Applications
Physiology
Pediatrics, Perinatology and Child Health
About
My interests broadly lie in the fields of
bioinformatics and genomics. My particular
areas of emphasis are primate comparative
genomics in the context of both evolutionary
mechanisms and applications to developing
nonhuman primate models of human diseases.
Legacy Map
Full ViewPublications
Comparison of sequencing-based methods to
profile DNA methylation and identification
of monoallelic epigenetic modifications
Nature Biotechnology
2010
Functional annotation of the human brain
methylome identifies tissue-specific
epigenetic variation across brain and
blood
Genome Biology
2012
The International Human Epigenome
Consortium: A Blueprint for Scientific
Collaboration and Discovery
Cell
2016
Season of Conception in Rural Gambia
Affects DNA Methylation at Putative Human
Metastable Epialleles
PLoS Genetics
2010
High-fat maternal diet during pregnancy
persistently alters the offspring
microbiome in a primate model
Nature Communications
2014
Gibbon genome and the fast karyotype
evolution of small apes
Nature
2014
The placental membrane microbiome is
altered among subjects with spontaneous
preterm birth with and without
chorioamnionitis
American Journal of Obstetrics and
Gynecology
2016
Maternal tobacco use modestly alters
correlated epigenome-wide placental DNA
methylation and gene expression
Epigenetics
2011
Proinflammatory Role for let-7 MicroRNAS
in Experimental Asthma
Journal of Biological Chemistry
2010
The common marmoset genome provides
insight into primate biology and evolution
Nature Genetics
2014
Transcriptome Profiling of microRNA by
Next-Gen Deep Sequencing Reveals Known and
Novel miRNA Species in the Lipid Fraction
of Human Breast Milk
PLoS ONE
2013
GASZ Is Essential for Male Meiosis and
Suppression of Retrotransposon Expression
in the Male Germline
PLoS Genetics
2009
A maternal high‐fat diet modulates fetal
SIRT1 histone and protein deacetylase
activity in nonhuman primates
The FASEB Journal
2012
MicroRNA transcriptome in the newborn
mouse ovaries determined by massive
parallel sequencing
MHR: Basic science of reproductive
medicine
2010
Maternal methyl-donor supplementation
induces prolonged murine offspring colitis
susceptibility in association with mucosal
epigenetic and microbiomic changes
Human Molecular Genetics
2011
A sequence-level map of chromosomal
breakpoints in the MCF-7 breast cancer
cell line yields insights into the
evolution of a cancer genome
Genome Research
2008
Colonic mucosal DNA methylation, immune
response, and microbiome patterns in
Toll‐like receptor 2‐knockout mice
The FASEB Journal
2011
The comparative genomics and complex
population history of
Papio
baboons
Science Advances
2019
DNA Methylation Profiling in Inflammatory
Bowel Disease Provides New Insights into
Disease Pathogenesis
Journal of Crohn's and Colitis
2015
Identification of Common Genetic Variants
Influencing Spontaneous Dizygotic Twinning
and Female Fertility
The American Journal of Human
Genetics
2016
Primary Human Placental Trophoblasts are
Permissive for Zika Virus (ZIKV)
Replication
Scientific Reports
2017
Intermediate DNA methylation is a
conserved signature of genome regulation
Nature Communications
2015
Evolutionary Breakpoints in the Gibbon
Suggest Association between Cytosine
Methylation and Karyotype Evolution
PLoS Genetics
2009
Sequence diversity analyses of an improved
rhesus macaque genome enhance its
biomedical utility
Science
2020
Genomic Hypomethylation in the Human
Germline Associates with Selective
Structural Mutability in the Human Genome
PLoS Genetics
2012
The population genomics of rhesus macaques
(Macaca mulatta) based on
whole-genome sequences
Genome Research
2016
Genome-wide peripheral blood leukocyte DNA
methylation microarrays identified a
single association with inflammatory bowel
diseases
Inflammatory Bowel Diseases
2012
Reproductive Longevity Predicts Mutation
Rates in Primates
Current Biology
2018
Serial Fecal Microbiota Transplantation
Alters Mucosal Gene Expression in
Pediatric Ulcerative Colitis
American Journal of
Gastroenterology
2015
Epigenomic footprints across 111 reference
epigenomes reveal tissue-specific
epigenetic regulation of lincRNAs
Nature Communications
2015
Allele-specific epigenome maps reveal
sequence-dependent stochastic switching at
regulatory loci
Science
2018
The manifold faces of DNA
Nature
2006
In utero exposure to a maternal high-fat
diet alters the epigenetic histone code in
a murine model
American Journal of Obstetrics and
Gynecology
2014
A nonhuman primate model of inherited
retinal disease
Journal of Clinical Investigation
2019
Evolutionary genetics and implications of
small size and twinning in callitrichine
primates
Proceedings of the National Academy of
Sciences
2013
Early Origins of Adult Disease: Approaches
for Investigating the Programmable
Epigenome in Humans, Nonhuman Primates,
and Rodents
ILAR Journal
2012
Understanding the development of human
bladder cancer by using a whole-organ
genomic mapping strategy
Laboratory Investigation
2008
DNA methylation-associated colonic mucosal
immune and defense responses in
treatment-naïve pediatric ulcerative
colitis
Epigenetics
2014
Comparison and quantitative verification
of mapping algorithms for whole-genome
bisulfite sequencing
Nucleic Acids Research
2014
Sidelines
Nature
2006
Primate phylogenomics uncovers multiple
rapid radiations and ancient interspecific
introgression
PLOS Biology
2020
Sooty mangabey genome sequence provides
insight into AIDS resistance in a natural
SIV host
Nature
2018
Human metastable epiallele candidates link
to common disorders
Epigenetics
2013
Centromere Remodeling in Hoolock
leuconedys (Hylobatidae) by a New
Transposable Element Unique to the Gibbons
Genome Biology and Evolution
2012
Pash 3.0: A versatile software package for
read mapping and integrative analysis of
genomic and epigenomic variation using
massively parallel DNA sequencing
BMC Bioinformatics
2010
A High-Resolution Map of Synteny
Disruptions in Gibbon and Human Genomes
PLoS Genetics
2005
Maternal High-Fat Diet Modulates the Fetal
Thyroid Axis and Thyroid Gene Expression
in a Nonhuman Primate Model
Molecular Endocrinology
2012
Hybrid de novo genome assembly and
centromere characterization of the gray
mouse lemur (Microcebus murinus)
BMC Biology
2017
Rare penetrant mutations confer severe
risk of common diseases
Science
2023
A global catalog of whole-genome diversity
from 233 primate species
Science
2023
Paternal age in rhesus macaques is
positively associated with germline
mutation accumulation but not with
measures of offspring sociability
Genome Research
2020
Human-Specific Changes of Genome Structure
Detected by Genomic Triangulation
Science
2007
Characterization of single-nucleotide
variation in Indian-origin rhesus macaques
(Macaca mulatta)
BMC Genomics
2011
Genome‐wide array‐based copy number
profiling in human placentas from
unexplained stillbirths
Prenatal Diagnosis
2011
Genomic Variants Associated with
Resistance to High Fat Diet Induced
Obesity in a Primate Model
Scientific Reports
2016
Neuropeptide S receptor 1 is a nonhormonal
treatment target in endometriosis
Science Translational Medicine
2021
Comparative Genomic Analyses of the Human
NPHP1 Locus Reveal Complex Genomic
Architecture and Its Regional Evolution in
Primates
PLOS Genetics
2015
Maternal diet: a modulator for epigenomic
regulation during development in nonhuman
primates and humans
International Journal of Obesity
Supplements
2012
Colonic Mucosal Epigenome and Microbiome
Development in Children and Adolescents
Journal of Immunology Research
2016
De novo Mutations in Domestic Cat are
Consistent with an Effect of Reproductive
Longevity on Both the Rate and Spectrum of
Mutations
Molecular Biology and Evolution
2022
Designing new microsatellite markers for
linkage and population genetic analyses in
rhesus macaques and other nonhuman
primates
Genomics
2006
Loss of n-6 fatty acid induced pediatric
obesity protects against acute murine
colitis
The FASEB Journal
2015
Mismatch repair gene mutations lead to
lynch syndrome colorectal cancer in rhesus
macaques
Genes & Cancer
2018
Improved full-length killer cell
immunoglobulin-like receptor transcript
discovery in Mauritian cynomolgus macaques
Immunogenetics
2017
Pooled genomic indexing of rhesus macaque
Genome Research
2005
Infant Inhibited Temperament in Primates
Predicts Adult Behavior, is Heritable, and
is Associated with Anxiety-Relevant
Genetic Variation
Unknown Venue
2020
Unusual sequence characteristics of human
chromosome 19 are conserved across 11
nonhuman primates
BMC Evolutionary Biology
2020
The Human Genome
Medical and Health Genomics
2016
Role of Maternal Serum Alpha-Fetoprotein
and Ultrasonography in Contemporary
Detection of Spina Bifida
American Journal of Perinatology
2015
MHC genotyping from rhesus macaque exome
sequences
Immunogenetics
2019
Heritability of social behavioral
phenotypes and preliminary associations
with autism spectrum disorder risk genes
in rhesus macaques: A whole exome
sequencing study
Autism Research
2022
Comparative genomic analysis of sifakas (
Propithecus
) reveals selection for folivory and high
heterozygosity despite endangered status
Science Advances
2021
Origins and Long-Term Patterns of
Copy-Number Variation in Rhesus Macaques
Molecular Biology and Evolution
2020
Polymorphic microsatellite loci for the
common marmoset (Callithrix jacchus) designed using a cost‐ and
time‐efficient method
American Journal of Primatology
2008
Genome-wide coancestry reveals details of
ancient and recent male-driven
reticulation in baboons
Science
2023
Loci on chromosome 12q13.2 encompassing
ERBB3, PA2G4 and RAB5B are associated with
polycystic ovary syndrome
Gene
2023
Structural and transcriptomic response to
antenatal corticosteroids in an Erk3-null
mouse model of respiratory distress
American Journal of Obstetrics and
Gynecology
2016
Comparative molecular genomic analyses of
a spontaneous rhesus macaque model of
mismatch repair-deficient colorectal
cancer
PLOS Genetics
2022
Population-Based Estimation of the Preterm
Birth Rate in Lilongwe, Malawi: Making
Every Birth Count
American Journal of Perinatology
Reports
2020
Variation in predicted COVID-19 risk among
lemurs and lorises
Unknown Venue
2021
Copy number variants and fixed
duplications among 198 rhesus macaques
(Macaca mulatta)
PLOS Genetics
2020
Examining the Effects of Hibernation on
Germline Mutation Rates in Grizzly Bears
Genome Biology and Evolution
2022
Reduced meiotic recombination in rhesus
macaques and the origin of the human
recombination landscape
PLOS ONE
2020
Identification of constrained sequence
elements across 239 primate genomes
Nature
2023
Pedigree reconstruction and distant
pairwise relatedness estimation from
genome sequence data: A demonstration in a
population of rhesus macaques (Macaca mulatta)
Molecular Ecology Resources
2021
Construction of a new chromosome-scale,
long-read reference genome assembly for
the Syrian hamster,Mesocricetus auratus
GigaScience
2022
Population-Based Estimation of Dental
Caries and Periodontal Disease Rates of
Gravid and Recently Postpartum Women in
Lilongwe, Malawi
American Journal of Perinatology
Reports
2019
Spontaneous Spongiform Brainstem
Degeneration in a Young Mouse Lemur (Microcebus murinus) with Conspicuous Behavioral, Motor,
Growth, and Ocular Pathologies
Comparative Medicine
2018
P1009 Sheep reference genome sequence
updates: Texel improvements and
Rambouillet progress
Journal of Animal Science
2016
Tu1192 Clinical, Epigenetic, and
Metagenomic Responses to Serial Fecal
Microbiome Transplants in Pediatric
Ulcerative Colitis
Gastroenterology
2014
Confounding by Repetitive Elements and CpG
Islands Does Not Explain the Association
between Hypomethylation and Genomic
Instability
PLoS Genetics
2013
A Reference Genome Assembly and Initial
Polymorphism Data for Aotus nancymaae
Developments in Primatology: Progress
and Prospects
2023
Education
Baylor College of Medicine
Ph.D., Molecular and Human Genetics / December, 2007
Houston, Texas, United States of
America
Kent State University
M.A., Biological Anthropology / May, 1996
Kent, Ohio, United States of
America
Florida State University
B.A., Anhropology / August, 1990
Tallahassee, Florida, United States
of America
Experience
Baylor College of Medicine
Assistant Professor / — January, 2009
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