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Journal Article
Srinivasan D
,
Erus G
,
Doshi J
,
Wolk DA
,
Shou H
,
Habes M
,
Davatzikos C
. 2020.
A comparison of Freesurfer and multi-atlas MUSE for brain anatomy segmentation: Findings about size and age bias, and inter-scanner stability in multi-site aging studies.
.
Neuroimage. 223:117248.
PubMed
Kuksa PP
,
Amlie-Wolf A
,
Katanić Ž
,
Valladares O
,
San Wang L-
,
Leung YYee
. 2019.
DASHR 2.0: integrated database of human small non-coding RNA genes and mature products.
.
Bioinformatics. 35(6):1033-1039.
PubMed
Kunji K
,
Ullah E
,
Nato AQ
,
Wijsman EM
,
Saad M
. 2018.
GIGI-Quick: a fast approach to impute missing genotypes in genome-wide association family data.
.
Bioinformatics. 34(9):1591-1593.
PubMed
Wheeler NR
,
Benchek P
,
Kunkle BW
,
Hamilton-Nelson KL
,
Warfe M
,
Fondran JR
,
Haines JL
,
Bush WS
. 2020.
Hadoop and PySpark for reproducibility and scalability of genomic sequencing studies.
.
Pac Symp Biocomput. 25:523-534.
PubMed
Amlie-Wolf A
,
Tang M
,
Mlynarski EE
,
Kuksa PP
,
Valladares O
,
Katanić Ž
,
Tsuang D
,
Brown CD
,
Schellenberg GD
,
San Wang L-
. 2018.
INFERNO: inferring the molecular mechanisms of noncoding genetic variants.
.
Nucleic Acids Res. 46(17):8740-8753.
PubMed
Zhou Z
,
Wang W
,
San Wang L-
,
Zhang NRuonan
. 2018.
Integrative DNA copy number detection and genotyping from sequencing and array-based platforms.
.
Bioinformatics. 34(14):2349-2355.
PubMed
Butkiewicz M
,
Haines JL
,
Bush WS
. 2017.
Introducing COCOS: codon consequence scanner for annotating reading frame changes induced by stop-lost and frame shift variants.
.
Bioinformatics. 33(10):1561-1562.
PubMed
Bush WS
,
Wheeler N
,
Beaulieu-Jones B
,
Darabos C
. 2020.
Packaging Biocomputing Software to Maximize Distribution and Reuse.
.
Pac Symp Biocomput. 25:739-742.
PubMed
Kuksa PP
,
Lee C-Y
,
Amlie-Wolf A
,
Gangadharan P
,
Mlynarski EE
,
Chou Y-F
,
Lin H-J
,
Issen H
,
Greenfest-Allen E
,
Valladares O
et al.
. 2020.
SparkINFERNO: a scalable high-throughput pipeline for inferring molecular mechanisms of non-coding genetic variants.
.
Bioinformatics. 36(12):3879-3881.
PubMed
Amlie-Wolf A
,
Kuksa PP
,
Lee C-Y
,
Mlynarski E
,
Leung YYee
,
San Wang L-
. 2021.
Using INFERNO to Infer the Molecular Mechanisms Underlying Noncoding Genetic Associations.
.
Methods Mol Biol. 2254:73-91.
PubMed
Lyon MS
,
Andrews SJ
,
Elsworth B
,
Gaunt TR
,
Hemani G
,
Marcora E
. 2021.
The variant call format provides efficient and robust storage of GWAS summary statistics.
.
Genome Biol. 22(1):32.
PubMed
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