A functional analysis of omic network embedding spaces reveals key altered functions in cancer

by Ceddia, G., Doria-Belenguer, S., Malod-Dognin, N., Pržulj, N., Xenos, A.
Published 2023

MicrobeAnnotator: a user-friendly, comprehensive functional annotation pipeline for microbial genomes

by Conrad, R.E, Konstantinidis, K.T, Ruiz-Perez, C.A
Published 2021

TAGOPSIN: collating taxa-specific gene and protein functional and structural information

by Bundhoo, E., Ghoorah, A.W, Jaufeerally-Fakim, Y.
Published 2021

bootRanges: flexible generation of null sets of genomic ranges for hypothesis testing

by Davis, E.S, Dozmorov, M.G, Lee, S., Love, M.I, Mu, W., Phanstiel, D.H
Published 2023

HapSolo: an optimization approach for removing secondary haplotigs during diploid genome assembly and scaffolding

by Gaut, B.S, Long, A.D, Solares, E.A, Tao, Y.
Published 2021

airpg: automatically accessing the inverted repeats of archived plastid genomes

by Gruenstaeudl, M., Mehl, T.
Published 2021

Exploring the Genomic Landscape of Cancer Patient Cohorts with GenVisR

by Campbell, K.M, Cotto, K.C, Griffith, M., Griffith, O.L, Skidmore, Z.L
Published 2021

DIAMOND+MEGAN: Fast and Easy Taxonomic and Functional Analysis of Short and Long Microbiome Sequences

by Bağcı, C., Huson, D.H, Patz, S.
Published 2021

digIS: towards detecting distant and putative novel insertion sequence elements in prokaryotic genomes

by Martínek, T., Puterová, J.
Published 2021

qtlXplorer: an online systems genetics browser in the Eucalyptus Genome Integrative Explorer (EucGenIE)

by Christie, N., Delhomme, N., Mähler, N., Mannapperuma, C., Mizrachi, E., Myburg, A.A, Naidoo, S., Ployet, R., Street, N.R, van der Merwe, K.
Published 2021

Transcript annotation tool (TransAT): an R package for retrieving annotations for transcript-specific genetic variants

by Chattopadhyay, A., Lu, T.-P, Shih, C.-Y, Tien, Y.-W, Wu, C.-H
Published 2021

MOET: a web-based gene set enrichment tool at the Rat Genome Database for multiontology and multispecies analyses

by Brodie, K., De Pons, J.L, Demos, W.M, Dwinell, M.R, Gibson, A.C, Hayman, G.T, Hill, M.L, Hoffman, M.J, Kaldunski, M.L, Kwitek, A.E, Lamers, L., Laulederkind, S.J.F, Lin, C.-W, Nalabolu, H.S, Smith, J.R, Thorat, K., Thota, J., Tutaj, M., Tutaj, M.A, Vedi, M., Wang, S.-J, Zacher, S.
Published 2022

gJLS2: an R package for generalized joint location and scale analysis in X-inclusive genome-wide association studies

by Deng, W.Q, Sun, L.
Published 2022

CpGmotifs: a tool to discover DNA motifs associated to CpG methylation events

by Federico, A., Greco, D., Scala, G.
Published 2021

Correlation AnalyzeR: functional predictions from gene co-expression correlations

by Bishop, A.J.R, Miller, H.E
Published 2021

IUPACpal: efficient identification of inverted repeats in IUPAC-encoded DNA sequences

by Alamro, H., Alzamel, M., Iliopoulos, C.S, Pissis, S.P, Watts, S.
Published 2021

lncEvo: automated identification and conservation study of long noncoding RNAs

by Bryzghalov, O., Makałowska, I., Szcześniak, M.W
Published 2021

mixIndependR: a R package for statistical independence testing of loci in database of multi-locus genotypes

by Planz, J., Song, B., Woerner, A.E
Published 2021

RNA editing regulates lncRNA splicing in human early embryo development

by Ma, X., Qiu, J., Yan, J., Zeng, F.
Published 2021

Single-Cell RNA Sequencing Analysis of the Drosophila Larval Ventral Cord

by Brody, T., Choudhury, S.D, Coon, S.L, Iben, J., Nguyen, T.H, Serpe, M., Vicidomini, R.
Published 2021