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

Reference-agnostic representation and visualization of pan-genomes

by Liang, Q., Lonardi, S.
Published 2021

The 4D Nucleome Data Portal as a resource for searching and visualizing curated nucleomics data

by Abdennur, N., Alver, B.H, Bakker, C., Balashov, A.K, Çamoğlu, U., Cosolo, A., Ehmsen, S.R, Gehlenborg, N., Imakaev, M., Johnson, J., Kerpedjiev, P., Kırlı, K., Lee, S., Mirny, L.A, Öztürk, S.U, Park, P.J, Pitman, K.M, Reiff, S.B, Ronchetti, W., Schroeder, A.J, Veit, A.D, Vitzthum, C.
Published 2022

A fast machine-learning-guided primer design pipeline for selective whole genome amplification

by Brisson, D., Dwivedi-Yu, J.A, Mitchell, M.W, Oppler, Z.J, Song, Y.S
Published 2023

Evidence of multiple genome duplication events in Mytilus evolution

by Bekaert, M., Carboni, S., Corrochano-Fraile, A., Davie, A.
Published 2022

A de novo reference assembly of the yellow mangrove Ceriops zippeliana genome

by Jiumjamrassil, D., Kongkachana, W., Maknual, C., Naktang, C., Phetchawang, P., Pootakham, W., Pravinvongvuthi, T., Sonthirod, C., Tangphatsornruang, S., U-Thoomporn, S.
Published 2022

Exploring genetic variation and population structure in a threatened species, Noturus placidus, with whole-genome sequence data

by Decker, J.E, Durbin, H.J, Fenner, D., Johnson, G.S, Mhlanga-Mutangadura, T., Rowan, T.N, Schnabel, R.D, Tabor, V.M, Tribe, P., Whitacre, L.K, Wildhaber, M.L
Published 2022

Genome Sequencing and Annotation of Mycobacterium tuberculosis PR08 strain

by Fong, NY, Halim, MZA, Hock, TT, Ismail, MI, Jaafar, MM, Kek, TL, Najimudin, MNM, Nor, NM, Salleh, MZ, Shien, LL, Zainuddin, ZF
Published 2016

Genome sequencing and annotation of multidrug resistant Mycobacterium tuberculosis (MDR-TB) PR10 strain

by Halim, MZA, Ismail, MI, Jaafar, MM, Lee, LS, Najimudin, MNM, Ngeow, YF, Nor, NM, Salleh, MZ, Tang, TH, Teh, LK, Zainuddin, ZF
Published 2016

High-quality chromosome-scale de novo assembly of the Paspalum notatum ‘Flugge’ genome

by Chen, Y., Cong, L., Gong, Y., Liu, H., Ma, L., Miao, F., Song, H., Sun, J., Wang, A., Wang, Q., Wang, Z., Yan, Z., Yang, G., Yin, X.
Published 2022

Investigating Sources of Conflict in Deep Phylogenomics of Vetigastropod Snails

by Cunha, T.J, Giribet, G., Reimer, J.D
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

DFHiC: a dilated full convolution model to enhance the resolution of Hi-C data

by Li, Y., Liu, K., Wang, B., Wang, J.
Published 2023

matchRanges: generating null hypothesis genomic ranges via covariate-matched sampling

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

TrancriptomeReconstructoR: data-driven annotation of complex transcriptomes

by Ivanov, M., Marquardt, S., Sandelin, A.
Published 2021

ΔFBA-Predicting metabolic flux alterations using genome-scale metabolic models and differential transcriptomic data

by Gunawan, R., Ravi, S.
Published 2021

The genome sequence of Acinetobacter baumannii isolated from a septicemic patient in a local hospital in Malaysia

by Izwan, I, Salleh, MZ, Teh, LK
Published 2015

The Antarctic Weddell seal genome reveals evidence of selection on cardiovascular phenotype and lipid handling

by Alfoldi, J., Allen, K.N, Batten, A.J, Buys, E.S, Costa, D.P, Fitzgerald, M.L, Hindle, A.G, Hückstädt, L.A, Johnson, J., Karlsson, E.K, Lindblad-Toh, K., Noh, H.J, Schulberg, S.A, Turner-Maier, J., Zapol, W.M
Published 2022

LongStitch: high-quality genome assembly correction and scaffolding using long reads

by Birol, I., Coombe, L., Li, J.X, Lo, T., Nikolic, V., Warren, R.L, Wong, J.
Published 2021

MBS: a genome browser annotation track for high-confident microRNA binding sites in whole human transcriptome

by Arancio, W., Coronnello, C., Sciaraffa, N.
Published 2023