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

Sequence and functional analyses of Haemophilus spp. genomic islands

by Adegbola, R., Bentley, S., Crook, D.W, Dimopoulou, I.D, Elamin, A.R.E, Erwin, A., Ferguson, D.J.P, Harding, R.M, Harrison, A., Hood, D.W, Juhas, M., Mansfield, L., Mohd-Zain, Z., Munson, R.S, Power, P.M, Smith, A.

Lantern: an integrative repository of functional annotations for lncRNAs in the human genome

by Daulatabad, S.V, Janga, S.C, Srivastava, R.
Published 2021

Genome-wide association study and functional validation implicates JADE1 in tauopathy

by Andrews, S.J, Attems, J., Ayalon, G., Beach, T.G, Bhangale, T., Borukov, V.Y, Bowles, K.R, Cairns, N.J, Casella, A., Cherry, J.D, Cobos, I., Cohen, H.T, Corrada, M.M, Cortes, E.P, Crary, J.F, Dangoor, D.K, de Paiva Lopes, K., Dickson, D.W, Farrell, K., Fischer, P., Flanagan, M.E, Franklin, E.E, Frosch, M.P, Frost, B., Fulton-Howard, B., Gandy, S., Gearing, M., Glass, J., Goate, A., Gonzalez, E.M, Graham, R.R, Han, N., Haroutunian, V., Hefti, M.M, Hof, P.R, Humphrey, J., Hunkapiller, J., Hyman, B.T, Iida, M.A, Kapoor, M., Kawas, C.H, Keene, C.D, Kim, S.H, Kofler, J., Kovacs, G.G, Latimer, C.S, Lee, E.B, Lutz, M.I, Mao, Q., Marcora, E., McKee, A.C, McMillan, C.T, Mesulam, M.-M, Metcalf, J., Montine, T.J, Murray, M.E, Nelson, P.T, Novikova, G., Otero-Garcia, M., Perrin, R.J, Pham, T., Poon, W., Purohit, D.P, Raj, T., Renton, A.E, Richardson, T.E, Rissman, R.A, Salehi, B., Sano, M., Schneider, J.A, Shuldberg, S., Sissoko, C.T, Stein, T.D, Tang, W., Teich, A.F, Trojanowski, J.Q, Troncoso, J.C, Udine, E., Vialle, R.A, Vonsattel, J.-P, Walker, J.M, Walsh, H., Weintraub, S., White III, C.L, Whitney, K., Wolk, D.A, Woltjer, R.L, Wong, G., Yu, L.
Published 2022

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

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

Functional Genomic Identification of Predictors of Sensitivity and Mechanisms of Resistance to Multivalent Second-Generation TRAIL-R2 Agonists

by Barthorpe, S., Bateson, J., Chatzipli, A., Ciznadija, D., Crawford, N., Gallagher, L., Garnett, M., Grinkevitch, V., Iyer, V., Lees, A., Longley, D.B, McAllister, K., McCann, C., McDade, S.S, McDermott, U., Michaut, M., Prehn, J., Price, S., Sloma, I., Tice, D.A, Wappett, M., Wesa, A., Wessels, L., Young, J.
Published 2022

PangenomeNet: a pan-genome-based network reveals functional modules on antimicrobial resistome for Escherichia coli strains

by Her, H.-L, Lin, P.-T, Wu, Y.-W
Published 2021

Genome assembly of the JD17 soybean provides a new reference genome for comparative genomics

by Chen, N., Chen, S., Fan, W., Kudrna, D., Lee, S., Lei, L., Liu, J., Liu, M., Wang, X., Wing, R.A, Wu, H., Xu, Q., Yang, C., Yi, X., Zhang, B., Zhang, J., Zhang, M.
Published 2022

New data and collaborations at the Saccharomyces Genome Database: updated reference genome, alleles, and the Alliance of Genome Resources

by Aleksander, S., Alexander, M., Cherry, J.M, Douglass, E., Engel, S.R, Karra, K., Miyasato, S.R, Nash, R.S, Simison, M., Skrzypek, M.S, Weng, S., Wong, E.D
Published 2022

Evolution of binding preferences among whole-genome duplicated transcription factors

by Barkai, N., Gera, T., Jonas, F., More, R.
Published 2022

Genome-wide identification of CK gene family suggests functional expression pattern against Cd2+ stress in Gossypium hirsutum L.

by Chen, C., Chen, X., Fan, Y., Guo, L., Han, M., Lu, X., Malik, W.A, Rui, C., Sun, L., Wang, D., Wang, J., Wang, J., Wang, Q., Wang, S., Xu, N., Ye, W., Zhang, H., Zhang, Y., Zhao, L.
Published 2021

Harmonizing model organism data in the Alliance of Genome Resources

by Alliance of Genome Resources Consortium
Published 2022

Finding functional associations between prokaryotic virus orthologous groups: a proof of concept

by Dutilh, B.E, Pappas, N.
Published 2021

DELEAT: gene essentiality prediction and deletion design for bacterial genome reduction

by Garrote-Sánchez, E., Gil, R., Solana, J.
Published 2021

Highly Selective, CRISPR/Cas9-Mediated Isolation of Genes and Genomic Loci from Complex Genomes by TAR Cloning in Yeast

by Kim, J.-H, Kouprina, N., Larionov, V.
Published 2021

From a genome assembly to full regulatory network prediction: the case study of Rhodotorula toruloides putative Haa1-regulon

by Antunes, M., Godinho, C.P, Monteiro, P.T, Oliveira, J., Sá-Correia, I., Teixeira, M.C
Published 2021

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

Scale-Free Spanning Trees and Their Application in Genomic Epidemiology

by Kaibel, V., Kukharenko, K., Orlovich, Y., Skums, P.
Published 2021

Human Papillomavirus Genome Integration and Head and Neck Cancer

by Carey, T.E, Pinatti, L.M, Walline, H.M
Published 2018

Comparison of metabolic states using genome-scale metabolic models

by Adriaens, M.E, Arts, I.C.W, Breuer, M., Evelo, C.T, Kutmon, M., Sarathy, C.
Published 2021