A metric for evaluating biological information in gene sets and its application to identify co-expressed gene clusters in PBMC

by Bennett, J., Peters, B., Pomaznoy, M., Singhania, A.
Published 2021

Engaging biological oscillators through second messenger pathways permits emergence of a robust gastric slow-wave during peristalsis

by Ahmed, M.A, Jung, R., Venugopal, S.
Published 2021

Bayesian calibration of a stochastic, multiscale agent-based model for predicting in vitro tumor growth

by Faghihi, D., Lima, E.A.B.F, Philley, R., Phillips, C.M, Virostko, J., Yang, J., Yankeelov, T.E
Published 2021

Differential contribution to gene expression prediction of histone modifications at enhancers or promoters

by Ballaré, C., Beringer, M., Blanco, E., Di Croce, L., González-Ramírez, M., Mugianesi, F., Santanach, A.
Published 2021

Atorvastatin-mediated rescue of cancer-related cognitive changes in combined anticancer therapies

by Kim, J.S, Kim, Y., Lee, J.
Published 2021

Regulation of transcription reactivation dynamics exiting mitosis

by Molina, N., Riba, A., Sarnataro, S.
Published 2021

Integrating deep learning with microfluidics for biophysical classification of sickle red blood cells adhered to laminin

by Goreke, U., Gurkan, U.A, Hill, A., Hinczewski, M., Iram, S., Praljak, N., Singh, G.
Published 2021

FiCoS: A fine-grained and coarse-grained GPU-powered deterministic simulator for biochemical networks

by Besozzi, D., Capitoli, G., Cazzaniga, P., Mauri, G., Nobile, M.S, Rundo, L., Spolaor, S., Tangherloni, A.
Published 2021

Integrative analysis of hub genes and key pathway in two subtypes of diffuse large B-cell lymphoma by bioinformatics and basic experiments

by Charwudzi, A., Hu, L., Li, Q., Meng, Y., Zhai, Z., Zhu, W.
Published 2021

Multicellular spatial model of RNA virus replication and interferon responses reveals factors controlling plaque growth dynamics

by Aponte-Serrano, J.O, Glazier, J.A, Sego, T.J, Shoemaker, J.E, Weaver, J.J.A
Published 2021

Drug perturbation gene set enrichment analysis (dpGSEA): a new transcriptomic drug screening approach

by Cameron, C.M, Cameron, M.J, Dazard, J.-E, Fang, M., Richardson, B.
Published 2021

Protein domain-based prediction of drug/ compound-target interactions and experimental validation on LIM kinases

by Atas, H., Baumann, M., Baxendale, I.R, Cetin-Atalay, R., Doǧan, T., Güzelcan, E.A, Koyas, A., Martin, M.
Published 2021

Network potential identifies therapeutic miRNA cocktails in Ewing sarcoma

by Dhawan, A., Lessnick, S.L, Pishas, K.I, Scarborough, J., Scott, J.G, Weaver, D.T, Williamson, D.
Published 2021

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

A new finding in the key prognosis-related proto-oncogene FYN in hepatocellular carcinoma based on the WGCNA hub-gene screening trategy

by Guo, G., Huang, C., Nie, Y., Wang, A., Zhou, J., Zhu, X.
Published 2022

SLC25A38 as a novel biomarker for metastasis and clinical outcome in uveal melanoma

by Chen, Q., Duan, J., Fan, Z., Luo, P., Shao, L., Tan, X., Xu, X., Zhang, L.
Published 2022

RNA editing regulates lncRNA splicing in human early embryo development

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

MATHLA: a robust framework for HLA-peptide binding prediction integrating bidirectional LSTM and multiple head attention mechanism

by Liu, X., Pan, Y., Song, Q., Wan, J., Wang, J., Wang, Y., Xu, Y., Ye, Y.
Published 2021

Identifying the sequence specificities of circRNA-binding proteins based on a capsule network architecture

by Lei, X., Wang, Z.
Published 2021

COVID19 Disease Map, a computational knowledge repository of virus–host interaction mechanisms

by Acencio, M.L, Ackerman, E.E, Aghamiri, S.S, Auffray, C., Augé, F., Babur, O., Bachman, J.A, Ballereau, S., Balling, R., Barillot, E., Bauch, A., Beckmann, J.S, Bocskei, Z., Borlinghaus, H., Börnigen, D., Brauner, B., Calzone, L., Conti, M., Coort, S., Czauderna, T., De Meulder, B., de Waard, A., Demir, E., D'Eustachio, P., Dopazo, J., Dräger, A., Dugourd, A., Ehrhart, F., Eijssen, L., Esteban-Medina, M., Evelo, C.T, Fergusson, L., Fobo, G., Fraser, R., Freeman, T.C, Frishman, G., Funahashi, A., Gawron, P., Gillespie, M.E, Glaab, E., Goble, C., Golebiewski, M., Grouès, V., Gyori, B.M, Hanspers, K., Hasenauer, J., Haw, R., Heirendt, L., Helikar, T., Hermjakob, H., Hiki, Y., Hiroi, N., Hoch, M., Hu, X., Iannuccelli, M., Jassal, B., Kitano, H., Kocakaya, E., Korcsmaros, T., Kumar Gupta, S., Kuperstein, I., Kutmon, M., Licata, L., Luna, A., Maier, D., Marchesi, S., Martens, M., Matthews, L., Mazein, A., Messina, F., Modos, D., Monraz Gómez, L.C, Montagud, A., Montrone, C., Nakonecnij, V., Naldi, A., Naveez, M., Nesterova, A., Niarakis, A., Noël, V., Olbei, M., Orlic-Milacic, M., Orta-Resendiz, A., Ortseifen, V., Ostaszewski, M., Overall, R.W, Owen, S., Oxford, K., Peña-Chilet, M., Phair, R., Pham, N., Pico, A.R, Ponce de Leon, M., Porras, P., Puniya, B.L, Rameil, M., Ravel, J.-M, Renz, A., Rex, D.A.B, Rian, K., Riutta, A., Rothfels, K., Ruepp, A., Sacco, F., Saez-Rodriguez, J., Sander, C., Satagopam, V., Scheel, J., Schmiester, L., Schneider, R., Schreiber, F., Senff Ribeiro, A., Sevilla, C., Shamovsky, V., Shoemaker, J.E, Singh, V., Slenter, D., Smula, E., Soliman, S., Somers, J., Stein, L.D, Stephan, R., Summak, G.Y, Teuton, J., the COVID-19 Disease Map Community, Treveil, A., Turei, D., Valdeolivas, A., Valencia, A., Vanhoefer, J., Varusai, T., Vazquez, M., Vega, C., Wang, M., Wilighagen, E.L, Wolkenhauer, O., Wu, G., Yamada, T.G, Yuryev, A., Zucker, J.
Published 2021