GEMmaker: process massive RNA-seq datasets on heterogeneous computational infrastructure

by Bender, M.R, Biggs, T.D, Feltus, F.A, Ficklin, S.P, Hadish, J.A, Honaas, L., McKnight, C.B, Shealy, B.T, Smith, M.C, Wytko, C.
Published 2022

Differential gene expression in aphids following virus acquisition from plants or from an artificial medium

by Brault, V., Chesnais, Q., Marmonier, A., Rustenholz, C., Velt, A., Villeroy, C.
Published 2022

Dissection of the Genetic Basis of Yield Traits in Line per se and Testcross Populations and Identification of Candidate Genes for Hybrid Performance in Maize

by Du, W., Fu, J., Gu, R., Li, D., Ma, Y., Wang, J., Wang, P., Xu, Z., Zhang, H.
Published 2022

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

Expression profiles and transcript properties of fast-twitch and slow-twitch muscles in a deep-sea highly migratory fish, Pseudocaranx dentex

by Jiang, C., Li, B., Liu, S., Wang, H., Yang, L., Zhang, T., Zhuang, Z.
Published 2022

RNA sequencing reveals the emerging role of bronchoalveolar lavage fluid exosome lncRNAs in acute lung injury

by Gao, Y., Huang, M., Li, J., Shen, X., Song, M., Song, Y., Wan, B., Wang, J., Wang, L., Wang, X., Zhang, X.
Published 2022

Comprehensive analysis of differences of N6-methyladenosine of lncRNAs between atrazine-induced and normal Xenopus laevis testis

by Bo, C., Geng, X., Han, M., Jia, Q., Li, H., Liu, Y., Peng, C., Qi, X., Qu, B., Sai, L., Yin, W., Zhang, J., Zhang, X.
Published 2021

Brain-derived neurotrophic factor predominantly regulates the expression of synapse-related genes in the striatum: Insights from in vitro transcriptomics

by Adachi, N., Kawai, A., Koshimizu, H., Matsuoka, H., Miki, T., Nakajima, Y., Ohta, K.-I, Ono, J., Sunagawa, M., Suzuki, S.
Published 2021

Transcriptional Correlates of Chronic Alcohol Neuroadaptation in Drosophila Larvae

by Acevedo-Gonzalez, J.P, Anqueira-González, A., Fuenzalida-Uribe, N.L, Ghezzi, A., Irizarry-Hernández, C., Montes-Mercado, A.
Published 2021

Implementing a Functional Precision Medicine Tumor Board for Acute Myeloid Leukemia

by Aittokallio, T., Brück, O., Dufva, O., Eldfors, S., Gjertsen, B.T, Heckman, C.A, Hellesøy, M., Kallioniemi, O., Kankainen, M., Kivinen, K., Kontro, M., Kumar, A., Kuusanmäki, H., Lehto, M., Malani, D., Mustjoki, S., Parsons, A., Porkka, K., Potdar, S., Räty, R., Saarela, J., Saarela, J., Turunen, L., Västrik, I., Wennerberg, K., Wolf, M., Yadav, B.
Published 2022

iGlioSub: an integrative transcriptomic and epigenomic classifier for glioblastoma molecular subtypes

by Ensenyat-Mendez, M., Íñiguez-Muñoz, S., Marzese, D.M, Sesé, B.
Published 2021

MGEnrichment: A web application for microglia gene list enrichment analysis

by Ciernia, A.V, Jao, J.
Published 2021

Discriminative feature of cells characterizes cell populations of interest by a small subset of genes

by Fujii, T., Fujita, M., Maehara, K., Ohkawa, Y.
Published 2021

RgCop-A regularized copula based method for gene selection in single cell rna-seq data

by Bandyopadhyay, S., Lall, S., Ray, S.
Published 2021

Alkaline nucleoplasm facilitates contractile gene expression in the mammalian heart

by Andreev, O.A, Carr, C.A, Chung, Y.J, Crump, N.T, Curtis, M.K, Fournier, M., Gunadasa-Rohling, M., Hulikova, A., Loonat, A.A, Milne, T.A, Moshnikova, A., Park, K.C, Reshetnyak, Y.K, Riley, P.R, Smart, N., Swietach, P., Trafford, A.W, Wilson, A.
Published 2022

Development and verification of a hypoxia- and immune-associated prognosis signature for esophageal squamous cell carcinoma

by Han, S.-G, Lian, L., Shen, X.-M, Teng, S.-B, Wang, W.-J, Xia, Y.-Y, Xu, X.-F, Zheng, Y., Zhou, C.
Published 2022

Sensitive period-regulating genetic pathways and exposure to adversity shape risk for depression

by Crawford, K.M, Davis, K.A, de Leeuw, C., Dunn, E.C, Hensch, T.K, Lussier, A.A, Major Depressive Disorder Working Group of the Psychiatric Genomics Consortium, Ramírez-Tapia, J.C, Smoller, J.W, Takesian, A.E, Wang, M.-J, Zhu, Y.
Published 2022

Identification of driver genes for critical forms of COVID-19 in a deeply phenotyped young patient cohort

by Bahram, S., Bastard, P., Bernard, A., Bibi-Triki, S., Carapito, C., Carapito, R., Casanova, J.-L, Chamaraux-Tran, T.-N, Chittenden, T.W, Collange, O., Danion, F., Drenou, B., Fafi-Kremer, S., Frappier, J., Gervais, A., Goichot, B., Guimaraes, R., Gujja, S., Gulcher, J.R, Hanauer, A., Hansmann, Y., Helms, J., Hermine, O., Hirschler, A., Javad Aman, M., Kailasan, S., Kuteifan, K., Larnicol, A., Laumond, G., Lederle, A., Li, R., Lidar, D., Macquin, C., Malagon-Lopez, J., Mariette, X., Mayeur, S., Mertes, P.-M, Meziani, F., Mohseninia, R., Molitor, A., Moog, C., Muller, L., Nilsson, P., Paul, N., Pichot, A., Pin, E., Pottecher, J., Radosavljevic, M., Rolli, V., Ruch, Y., Sanlaville, D., Schenck, M., Schmidt, S., Schneider, F., Sibilia, J., Simons, M., Spinnhirny, P., Stemmelen, T., Tahar, O., Tharaux, P.-L, Thomas, A., Viari, A., Wu, H., Zhang, Q.
Published 2022

Peanut oral immunotherapy differentially suppresses clonally distinct subsets of T helper cells

by Christopher Love, J., Gierahn, T.M, Ginder, J.H, Monian, B., Morgan, D.M, Petrossian, P.M, Ruiter, B., Shreffler, W.G, Smith, N.P, Tu, A.A
Published 2022

Characterization of the immune response in patients with cancer of the oral cavity after neoadjuvant immunotherapy with the IRX-2 regimen

by Bellile, E., Bryan Bell, R., Campos, C.Z, Cernea, C.R, Cruz, F.J.S.M, D'Silva, N., Erman, A., Girotto, G.C, Higgins, K., Kaplan, M., Kraus, D., Krempl, G., Liu, S., Martins, W.A, McCaul, J., Moyer, J., Newman, J., Nguyen, A., Nieva, J., Oliveira, F., Panwar, A., Patel, M., Rozek, L., Sartor, M.A, the INSPIRE Trial Clinical Investigators, Valentino, J., Victorina, A.P, Wolf, G.T, Zarins, K.
Published 2021