UROMOL 2020 - RNA-seq data - EGA European Genome-phenome Archive

Click on a Dataset ID in the table below to learn more, and to find out who to contact about access to these data

Dataset ID	Description	Technology	Samples
EGAD00001006656	For this project about non-muscle invasive bladder cancer (NMIBC), we analysed total RNA-seq data from 535 patients. Sequencing of total RNA was performed using ScriptSeq-v2 RNA-Seq Library Preparation Kit (Illumina) and KAPA RNA HyperPrep Kit with RiboErase HMR (Roche). RNA input was 500 ng for both kits. The dataset is composed of 1,596 fastq files.	Illumina HiSeq 2000 Illumina MiSeq Illumina NovaSeq 6000 NextSeq 550	535

Publications	Citations
An integrated multi-omics analysis identifies prognostic molecular subtypes of non-muscle-invasive bladder cancer. Lindskrog SV, Prip F, Lamy P, Taber A, Groeneveld CS, Birkenkamp-Demtröder K, Jensen JB, Strandgaard T, Nordentoft I, Christensen E, Sokac M, Birkbak NJ, Maretty L, Hermann GG, Petersen AC, Weyerer V, Grimm MO, Horstmann M, Sjödahl G, Höglund M, Steiniche T, Mogensen K, de Reyniès A, Nawroth R, Jordan B, Lin X, Dragicevic D, Ward DG, Goel A, Hurst CD, Raman JD, Warrick JI, Segersten U, Sikic D, van Kessel KEM, Maurer T, Meeks JJ, DeGraff DJ, Bryan RT, Knowles MA, Simic T, Hartmann A, Zwarthoff EC, Malmström PU, Malats N, Real FX, Dyrskjøt L. Nat Commun 12: 2021 2301	306
A transcriptional network of cell cycle dysregulation in noninvasive papillary urothelial carcinoma. Warrick JI, Knowles MA, Hurst CD, Shuman L, Raman JD, Walter V, Putt J, Dyrskjøt L, Groeneveld C, Castro MAA, Robertson AG, DeGraff DJ. Sci Rep 12: 2022 16538	8
Spatial transformation of multi-omics data unlocks novel insights into cancer biology. Sokač M, Kjær A, Dyrskjøt L, Haibe-Kains B, Jwl Aerts H, Birkbak NJ. Elife 12: 2023 RP87133	4
Novel Gene expression-based Risk Stratification tool predicts recurrence in Non-muscle invasive Bladder cancer. N S, Ps H, P R, Paul L, Veeraiyan D, Narikot A, Veldore V, Tanwar N, Sreekanthreddy P, Goswami H, Kumar RV, Srinath BS, Korlimarla A. BMC Cancer 25: 2025 916	3
Single-cell and spatial transcriptomic analysis reveal cellular heterogeneity and cancer cell-intrinsic major histocompatibility complex II expression in urothelial carcinoma. Xiong S, Fan J, Huang C, He S, Liang Y, Zhang Q, Guo B, Wu Y, Xia M, Zhao F, Ci W, Zhou L, Gong Y, Li X. Int J Biol Sci 21: 2025 6649-6673	3
An integrated molecular classification system identifies distinct prognostic clusters of non-muscle-invasive bladder cancer. Liu K, Chen Z, Jin X, Liang H, Liu H, Chen J, Gui C, Chen Y, Dai Z, Zhou H, Ai Z, Wang Z, Deng Q, Wang J, Jin M, Luo J, Chen W, Feng Z. Funct Integr Genomics 26: 2026 103	0
Multi-population GWAS meta-analysis identifies bladder cancer susceptibility loci and highlights genetic regulation of smoking-related risk. Prokunina-Olsson L, Florez-Vargas O, Levin MG, Dutta D, Breeze CE, Hurwitz LM, Yan W, Lamy P, Papenberg BW, Wang K, Lee CH, Milne RL, Gu J, Um CY, Joseph V, Furberg H, Le Calvez-Kelm F, Lori A, Choudhury PP, Afshar N, Kogevinas M, Offit K, Vermeulen SH, López de Maturana E, Albanes D, Purdue MP, Cortessis VK, Karagas MR, Kooperberg C, Bjurlin M, Tadesse DA, Moore SC, Huang WY, Haiman CA, Stern MC, Eliassen AH, Mucci LA, Aben KK, Galesloot TE, UROMOL Consortium, Verma A, Yoshino S, Hikino K, Terao C, Rafnar T, Matsuda K, Shuin T, Garcia-Closas M, Real FX, Kiemeney LA, Chanock SJ, Malats N, Silverman DT, Dyrskjot L, Rothman N, Damrauer SM, Koutros S, Damrauer JS. Nat Commun 17: 2026 9591	0