Rätsch, Gunnar

The repertoire of mutational signatures in human cancer

Alexandrov, L. B., Kim, J., Haradhvala, N. J., Huang, M. N., Tian Ng, A. W., Wu, Y., Boot, A., Covington, K. R., Gordenin, D. A., Bergstrom, E. N., et al. (2020) · Nature

Cancer Genomics and DiagnosticsChromatin Remodeling and Cancer

Cited by 3,496

Pan-cancer analysis of whole genomes

The ICGC/TCGA Pan-Cancer Analysis of Whole Genomes Consortium, Aaltonen, L. A., Abascal, F., Abeshouse, A., Aburatani, H., Adams, D. J., Agrawal, N., Ahn, K. S., Ahn, S.-M., Aikata, H., et al. (2020) · Nature

Cancer Genomics and DiagnosticsChromatin Remodeling and Cancer

Cited by 3,064

The evolutionary history of 2,658 cancers

Gerstung, M., Jolly, C., Leshchiner, I., Dentro, S. C., Gonzalez, S., Rosebrock, D., Mitchell, T. J., Rubanova, Y., Anur, P., Yu, K., et al. (2020) · Nature

Cancer Genomics and DiagnosticsChromatin Remodeling and Cancer

Cited by 1,057

Patterns of somatic structural variation in human cancer genomes

Li, Y., Roberts, N. D., Wala, J. A., Shapira, O., Schumacher, S. E., Kumar, K., Khurana, E., Waszak, S., Korbel, J. O., Haber, J. E., et al. (2020) · Nature

Cancer Genomics and DiagnosticsGenomic variations and chromosomal abnormalities

Cited by 867

Comprehensive analysis of chromothripsis in 2,658 human cancers using whole-genome sequencing

Cortés-Ciriano, I., Lee, J. J.-K., Xi, R., Jain, D., Jung, Y. L., Yang, L., Gordenin, D., Klimczak, L. J., Zhang, C.-Z., Pellman, D. S., et al. (2020) · Nature Genetics

Cancer Genomics and DiagnosticsGenomic variations and chromosomal abnormalities

Cited by 712

RNA G-quadruplexes cause eIF4A-dependent oncogene translation in cancer

Wolfe, A. L., Singh, K., Zhong, Y., Drewe, P., Rajasekhar, V. K., Sanghvi, V. R., Mavrakis, K. J., Jiang, M., Roderick, J. E., Van der Meulen, J., et al. (2014) · Nature

RNA and protein synthesis mechanismsDNA and Nucleic Acid Chemistry

Cited by 635

Systematic evaluation of spliced alignment programs for RNA-seq data

The RGASP Consortium, Engström, P. G., Steijger, T., Sipos, B., Grant, G. R., Kahles, A., Rätsch, G., Goldman, N., Hubbard, T. J., Harrow, J., et al. (2013) · Nature Methods

Genomics and Phylogenetic StudiesRNA Research and Splicing

Cited by 513

Early prediction of circulatory failure in the intensive care unit using machine learning

Hyland, S. L., Faltys, M., Hüser, M., Lyu, X., Gumbsch, T., Esteban, C., Bock, C., Horn, M., Moor, M., Rieck, B., et al. (2020) · Nature Medicine

Machine Learning in HealthcareHealthcare Technology and Patient Monitoring

Cited by 477

Pan-cancer analysis of whole genomes identifies driver rearrangements promoted by LINE-1 retrotransposition

Rodriguez-Martin, B., Alvarez, E. G., Baez-Ortega, A., Zamora, J., Supek, F., Demeulemeester, J., Santamarina, M., Ju, Y. S., Temes, J., Garcia-Souto, D., et al. (2020) · Nature Genetics

Genomic variations and chromosomal abnormalitiesCancer Genomics and Diagnostics

Cited by 451

Interferon-γ regulates cellular metabolism and mRNA translation to potentiate macrophage activation

Su, X., Yu, Y., Zhong, Y., Giannopoulou, E. G., Hu, X., Liu, H., Cross, J. R., Rätsch, G., Rice, C. M., & Ivashkiv, L. B. (2015) · Nature Immunology

PI3K/AKT/mTOR signaling in cancerImmune cells in cancer

Cited by 298

Disruption of chromatin folding domains by somatic genomic rearrangements in human cancer

Akdemir, K. C., Le, V. T., Chandran, S., Li, Y., Verhaak, R. G., Beroukhim, R., Campbell, P. J., Chin, L., Dixon, J. R., Futreal, P. A., et al. (2020) · Nature Genetics

Genomics and Chromatin DynamicsChromatin Remodeling and Cancer

Cited by 283

Species-wide genetic incompatibility analysis identifies immune genes as hot spots of deleterious epistasis

Chae, E., Bomblies, K., Kim, S.-T., Karelina, D., Zaidem, M., Ossowski, S., Martín-Pizarro, C., Laitinen, R. A. E., Rowan, B. A., Tenenboim, H., et al. (2014) · Cell

Plant-Microbe Interactions and ImmunityEvolution and Genetic Dynamics

Cited by 281

A Pan-cancer Transcriptome Analysis Reveals Pervasive Regulation through Alternative Promoters

Demircioğlu, D., Cukuroglu, E., Kindermans, M., Nandi, T., Calabrese, C., Fonseca, N. A., Kahles, A., Lehmann, K.-V., Stegle, O., Brazma, A., et al. (2019) · Cell

Genomics and Chromatin DynamicsCancer-related molecular mechanisms research

Cited by 250

Learning single-cell perturbation responses using neural optimal transport

Bunne, C., Stark, S. G., Gut, G., del Castillo, J. S., Levesque, M., Lehmann, K.-V., Pelkmans, L., Krause, A., & Rätsch, G. (2023) · Nature Methods

Single-cell and spatial transcriptomicsGene Regulatory Network Analysis

Cited by 202

EIF1AX and RAS Mutations Cooperate to Drive Thyroid Tumorigenesis through ATF4 and c-MYC

Krishnamoorthy, G. P., Davidson, N. R., Leach, S. D., Zhao, Z., Lowe, S. W., Lee, G., Landa, I., Nagarajah, J., Saqcena, M., Singh, K., et al. (2019) · Cancer Discovery

Thyroid Cancer Diagnosis and TreatmentRNA and protein synthesis mechanisms

Cited by 94

RNA‐Seq Read Alignments with PALMapper

Jean, G., Kahles, A., Sreedharan, V. T., Bona, F. D., & Rätsch, G. (2010) · Current Protocols in Bioinformatics

Genomics and Phylogenetic StudiesRNA Research and Splicing

Cited by 59

Targeting eIF4A-Dependent Translation of KRAS Signaling Molecules

Singh, K., Lin, J., Lecomte, N., Mohan, P., Gokce, A., Sanghvi, V. R., Jiang, M., Grbovic-Huezo, O., Burčul, A., Stark, S. G., et al. (2021) · Cancer Research

RNA and protein synthesis mechanismsPancreatic and Hepatic Oncology Research

Cited by 39

Persistence and Availability of Web Services in Computational Biology

Schultheiss, S. J., Münch, M.-C., Andreeva, G. D., & Rätsch, G. (2011) · PLoS ONE

Scientific Computing and Data ManagementResearch Data Management Practices

Cited by 29

PmVAE: learning interpretable single-cell representations with pathway modules

Gut, G., Stark, S. G., Rätsch, G., & Davidson, N. R. (2021) · bioRxiv (Cold Spring Harbor Laboratory)

Single-cell and spatial transcriptomicsBioinformatics and Genomic Networks

Cited by 24

HiRID-ICU-Benchmark - A Comprehensive Machine Learning Benchmark on High-resolution ICU Data

Yèche, H., Kuznetsova, R., Zimmermann, M., Hüser, M., Lyu, X., Faltys, M., & Rätsch, G. (2021) · arXiv

Machine Learning in HealthcareTime Series Analysis and Forecasting

Cited by 18