Sander, Chris

Pattern discovery and cancer gene identification in integrated cancer genomic data

Mo, Q., Wang, S., Seshan, V. E., Olshen, A. B., Schultz, N., Sander, C., Powers, R. S., Ladanyi, M., & Shen, R. (2013) · Proceedings of the National Academy of Sciences

Cancer Genomics and DiagnosticsGene expression and cancer classification

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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

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MicroRNA profiling of the murine hematopoietic system

Monticelli, S., Ansel, K. M., Xiao, C., Socci, N. D., Krichevsky, A. M., Thai, T.-H., Rajewsky, N., Marks, D. S., Sander, C., Rajewsky, K., et al. (2005) · Genome Biology

MicroRNA in disease regulationPlant Molecular Biology Research

Cited by 436

Pan-cancer Alterations of the MYC Oncogene and Its Proximal Network across the Cancer Genome Atlas

Schaub, F. X., Dhankani, V., Berger, A. C., Trivedi, M., Richardson, A. B., Shaw, R., Zhao, W., Zhang, X., Ventura, A., Liu, Y., et al. (2018) · Cell Systems

Cancer Genomics and DiagnosticsCancer-related Molecular Pathways

Cited by 431

Dali/FSSP classification of three-dimensional protein folds

Holm, L., & Sander, C. (1997) · Nucleic Acids Research

Protein Structure and DynamicsEnzyme Structure and Function

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Characterization of Small RNAs in Aplysia Reveals a Role for miR-124 in Constraining Synaptic Plasticity through CREB

Rajasethupathy, P., Fiumara, F., Sheridan, R., Betel, D., Puthanveettil, S. V., Russo, J. J., Sander, C., Tuschl, T., & Kandel, E. (2009) · Neuron

Neuroscience and Neuropharmacology ResearchMicroRNA in disease regulation

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Perspective on Oncogenic Processes at the End of the Beginning of Cancer Genomics

Ding, L., Bailey, M. H., Porta-Pardo, E., Thorsson, V., Colaprico, A., Bertrand, D., Gibbs, D. L., Weerasinghe, A., Huang, K.-L., Tokheim, C., et al. (2018) · Cell

Cancer Genomics and DiagnosticsChromatin Remodeling and Cancer

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RNA targets of wild-type and mutant FET family proteins

Hoell, J. I., Larsson, E., Runge, S., Nusbaum, J. D., Duggimpudi, S., Farazi, T. A., Hafner, M., Borkhardt, A., Sander, C., & Tuschl, T. (2011) · Nature Structural & Molecular Biology

RNA Research and SplicingAmyotrophic Lateral Sclerosis Research

Cited by 350

A deep learning algorithm to predict risk of pancreatic cancer from disease trajectories

Placido, D., Yuan, B., Hjaltelin, J. X., Zheng, C., Haue, A. D., Chmura, P. J., Yuan, C., Kim, J., Umeton, R., Antell, G., et al. (2023) · Nature Medicine

Machine Learning in HealthcarePancreatic and Hepatic Oncology Research

Cited by 349

Protein design and variant prediction using autoregressive generative models

Shin, J.-E., Riesselman, A. J., Kollasch, A. W., McMahon, C., Simon, E., Sander, C., Manglik, A., Kruse, A. C., & Marks, D. S. (2021) · Nature Communications

Protein Structure and DynamicsMachine Learning in Bioinformatics

Cited by 320

Human SRMAtlas: A Resource of Targeted Assays to Quantify the Complete Human Proteome

Kusebauch, U., Campbell, D. S., Deutsch, E. W., Chu, C. S., Spicer, D. A., Brusniak, M.-Y., Slagel, J., Sun, Z., Stevens, J., Grimes, B., et al. (2016) · Cell

Advanced Proteomics Techniques and ApplicationsMass Spectrometry Techniques and Applications

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Can three-dimensional contacts in protein structures be predicted by analysis of correlated mutations?

Shindyalov, I. N., Kolchanov, N. A., & Sander, C. (1994) · "Protein Engineering, Design and Selection"

Protein Structure and DynamicsEnzyme Structure and Function

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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

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DGCR8-dependent microRNA biogenesis is essential for skin development

Yi, R., Pasolli, H. A., Landthaler, M., Hafner, M., Ojo, T., Sheridan, R., Sander, C., O'Carroll, D., Stoffel, M., Tuschl, T., et al. (2009) · Proceedings of the National Academy of Sciences

MicroRNA in disease regulationDevelopmental Biology and Gene Regulation

Cited by 232

scPerturb: harmonized single-cell perturbation data

Peidli, S., Green, T. D., Shen, C., Gross, T., Min, J., Garda, S., Yuan, B., Schumacher, L. J., Taylor-King, J. P., Marks, D. S., et al. (2024) · Nature Methods

Single-cell and spatial transcriptomicsGene Regulatory Network Analysis

Cited by 194

Applications of targeted proteomics in systems biology and translational medicine

Ebhardt, H. A., Root, A., Sander, C., & Aebersold, R. (2015) · PROTEOMICS

Advanced Proteomics Techniques and ApplicationsBioinformatics and Genomic Networks

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A landscape of metabolic variation across tumor types

Reznik, E., Luna, A., Aksoy, B. A., Liu, E. M., La, K., Ostrovnaya, I., Creighton, C. J., Hakimi, A. A., & Sander, C. (2018) · Cell Systems

Cancer, Hypoxia, and MetabolismMetabolomics and Mass Spectrometry Studies

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Functional Copy-Number Alterations in Cancer

Taylor, B. S., Barretina, J., Socci, N. D., DeCarolis, P., Ladanyi, M., Meyerson, M., Singer, S., & Sander, C. (2008) · PLoS ONE

Genomic variations and chromosomal abnormalitiesCancer Genomics and Diagnostics

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Comprehensive pan-genomic characterization of adrenocortical carcinoma

Zheng, S., Cherniack, A. D., Dewal, N., Moffitt, R. A., Danilova, L., Murray, B. A., Lerario, A. M., Else, T., Knijnenburg, T. A., Ciriello, G., et al. (2016) · Cancer Cell

Adrenal and Paraganglionic TumorsChromatin Remodeling and Cancer

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3D RNA and Functional Interactions from Evolutionary Couplings

Weinreb, C., Riesselman, A. J., Ingraham, J. B., Gross, T., Sander, C., & Marks, D. S. (2016) · Cell

RNA and protein synthesis mechanismsProtein Structure and Dynamics

Cited by 159

Artificial Intelligence and Early Detection of Pancreatic Cancer: 2020 Summative Review

Kenner, B., Chari, S. T., Kelsen, D., Klimstra, D. S., Pandol, S. J., Rosenthal, M., Rustgi, A. K., Taylor, J. A., Yala, A., Abul-Husn, N., et al. (2021) · Pancreas

AI in cancer detectionPancreatic and Hepatic Oncology Research

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Pathway information for systems biology

Cary, M. P., Bader, G. D., & Sander, C. (2005) · FEBS Letters

Bioinformatics and Genomic NetworksGene Regulatory Network Analysis

Cited by 152

Diabetes, weight change, and pancreatic cancer risk

Yuan, C., Babic, A., Khalaf, N., Nowak, J. A., Brais, L. K., Rubinson, D. A., Ng, K., Aguirre, A. J., Pandharipande, P. V., Fuchs, C. S., et al. (2020) · JAMA Oncology

Pancreatic and Hepatic Oncology ResearchCancer Risks and Factors

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cPath: open source software for collecting, storing, and querying biological pathways

Cerami, E. G., Bader, G. D., Gross, B. E., & Sander, C. (2006) · BMC Bioinformatics

Bioinformatics and Genomic NetworksBiomedical Text Mining and Ontologies

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