Haussler, David

Genome-wide bioinformatic and molecular analysis of introns in Saccharomyces cerevisiae

SPINGOLA, M., GRATE, L., HAUSSLER, D., & ARES, M. (1999) · RNA

RNA Research and SplicingGenomics and Phylogenetic Studies

Cited by 316

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

The UCSC Genome Browser database: 2022 update

Lee, B. T., Barber, G. P., Benet-Pagès, A., Casper, J., Clawson, H., Diekhans, M., Fischer, C., Gonzalez, J. N., Hinrichs, A. S., Lee, C. M., et al. (2022) · Nucleic Acids Research

Genomics and Phylogenetic StudiesGenetics, Bioinformatics, and Biomedical Research

Cited by 273

HAL: a hierarchical format for storing and analyzing multiple genome alignments

Hickey, G., Paten, B., Earl, D., Zerbino, D., & Haussler, D. (2013) · Bioinformatics

Genomics and Phylogenetic StudiesGenome Rearrangement Algorithms

Cited by 272

Cactus: Algorithms for genome multiple sequence alignment

Paten, B., Earl, D., Nguyen, N., Diekhans, M., Zerbino, D., & Haussler, D. (2011) · Genome Research

Genomics and Phylogenetic StudiesGenome Rearrangement Algorithms

Cited by 243

Semi-automated assembly of high-quality diploid human reference genomes

Jarvis, E. D., Formenti, G., Rhie, A., Guarracino, A., Yang, C., Wood, J., Tracey, A., Thibaud-Nissen, F., Vollger, M. R., Porubsky, D., et al. (2022) · Nature

Genomics and Phylogenetic StudiesGenomic variations and chromosomal abnormalities

Cited by 209

UCSC Genome Browser enters 20th year

Lee, C. M., Barber, G. P., Casper, J., Clawson, H., Diekhans, M., Gonzalez, J. N., Hinrichs, A. S., Lee, B. T., Nassar, L. R., Powell, C. C., et al. (2019) · Nucleic Acids Research

Genomics and Phylogenetic StudiesGenetics, Bioinformatics, and Biomedical Research

Cited by 191

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

Cited by 165

Recombination between heterologous human acrocentric chromosomes

Guarracino, A., Buonaiuto, S., de Lima, L. G., Potapova, T., Rhie, A., Koren, S., Rubinstein, B., Fischer, C., Human Pangenome Reference Consortium, Abel, H. J., et al. (2023) · Nature

Chromosomal and Genetic VariationsGenomic variations and chromosomal abnormalities

Cited by 134

Comparative Genomics Search for Losses of Long-Established Genes on the Human Lineage

Zhu, J., Sanborn, J. Z., Diekhans, M., Lowe, C. B., Pringle, T. H., & Haussler, D. (2007) · PLoS Computational Biology

Chromosomal and Genetic VariationsGenomics and Phylogenetic Studies

Cited by 129

Comparative Annotation Toolkit (CAT)—simultaneous clade and personal genome annotation

Fiddes, I. T., Armstrong, J., Diekhans, M., Nachtweide, S., Kronenberg, Z. N., Underwood, J. G., Gordon, D., Earl, D., Keane, T., Eichler, E. E., et al. (2018) · Genome Research

Genomics and Phylogenetic StudiesChromosomal and Genetic Variations

Cited by 120

Alignathon: a competitive assessment of whole-genome alignment methods

Earl, D., Nguyen, N., Hickey, G., Harris, R. S., Fitzgerald, S., Beal, K., Seledtsov, I., Molodtsov, V., Raney, B. J., Clawson, H., et al. (2014) · Genome Research

Genomics and Phylogenetic StudiesGenome Rearrangement Algorithms

Cited by 113

Biased clustered substitutions in the human genome: The footprints of male-driven biased gene conversion

Dreszer, T. R., Wall, G. D., Haussler, D., & Pollard, K. S. (2007) · Genome Research

Chromosomal and Genetic VariationsEvolution and Genetic Dynamics

Cited by 112

Increased mutation and gene conversion within human segmental duplications

Vollger, M. R., Dishuck, P. C., Harvey, W. T., DeWitt, W. S., Guitart, X., Goldberg, M. E., Rozanski, A. N., Lucas, J., Asri, M., Human Pangenome Reference Consortium, et al. (2023) · Nature

Genomic variations and chromosomal abnormalitiesChromosomal and Genetic Variations

Cited by 104

Cactus Graphs for Genome Comparisons

Paten, B., Diekhans, M., Earl, D., John, J. S., Ma, J., Suh, B., & Haussler, D. (2011) · Journal of Computational Biology

Genome Rearrangement AlgorithmsGenomics and Phylogenetic Studies

Cited by 102

The Share of Human Genomic DNA under Selection Estimated from Human-Mouse Genomic Alignments

CHIAROMONTE, F., WEBER, R. J., ROSKIN, K. M., DIEKHANS, M., KENT, W. J., & HAUSSLER, D. (2003) · Cold Spring Harbor Symposia on Quantitative Biology

Genomics and Phylogenetic StudiesEvolution and Genetic Dynamics

Cited by 64

Barriers to accessing public cancer genomic data

Learned, K., Durbin, A., Currie, R., Kephart, E. T., Beale, H. C., Sanders, L. M., Pfeil, J., Goldstein, T. C., Salama, S. R., Haussler, D., et al. (2019) · Scientific Data

Research Data Management PracticesEthics in Clinical Research

Cited by 34

Scoring two-species local alignments to try to statistically separate neutrally evolving from selected DNA segments

Roskin, K. M., Diekhans, M., & Haussler, D. (2003) · Proceedings of the seventh annual international conference on Research in computational molecular biology

Genomics and Phylogenetic StudiesFractal and DNA sequence analysis

Cited by 14