Katherine Pollard

Last updated
Katie Pollard
Born
Katherine Snowden Pollard
Alma mater Pomona College (BA)
University of California, Berkeley (MS, PhD)
Awards ISCB Fellow (2020)
CZ Biohub Investigator (2017-present)
Scientific career
Fields Evolutionary genomics
Functional genomics [1]
Institutions Gladstone Institutes
University of California, San Francisco
University of California, Davis
University of California, Santa Cruz
Thesis Computationally intensive statistical methods for analysis of gene expression data  (2003)
Doctoral advisor Mark van der Laan [2]
Notable students Samantha Riesenfeld
Tony Capra
Website gladstone.org/people/katherine-pollard OOjs UI icon edit-ltr-progressive.svg

Katherine Snowden Pollard is the Director of the Gladstone Institute of Data Science and Biotechnology and a professor at the University of California, San Francisco (UCSF). [1] [3] [4] She is a Chan Zuckerberg Biohub Investigator. [5] She was awarded Fellowship of the International Society for Computational Biology in 2020 and the American Institute for Medical and Biological Engineering in 2021 for outstanding contributions to computational biology and bioinformatics. [6] [7]

Contents

Education

Pollard received a B.A. summa cum laude in anthropology and mathematics from Pomona College and an M.S. from the University of California, Berkeley (UC Berkeley). She was awarded a Ph.D. in 2003 from UC Berkeley for research supervised by Mark van der Laan. [8] [2]

Career and research

Pollard is a leader in developing statistical models and open-source software for big data, especially in genomics. [9] [10] Pollard and her team pioneered the identification and named the fastest-evolving regions of the human genome, known as human accelerated regions (HARs). [11] [12] Pollard has also designed methods to study the human microbiome [13] [14] and other microbial communities, these studies set the stage for using metagenomics in precision medicine.

Prior to working at UCSF, she held a postdoctoral research position with Sandrine Dudoit at UC Berkeley and worked with David Haussler at UC Santa Cruz. [11]

Honors and awards

Related Research Articles

<span class="mw-page-title-main">Human accelerated regions</span>

Human accelerated regions (HARs), first described in August 2006, are a set of 49 segments of the human genome that are conserved throughout vertebrate evolution but are strikingly different in humans. They are named according to their degree of difference between humans and chimpanzees. Found by scanning through genomic databases of multiple species, some of these highly mutated areas may contribute to human-specific traits. Others may represent loss of functional mutations, possibly due to the action of biased gene conversion rather than adaptive evolution.

<span class="mw-page-title-main">David Haussler</span> American bioinformatician

David Haussler is an American bioinformatician known for his work leading the team that assembled the first human genome sequence in the race to complete the Human Genome Project and subsequently for comparative genome analysis that deepens understanding the molecular function and evolution of the genome.

<span class="mw-page-title-main">Russ Altman</span>

Russ Biagio Altman is an American professor of bioengineering, genetics, medicine, and biomedical data science and past chairman of the bioengineering department at Stanford University.

<span class="mw-page-title-main">Eugene Myers</span> American scientist

Eugene Wimberly "Gene" Myers, Jr. is an American computer scientist and bioinformatician, who is best known for contributing to the early development of the NCBI's BLAST tool for sequence analysis.

<span class="mw-page-title-main">Søren Brunak</span> Danish bioinformatics professor, scientist

Søren Brunak is a Danish biological and physical scientist working in bioinformatics, systems biology, and medical informatics. He is a professor of Disease Systems Biology at the University of Copenhagen and professor of bioinformatics at the Technical University of Denmark. As Research Director at the Novo Nordisk Foundation Center for Protein Research at the University of Copenhagen Medical School, he leads a research effort where molecular-level systems biology data are combined with phenotypic data from the healthcare sector, such as electronic patient records, registry information, and biobank questionnaires. A major aim is to understand the network biology basis for time-ordered comorbidities and discriminate between treatment-related disease correlations and other comorbidities in disease trajectories. Søren Brunak also holds a position as a Medical Informatics Officer at Rigshospitalet, the Capital Region of Denmark.

<span class="mw-page-title-main">Sean Eddy</span> American professor at Harvard University

Sean Roberts Eddy is Professor of Molecular & Cellular Biology and of Applied Mathematics at Harvard University. Previously he was based at the Janelia Research Campus from 2006 to 2015 in Virginia. His research interests are in bioinformatics, computational biology and biological sequence analysis. As of 2016 projects include the use of Hidden Markov models in HMMER, Infernal Pfam and Rfam.

The ISCB Overton Prize is a computational biology prize awarded annually for outstanding accomplishment by a scientist in the early to mid stage of his or her career. Laureates have made significant contribution to the field of computational biology either through research, education, service, or a combination of the three.

Trey Ideker is a professor of medicine and bioengineering at UC San Diego. He is the Director of the National Resource for Network Biology, the San Diego Center for Systems Biology, and the Cancer Cell Map Initiative. He uses genome-scale measurements to construct network models of cellular processes and disease.

<span class="mw-page-title-main">Richard M. Myers</span> American geneticist and biochemist (born 1954)

Richard M. Myers is an American geneticist and biochemist known for his work on the Human Genome Project (HGP). The National Human Genome Research Institute says the HGP “[gave] the world a resource of detailed information about the structure, organization and function of the complete set of human genes.” Myers' genome center, in collaboration with the Joint Genome Institute, contributed more than 10 percent of the data in the project. 

Adam C. Siepel is an American computational biologist known for his research in comparative genomics and population genetics, particularly the development of statistical methods and software tools for identifying evolutionarily conserved sequences. Siepel is currently Chair of the Simons Center for Quantitative Biology and Professor in the Watson School for Biological Sciences at Cold Spring Harbor Laboratory.

<span class="mw-page-title-main">Ron Shamir</span> Israeli professor of computer science (born 1953)

Ron Shamir is an Israeli professor of computer science known for his work in graph theory and in computational biology. He holds the Raymond and Beverly Sackler Chair in Bioinformatics, and is the founder and former head of the Edmond J. Safra Center for Bioinformatics at Tel Aviv University.

<span class="mw-page-title-main">Gary Stormo</span> American geneticist (born 1950)

Gary Stormo is an American geneticist and currently Joseph Erlanger Professor in the Department of Genetics and the Center for Genome Sciences and Systems Biology at Washington University School of Medicine in St Louis. He is considered one of the pioneers of bioinformatics and genomics. His research combines experimental and computational approaches in order to identify and predict regulatory sequences in DNA and RNA, and their contributions to the regulatory networks that control gene expression.

Mathieu Daniel Blanchette is a computational biologist and Director of the School of Computer Science at McGill University. His research focuses on developing new algorithms for the detection of functional regions in DNA sequences.

<span class="mw-page-title-main">Curtis Huttenhower</span> American biologist (born 1981)

Curtis Huttenhower is a Professor of Computational Biology and Bioinformatics in the Department of Biostatistics, School of Public Health, Harvard University.

Michael Andrew Fischbach is an American chemist, microbiologist, and geneticist. He is an associate professor of Bioengineering and ChEM-H Faculty Fellow at Stanford University and a Chan Zuckerberg Biohub Investigator.

<span class="mw-page-title-main">Janet Kelso</span> South African bioinformatician

Janet Kelso is a South African computational biologist and Group leader of the Minerva Research Group for Bioinformatics at the Max Planck Institute for Evolutionary Anthropology. She is best known for her work comparing DNA from previous humans with those of the present.

Alexander Marson is an American biologist and infectious disease doctor, specializing in genetics, human immunology, and CRISPR genome engineering. He is the Director of the Gladstone-UCSF Institute of Genomic Immunology, and a tenured Professor with a dual appointment in the Department of Medicine and the Department of Microbiology & Immunology at the University of California, San Francisco (UCSF).

<span class="mw-page-title-main">Christophe Dessimoz</span>

Christophe Dessimoz is a Swiss National Science Foundation (SNSF) Professor at the University of Lausanne, Associate Professor at University College London and a group leader at the Swiss Institute of Bioinformatics. He was awarded the Overton Prize in 2019 for his contributions to computational biology. Starting in April 2022, he will be joint executive director of the SIB Swiss Institute of Bioinformatics, along with Ron Appel.

Zhiping Weng is the Li Weibo Professor of biomedical research and chair of the program in integrative biology and bioinformatics at the University of Massachusetts Medical School. She was awarded Fellowship of the International Society for Computational Biology (ISCB) in 2020 for outstanding contributions to computational biology and bioinformatics.

Donald "Don" Emil Ganem is an American physician, virologist, professor emeritus of microbiology and medicine, and former global head of infectious disease research at Novartis Institutes for BioMedical Research (NIBR).

References

  1. 1 2 Katherine Pollard publications indexed by Google Scholar OOjs UI icon edit-ltr-progressive.svg
  2. 1 2 Katherine Pollard at the Mathematics Genealogy Project OOjs UI icon edit-ltr-progressive.svg
  3. Katherine Pollard publications from Europe PubMed Central
  4. Katherine Pollard publications indexed by the Scopus bibliographic database. (subscription required)
  5. "Investigator Competition 2021". CZ Biohub. Retrieved 2022-01-13.
  6. "ISCB Fellows". www.iscb.org. Archived from the original on 2017-03-20. Retrieved 2020-07-20.
  7. "February 19, 2020: ISCB Congratulates and Introduces the 2020 Class of Fellows!". www.iscb.org.
  8. Pollard, Katherine Snowden (2003). Computationally intensive statistical methods for analysis of gene expression data. berkeley.edu (PhD thesis). University of California, Berkeley. OCLC   937442296. ProQuest   305339168.
  9. The Chimpanzee Sequencing and Analysis Consortium (2005). "Initial sequence of the chimpanzee genome and comparison with the human genome". Nature. 437 (7055): 69–87. Bibcode:2005Natur.437...69.. doi: 10.1038/nature04072 . ISSN   0028-0836. PMID   16136131.
  10. Pollard, K. S.; Hubisz, M. J.; Rosenbloom, K. R.; Siepel, A. (2009). "Detection of nonneutral substitution rates on mammalian phylogenies". Genome Research. 20 (1): 110–121. doi:10.1101/gr.097857.109. ISSN   1088-9051. PMC   2798823 . PMID   19858363.
  11. 1 2 Pollard KS, Salama SR, King B, Kern AD, Dreszer T, Katzman S, Siepel A, Pedersen JS, Bejerano G, Baertsch R, Rosenbloom KR, Kent J, Haussler D (2006). "Forces shaping the fastest evolving regions in the human genome". PLOS Genetics . 2 (10): e168. doi: 10.1371/journal.pgen.0020168 . PMC   1599772 . PMID   17040131.
  12. Kostka D, Hubisz MJ, Siepel A, Pollard KS (2012). "The role of GC-biased gene conversion in shaping the fastest evolving regions of the human genome". Molecular Biology and Evolution . 29 (3): 1047–57. doi:10.1093/molbev/msr279. PMC   3278478 . PMID   22075116.
  13. The Human Microbiome Project Consortium (2012). "Structure, function and diversity of the healthy human microbiome". Nature. 486 (7402): 207–214. Bibcode:2012Natur.486..207T. doi:10.1038/nature11234. ISSN   0028-0836. PMC   3564958 . PMID   22699609.
  14. The Human Microbiome Project Consortium (2012). "A framework for human microbiome research". Nature. 486 (7402): 215–221. Bibcode:2012Natur.486..215T. doi:10.1038/nature11209. ISSN   0028-0836. PMC   3377744 . PMID   22699610.
  15. Frasure, Hannah (18 November 2022). "Scientist Katie Pollard PO '95 nationally recognized for groundbreaking biology research". The Student Life. Retrieved 2 December 2022.