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USD 200 /hr

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Hire Dr. Emily C.

United States

USD 200 /hr

Biochemist with expertise in molecular diagnostics of infectious disease, including NGS and CRISPR-based methods

Profile Summary

For eight months in 2020 I lead a team of scientists and volunteers running the CLIAHUB COVID-19 clinical diagnostics lab at UCSF/CZ Biohub. Prior to COVID, I developed CRISPR-based targeted Next Gen Sequencing methods.

Subject Matter Expertise

• ★ COVID-19
• ☆ Biochemistry
• ☆ Molecular Biology
• ☆ Next Generation Sequencing (NGS)
• ☆ Gene Editing/CRISPR
• ☆ Infectious Disease

Services

• Writing
• Research
• Consulting

Writing Technical Writing, Copywriting, Newswriting

Research Fact Checking, Gray Literature Search, Systematic Literature Review, Secondary Data Collection

Consulting Scientific and Technical Consulting

Work Experience

Assistant Adjunct Professor

University of California San Francisco

2019 - Present

Group Leader

CZ Biohub

2016 - 2020

Postdoc

University of California, San Francisco

2014 - 2016

Postdoc

German Center for Neurodegenerative Diseases

2012 - 2013

Research Associate

Broad Institute

2003 - 2005

Education

PhD (Chemistry and Chemical Biology)

University of California, San Francisco

2005 - 2012

AB (Department of Molecular, Cellular and Developmental Biology)

Bryn Mawr College

1999 - 2003

Certifications

• Certification details not provided.

Publications

JOURNAL ARTICLE

Bálint Csörgő, Lina M. León, Ilea J. Chau-Ly, Alejandro Vasquez-Rifo, Joel D. Berry, Caroline Mahendra, Emily D. Crawford, Jennifer D. Lewis, Joseph Bondy-Denomy(2020). A compact Cascade{\textendash}Cas3 system for targeted genome engineering . Nature Methods. Springer Science and Business Media {LLC}

Manu Vanaerschot, Sabrina A. Mann, James T. Webber, Jack Kamm, Sidney M. Bell, John Bell, Si Noon Hong, Minh Phuong Nguyen, Lienna Y. Chan, Karan D. Bhatt, et al.(2020). Identification of a polymorphism in the N gene of {SARS}-{CoV}-2 that adversely impacts detection by {RT}-{PCR} . Journal of Clinical Microbiology. American Society for Microbiology

Emily D. Crawford, Irene Acosta, Vida Ahyong, Erika C. Anderson, Shaun Arevalo, Daniel Asarnow, Shannon Axelrod, Patrick Ayscue, Camillia S. Azimi, Caleigh M. Azumaya, et al. (2020). Rapid deployment of SARS-CoV-2 testing: The CLIAHUB . PLOS Pathogens.

Kristoffer E. Leon, Ryan D. Schubert, Didac Casas-Alba, Isobel A. Hawes, Prashanth S. Ramachandran, Akshaya Ramesh, John E. Pak, Wesley Wu, Carly K. Cheung, Emily D. Crawford, et al. (2020). Genomic and serologic characterization of enterovirus A71 brainstem encephalitis . Neurology - Neuroimmunology Neuroinflammation.

E. Rackaityte, J. Halkias, E. M. Fukui, V. F. Mendoza, C. Hayzelden, E. D. Crawford, K. E. Fujimura, T. D. Burt, S. V. Lynch(2020). Viable bacterial colonization is highly limited in the human intestine in utero . Nature Medicine. Springer Science and Business Media {LLC}

Leon, K.E., Schubert, R.D., Casas-Alba, D., Hawes, I.A., Ramachandran, P.S., Ramesh, A., Pak, J.E., Wu, W., Cheung, C.K., Crawford, E.D., et al.(2020). Genomic and serologic characterization of enterovirus A71 brainstem encephalitis . Neurology(R) neuroimmunology & neuroinflammation. 7. (3).

Crawford, E., Kamm, J., Miller, S., Li, L.M., Caldera, S., Lyden, A., Yokoe, D., Nichols, A., Tran, N.K., Barnard, S.E., et al.(2020). Investigating transfusion-related sepsis using culture-independent metagenomic sequencing . Clinical Infectious Diseases. 71. (5). p. 1179-1185.

Fridey, J.L., Stramer, S.L., Nambiar, A., Moayeri, M., Bakkour, S., Langelier, C., Crawford, E., Lu, T., Lanteri, M.C., Kamm, J., et al.(2020). Sepsis from an apheresis platelet contaminated with Acinetobacter calcoaceticus/baumannii complex bacteria and Staphylococcus saprophyticus after pathogen reduction . Transfusion. 60. (9). p. 1960-1969.

Rackaityte, E., Halkias, J., Fukui, E.M., Mendoza, V.F., Hayzelden, C., Crawford, E.D., Fujimura, K.E., Burt, T.D., Lynch, S.V.(2020). Viable bacterial colonization is highly limited in the human intestine in utero . Nature Medicine. 26. (4). p. 599-607.

Crawford, E.D., Acosta, I., Ahyong, V., Anderson, E.C., Arevalo, S., Asarnow, D., Axelrod, S., Ayscue, P., Azimi, C.S., Azumaya, C.M., et al.(2020). Rapid deployment of SARS-CoV-2 testing: The CLIAHUB . PLoS Pathogens. 16. (10).

Briggs, J., Teyssier, N., Nankabirwa, J.I., Rek, J., Jagannathan, P., Arinaitwe, E., Bousema, T., Drakeley, C., Murray, M., Crawford, E., et al.(2020). Sex-based differences in clearance of chronic plasmodium falciparum infection . eLife. 9. p. 1-14.

Csörgő, B., León, L.M., Chau-Ly, I.J., Vasquez-Rifo, A., Berry, J.D., Mahendra, C., Crawford, E.D., Lewis, J.D., Bondy-Denomy, J.(2020). A compact Cascade–Cas3 system for targeted genome engineering . Nature Methods. 17. (12). p. 1183-1190.

Parinaz Fozouni, Sungmin Son, María Díaz de León Derby, Gavin J. Knott, Carley N. Gray, Michael V. D’Ambrosio, Chunyu Zhao, Neil A. Switz, G. Renuka Kumar, Stephanie I. Stephens, et al.(2020). Amplification-free detection of {SARS}-{CoV}-2 with {CRISPR}-Cas13a and mobile phone microscopy . Cell. Elsevier {BV}

Ramachandran, P.S., Cresswell, F.V., Meya, D.B., Langelier, C., Crawford, E.D., Derisi, J.L., Boulware, D.R., Wilson, M.R.(2019). Detection of Cryptococcus DNA by Metagenomic Next-generation Sequencing in Symptomatic Cryptococcal Antigenemia . Clinical Infectious Diseases. 68. (11). p. 1978-1979.

Quan, J., Langelier, C., Kuchta, A., Batson, J., Teyssier, N., Lyden, A., Caldera, S., McGeever, A., Dimitrov, B., King, R., et al.(2019). FLASH: a next-generation CRISPR diagnostic for multiplexed detection of antimicrobial resistance sequences . Nucleic acids research. 47. (14). p. e83.

Schubert, R.D., Hawes, I.A., Ramachandran, P.S., Ramesh, A., Crawford, E.D., Pak, J.E., Wu, W., Cheung, C.K., O’Donovan, B.D., Tato, C.M., et al.(2019). Pan-viral serology implicates enteroviruses in acute flaccid myelitis . Nature Medicine. 25. (11). p. 1748-1752.

Zinter, M.S., Dvorak, C.C., Mayday, M.Y., Iwanaga, K., Ly, N.P., McGarry, M.E., Church, G.D., Faricy, L.E., Rowan, C.M., Hume, J.R., et al.(2019). Pulmonary Metagenomic Sequencing Suggests Missed Infections in Immunocompromised Children . Clinical Infectious Diseases. 68. (11). p. 1847-1855.

Woodworth, M.H., Dynerman, D., Crawford, E.D., Doernberg, S.B., Ramirez-Avila, L., Serpa, P.H., Nichols, A., Li, L.M., Lyden, A., Tato, C.M., et al.(2019). Sentinel case of Candida auris in the Western United States following prolonged occult colonization in a returned traveler from India . Microbial Drug Resistance. 25. (5). p. 677-680.

Saha, S., Ramesh, A., Kalantar, K., Malaker, R., Hasanuzzaman, M., Khan, L.M., Mayday, M.Y., Sajib, M.S.I., Li, L.M., Langelier, C., et al.(2019). Unbiased metagenomic sequencing for pediatric meningitis in bangladesh reveals neuroinvasive chikungunya virus outbreak and other unrealized pathogens . mBio. 10. (6).

Qu, J., Prasad, N.K., Yu, M.A., Chen, S., Lyden, A., Herrera, N., Silvis, M.R., Crawford, E., Looney, M.R., Peters, J.M., et al.(2019). Modulating pathogenesis with MOBILE-CRISPRI . Journal of Bacteriology. 201. (22).

Mulliken, J.S., Langelier, C., Budak, J.Z., Miller, S., Dynerman, D., Hao, S., Li, L.M., Crawford, E., Lyden, A., Woodworth, M.H., et al.(2019). Bergeyella cardium: Clinical characteristics and draft genome of an emerging pathogen in native and prosthetic valve endocarditis . Open Forum Infectious Diseases. 6. (4).

Langelier, C., Kalantar, K.L., Moazed, F., Wilson, M.R., Crawford, E.D., Deiss, T., Belzer, A., Bolourchi, S., Caldera, S., Fung, M., et al.(2018). Integrating host response and unbiased microbe detection for lower respiratory tract infection diagnosis in critically ill adults . Proceedings of the National Academy of Sciences of the United States of America. 115. (52). p. E12353-E12362.

Emily D. Crawford, Hodaka Fujii, Jenai Quan, Jeremy A. Horst, Daniel Ebert, Wesley Wu, Joseph L. DeRisi(2017). Plasmid-free {CRISPR}/Cas9 genome editing in Plasmodium falciparum confirms mutations conferring resistance to the dihydroisoquinolone clinical candidate {SJ}733 . {PLOS} {ONE}. 12. (5). p. e0178163. Public Library of Science ({PLoS})

Crawford, E.D., Quan, J., Horst, J.A., Ebert, D., Wu, W., DeRisi, J.L.(2017). Plasmid-free CRISPR/Cas9 genome editing in Plasmodium falciparum confirms mutations conferring resistance to the dihydroisoquinolone clinical candidate SJ733 . PLoS ONE. 12. (5).

Krings, G., Joseph, N.M., Bean, G.R., Solomon, D., Onodera, C., Talevich, E., Yeh, I., Grenert, J.P., Hosfield, E., Crawford, E.D., et al.(2017). Genomic profiling of breast secretory carcinomas reveals distinct genetics from other breast cancers and similarity to mammary analog secretory carcinomas . Modern Pathology. 30. (8). p. 1086-1099.

Wilson, M.R., Zimmermann, L.L., Crawford, E.D., Sample, H.A., Soni, P.R., Baker, A.N., Khan, L.M., DeRisi, J.L.(2017). Acute West Nile Virus Meningoencephalitis Diagnosed Via Metagenomic Deep Sequencing of Cerebrospinal Fluid in a Renal Transplant Patient . American Journal of Transplantation. 17. (3). p. 803-808.

Gu, W., Crawford, E.D., O'Donovan, B.D., Wilson, M.R., Chow, E.D., Retallack, H., DeRisi, J.L.(2016). Depletion of Abundant Sequences by Hybridization (DASH): Using Cas9 to remove unwanted high-abundance species in sequencing libraries and molecular counting applications . Genome Biology. 17. (1).

Doan, T., Wilson, M.R., Crawford, E.D., Chow, E.D., Khan, L.M., Knopp, K.A., O'Donovan, B.D., Xia, D., Hacker, J.K., Stewart, J.M., et al.(2016). Erratum to: Illuminating uveitis: Metagenomic deep sequencing identifies common and rare pathogens [Genome Medicine, 8 (2016) (123)] . Genome Medicine. 8. (1).

Doan, T., Wilson, M.R., Crawford, E.D., Chow, E.D., Khan, L.M., Knopp, K.A., O'Donovan, B.D., Xia, D., Hacker, J.K., Stewart, J.M., et al.(2016). Illuminating uveitis: Metagenomic deep sequencing identifies common and rare pathogens . Genome Medicine. 8. (1).

Crawford, E.D., Seaman, J.E., Agard, N., Hsu, G.W., Julien, O., Mahrus, S., Nguyen, H., Shimbo, K., Yoshihara, H.A.I., Zhuang, M., et al.(2013). The degrabase: A database of proteolysis in healthy and apoptotic human cells . Molecular and Cellular Proteomics. 12. (3). p. 813-824.

Crawford, E.D., Seaman, J.E., Barber, A.E., David, D.C., Babbitt, P.C., Burlingame, A.L., Wells, J.A.(2012). Conservation of caspase substrates across metazoans suggests hierarchical importance of signaling pathways over specific targets and cleavage site motifs in apoptosis . Cell Death and Differentiation. 19. (12). p. 2040-2048.

Root, B.C., Pellegrino, L.D., Crawford, E.D., Kokona, B., Fairman, R.(2009). Design of a heterotetrameric coiled coil . Protein Science. 18. (2). p. 329-336.

Lamb, J., Crawford, E.D., Peck, D., Modell, J.W., Blat, I.C., Wrobel, M.J., Lerner, J., Brunet, J.-P., Subramanian, A., Ross, K.N., et al.(2006). The connectivity map: Using gene-expression signatures to connect small molecules, genes, and disease . Science. 313. (5795). p. 1929-1935.

Peck, D., Crawford, E.D., Ross, K.N., Stegmaier, K., Golub, T.R., Lamb, J.(2006). A method for high-throughput gene expression signature analysis . Genome Biology. 7. (7).

Wagner, D.E., Phillips, C.L., Ali, W.M., Nybakken, G.E., Crawford, E.D., Schwab, A.D., Smith, W.F., Fairman, R.(2005). Toward the development of peptide nanofilaments and nanoropes as smart materials . Proceedings of the National Academy of Sciences of the United States of America. 102. (36). p. 12656-12661.

OTHER

Emily Crawford, Peter Cooch, Annalisa Watson, Apryl Olarte, Joe DeRisi, Bryan Greenhouse, Jill Hakim, Keirstinne Turcios, Lee Atkinson-McEvoy, Raphael Hirsch, et al.(2020). Supervised self-collected {SARS}-{CoV}-2 testing in indoor summer camps to inform school reopening . Cold Spring Harbor Laboratory

BOOK

Crawford, E.D., Wells, J.A.(2011). Caspase substrates and cellular remodeling . Annual Review of Biochemistry. 80. p. 1055-1087.