A. Detweiler

发表

Vertical distribution of algal productivity in open pond raceways

T. Murphy, B. Kapili, A. Detweiler, 2015 .

Shotgun metagenome data of a defined mock community using Oxford Nanopore, PacBio and Illumina technologies

H. Klenk, R. O’Malley, R. Egan, 2019, Scientific Data.

Assessing the role of alkaline soils on the carbon cycle at a playa site

C. McKay, M. Loewenstein, L. Iraci, 2013, Environmental Earth Sciences.

Clinical features, diagnostics, and outcomes of patients presenting with acute respiratory illness: A retrospective cohort study of patients with and without COVID-19

Angela Oliveira Pisco, Nader Najafi, John R. Haliburton, 2020, EClinicalMedicine.

The Tabula Sapiens: a multiple organ single cell transcriptomic atlas of humans

Venkata. N. P. Vemuri, Robert C. Jones, N. Neff, 2022, bioRxiv.

An Unusual Inverted Saline Microbial Mat Community in an Interdune Sabkha in the Rub' Alkhali (the Empty Quarter), UAE: an Analog for Habitats on Present Mars

C. McKay, J. Rask, J. Chanton, 2016 .

Prolonged silent carriage, genomic virulence potential and transmission between staff and patients characterize a neonatal intensive care unit (NICU) outbreak of methicillin-resistant Staphylococcus aureus (MRSA)

N. Neff, J. Derisi, D. Yokoe, 2022, Infection Control & Hospital Epidemiology.

Negative plant-microbiome feedback limits productivity in aquaponics

N. Baliga, Michael D. Lee, S. Gibbons, 2019, bioRxiv.

High importance of autochthonous basal food source for the food web of a Brazilian tropical stream regardless of shading

A. Hershey, A. Detweiler, T. Moulton, 2016 .

Upper airway gene expression shows a more robust adaptive immune response to SARS-CoV-2 in children

N. Neff, J. Derisi, A. Pisco, 2022, Nature Communications.

Dissecting the contributions of tumor heterogeneity on metastasis at single-cell resolution

Marco Y. Hein, Zev J. Gartner, Christopher S. McGinnis, 2022, bioRxiv.

Correction to: The Effect of Bacterial Sulfate Reduction Inhibition on the Production and Stable Isotopic Composition of Methane in Hypersaline Environments

J. Chanton, C. Kelley, A. Detweiler, 2020, Aquatic Geochemistry.

The Effect of Bacterial Sulfate Reduction Inhibition on the Production and Stable Isotopic Composition of Methane in Hypersaline Environments

J. Chanton, C. Kelley, A. Detweiler, 2019, Aquatic Geochemistry.

Upper airway gene expression differentiates COVID-19 from other acute respiratory illnesses and reveals suppression of innate immune responses by SARS-CoV-2

N. Neff, J. Derisi, A. Pisco, 2020, medRxiv.

Identification of a Polymorphism in the N Gene of SARS-CoV-2 That Adversely Impacts Detection by Reverse Transcription-PCR

James T. Webber, Sidney M. Bell, N. Neff, 2020, Journal of Clinical Microbiology.

Leveraging the pulmonary immune response and microbiome for improved lower respiratory tract infection diagnosis in critically ill children

N. Neff, P. Mourani, A. Detweiler, 2022, medRxiv.

Lettuce (Lactuca sativa) productivity influenced by microbial inocula under nitrogen-limited conditions in aquaponics

N. Baliga, Michael D. Lee, S. Gibbons, 2021, PloS one.

Upper airway gene expression reveals suppressed immune responses to SARS-CoV-2 compared with other respiratory viruses

N. Neff, J. Derisi, A. Pisco, 2020, Nature Communications.

Fly Cell Atlas: A single-nucleus transcriptomic atlas of the adult fruit fly

Daniel A. Sutton, Stephen L. Holtz, A. M. Allen, 2022, Science.

A sandbox for prediction and integration of DNA, RNA, and protein data in single cells

Fabian J Theis, Daniel B. Burkhardt, Malte D. Luecken, 2021 .

Cell types of origin of the cell-free transcriptome

Venkata. N. P. Vemuri, Robert C. Jones, N. Neff, 2022, Nature Biotechnology.

A 2-Gene Host Signature for Improved Accuracy of COVID-19 Diagnosis Agnostic to Viral Variants

N. Neff, J. Derisi, A. Pisco, 2022, medRxiv.

DiMeLo-seq: a long-read, single-molecule method for mapping protein-DNA interactions genome-wide

Aaron M. Streets, Karen H. Miga, N. Neff, 2021, Nature Methods.

Rapid deployment of SARS-CoV-2 testing: The CLIAHUB

James T. Webber, Jeffrey A. Hussmann, John R. Haliburton, 2020, PLoS pathogens.

Genomic Epidemiology and Transmission Dynamics of Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) in Congregate Healthcare Facilities in Santa Clara County, California

James T. Webber, Mark A. Zhang, N. Neff, 2021, Clinical Infectious Diseases.

Using genomic epidemiology of SARS-CoV-2 to support contact tracing and public health surveillance in rural Humboldt County, California

N. Neff, J. Derisi, J. Batson, 2022, BMC Public Health.

Early prediction of preeclampsia in pregnancy with cell-free RNA

N. Neff, R. Sit, V. Winn, 2022, Nature.

Early prediction of preeclampsia in pregnancy with cell-free RNA

N. Neff, S. Quake, G. Shaw, 2022, Nature.

Using genomic epidemiology of SARS-CoV-2 to support contact tracing and public health surveillance in rural Humboldt County, California

N. Neff, J. Derisi, J. Batson, 2021, BMC Public Health.

Identification of a polymorphism in the N gene of SARS-CoV-2 that adversely impacts detection by a widely-used RT-PCR assay

James T. Webber, Sidney M. Bell, N. Neff, 2020, bioRxiv.

Clinical features, diagnostics, and outcomes of patients presenting with acute respiratory illness: a comparison of patients with and without COVID-19

John R. Haliburton, N. Neff, J. Derisi, 2020, medRxiv.

Metagenomics reveals niche partitioning within the phototrophic zone of a microbial mat

U. Karaoz, P. Weber, A. Detweiler, 2017, bioRxiv.

Establishment of stable synthetic mutualism without co-evolution between microalgae and bacteria demonstrated by mutual transfer of metabolites (NanoSIMS isotopic imaging) and persistent physical association (Fluorescent in situ hybridization)

Y. Bashan, L. de-Bashan, Juan-Pablo Hernández, 2016 .

Zebrahub – Multimodal Zebrafish Developmental Atlas Reveals the State Transition Dynamics of Late Vertebrate Pluripotent Axial Progenitors

Loic A. Royer, N. Neff, O. Pourquié, 2023, bioRxiv.

Tracheal aspirate RNA sequencing identifies distinct immunological features of COVID-19 ARDS

Kenneth T. Hu, Kamir J. Hiam, N. Neff, 2021, Nature Communications.

Evaluation of wavelength selective photovoltaic panels on microalgae growth and photosynthetic efficiency

C. Corrado, S. Carter, A. Detweiler, 2015 .

Trimethylamine and Organic Matter Additions Reverse Substrate Limitation Effects on the δ13C Values of Methane Produced in Hypersaline Microbial Mats

C. Kelley, A. Detweiler, B. Bebout, 2014, Applied and Environmental Microbiology.

Genomic epidemiologic assessment implicates prolonged silent carriage, virulence factors and transmission between staff and patients in a NICU outbreak of MRSA.

N. Neff, D. Yokoe, L. Li, 2021, medRxiv.

Permanent draft genome of strain ESFC-1: ecological genomics of a newly discovered lineage of filamentous diazotrophic cyanobacteria

A. Detweiler, B. Bebout, L. Prufert-Bebout, 2016, Standards in genomic sciences.

Discovery of Chlorophyll d: Isolation and Characterization of a Far-Red Cyanobacterium from the Original Site of Manning and Strain (1943) at Moss Beach, California

Jared T. Broddrick, N. Kiang, Robert Eugene Blankenship, 2022, Microorganisms.

Upper airway gene expression reveals a more robust innate and adaptive immune response to SARS-CoV-2 in children compared with older adults

N. Neff, J. Derisi, A. Pisco, 2021, medRxiv.

Millimeter-scale vertical partitioning of nitrogen cycling in hypersaline mats reveals prominence of genes encoding multi-heme and prismane proteins

A. Detweiler, B. Bebout, P. Maza-Márquez, 2021, The ISME Journal.

An Unusual Inverted Saline Microbial Mat Community in an Interdune Sabkha in the Rub' al Khali (the Empty Quarter), United Arab Emirates

J. Rask, J. Chanton, B. Kapili, 2016, PloS one.

Metagenomic analysis of intertidal hypersaline microbial mats from Elkhorn Slough, California, grown with and without molybdate

Eoin L. Brodie, S. Tringe, P. D’haeseleer, 2017, Standards in genomic sciences.

Zebrahub – Multimodal Zebrafish Developmental Atlas Reveals the State-Transition Dynamics of Late-Vertebrate Pluripotent Axial Progenitors

Loic A. Royer, N. Neff, O. Pourquié, 2023, bioRxiv.

Discovering disease-causing pathogens in resource-scarce Southeast Asia using a global metagenomic pathogen monitoring system

Katrina L Kalantar, N. Neff, J. Derisi, 2021, medRxiv.

Millimeter-scale vertical partitioning of nitrogen cycling in hypersaline mats reveals prominence of genes encoding multi-heme and prismane proteins

A. Detweiler, B. Bebout, P. Maza-Márquez, 2021, The ISME Journal.

Draft Genome Sequence of an Oscillatorian Cyanobacterium, Strain ESFC-1

N. Kyrpides, S. Singer, T. Woyke, 2013, Genome Announcements.

Integrated host/microbe metagenomics enables accurate lower respiratory tract infection diagnosis in critically ill children

Katrina L Kalantar, N. Neff, J. Derisi, 2023, The Journal of clinical investigation.

Hyperspectral Biofilm Classification Analysis for Carrying Capacity of Migratory Birds in the South Bay Salt Ponds

M. Newcomer, J. Skiles, A. Detweiler, 2011 .

In host evolution of beta lactam resistance during active treatment for Pseudomonas aeruginosa bacteremia

N. Neff, J. Derisi, J. Engel, 2023, Frontiers in cellular and infection microbiology.