List of works by Mark J Novotny

A machine learning method for the discovery of minimum marker gene combinations for cell type identification from single-cell RNA sequencing

scientific article published on 04 June 2021

A niche-dependent myeloid transcriptome signature defines dormant myeloma cells

scientific article published on 25 April 2019

Author Correction: L1-associated genomic regions are deleted in somatic cells of the healthy human brain

scientific article published on 01 July 2018

Candidate phylum TM6 genome recovered from a hospital sink biofilm provides genomic insights into this uncultivated phylum

scientific article

Cell type discovery and representation in the era of high-content single cell phenotyping.

scientific article published on 21 December 2017

Cell type discovery using single-cell transcriptomics: implications for ontological representation.

scientific article published on 24 March 2018

Contemporary Circulating Enterovirus D68 Strains Have Acquired the Capacity for Viral Entry and Replication in Human Neuronal Cells

scientific article published on 16 October 2018

Contemporary circulating enterovirus D68 strains show differential viral entry and replication in human neuronal cells

Corrigendum: L1-associated genomic regions are deleted in somatic cells of the healthy human brain.

scientific article

Corrigendum: Nuclear RNA-seq of single neurons reveals molecular signatures of activation

scientific article published in Nature Communications

Corrigendum: Nuclear RNA-seq of single neurons reveals molecular signatures of activation.

scientific article

Efficient de novo assembly of single-cell bacterial genomes from short-read data sets

scientific article

Erratum: Evolutionary dynamics and molecular epidemiology of West Nile virus in New York State: 1999-2015

scientific article published on 01 July 2019

Evaluation of signal detection algorithms within the Elanco Animal Health Pharmacovigilance database

scientific article published on 29 September 2020

Genome of the pathogen Porphyromonas gingivalis recovered from a biofilm in a hospital sink using a high-throughput single-cell genomics platform

scientific article published on 5 April 2013

Genomic insights to SAR86, an abundant and uncultivated marine bacterial lineage

scientific article

Genomic sequencing of single microbial cells from environmental samples

scientific article

Going deeper: metagenome of a hadopelagic microbial community

scientific article

Integrated Single-Cell Atlases Reveal an Oral SARS-CoV-2 Infection and Transmission Axis

scientific article published on 27 October 2020

L1-associated genomic regions are deleted in somatic cells of the healthy human brain.

scientific article published on 12 September 2016

Nearly finished genomes produced using gel microdroplet culturing reveal substantial intraspecies genomic diversity within the human microbiome

scientific article

Nuclear RNA-seq of single neurons reveals molecular signatures of activation

scientific article

PRODUCTION OF A PRELIMINARY QUALITY CONTROL PIPELINE FOR SINGLE NUCLEI RNA-SEQ AND ITS APPLICATION IN THE ANALYSIS OF CELL TYPE DIVERSITY OF POST-MORTEM HUMAN BRAIN NEOCORTEX.

scientific article published on January 2016

RNA-sequencing from single nuclei

scientific article

SARS-CoV-2 infection of the oral cavity and saliva

Sequence analysis of a complete 1.66 Mb Prochlorococcus marinus MED4 genome cloned in yeast

scientific article

Simultaneous deletion of the methylcytosine oxidases Tet1 and Tet3 increases transcriptome variability in early embryogenesis

scientific article

Single cells within the Puerto Rico trench suggest hadal adaptation of microbial lineages.

scientific article published on 18 September 2015

Single-Cell Transcriptomes Distinguish Stem Cell State Changes and Lineage Specification Programs in Early Mammary Gland Development

scientific article published on 01 August 2018

Systems Biology Methods Applied to Blood and Tissue for a Comprehensive Analysis of Immune Response to Hepatitis B Vaccine in Adults

scientific article published on 04 November 2020

The genome and preliminary single-nuclei transcriptome of Lemna minuta reveals mechanisms of invasiveness ⬇️

scientific article published on 01 February 2022

The green monster process for the generation of yeast strains carrying multiple gene deletions

scientific article published on 15 December 2012

The metabolic potential of the single cell genomes obtained from the Challenger Deep, Mariana Trench within the candidate superphylum Parcubacteria (OD1).

scientific article published on 22 June 2017

Transcriptomic and morphophysiological evidence for a specialized human cortical GABAergic cell type

scientific article published on 27 August 2018

Transcriptomic evidence that von Economo neurons are regionally specialized extratelencephalic-projecting excitatory neurons

scientific article published on 03 March 2020

Using single nuclei for RNA-seq to capture the transcriptome of postmortem neurons

scientific article

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