List of works - Lynn Schriml

A framework for human microbiome research

scientific article

A harmonized meta-knowledgebase of clinical interpretations of somatic genomic variants in cancer

scientific article published on 03 April 2020

A radiation hybrid map of mouse genes

article

Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs

scientific article (publication date: 5 December 2002)

Annotating public fungal ITS sequences from the built environment according to the MIxS-Built Environment standard – a report from a May 23-24, 2016 workshop (Gothenburg, Sweden)

scientific article (publication date: 26 September 2016)

Annotating unknown species of urban microorganisms on a global scale unveils novel functional diversity and local environment association

scientific article published in 2022

Assessing resource use: a case study with the Human Disease Ontology

scientific article published in January 2023

Author response: Wikidata as a knowledge graph for the life sciences

scholarly article, peer review and author response published on 24 January 2020

COVID-19 pandemic reveals the peril of ignoring metadata standards

scientific article published on 19 June 2020

Connecting sequence and biology in the laboratory mouse

scientific article

Consent insufficient for data release-Response

scientific article published on 01 May 2019

Corrigendum: Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea

scientific article published in February 2018

Corrigendum: Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea

article

Creating a Translational Medicine Ontology

Database resources of the National Center for Biotechnology Information

scientific article (published 2005-01-01)

Database resources of the National Center for Biotechnology Information

scientific article (published 2006-01-01)

Database resources of the National Center for Biotechnology Information: 2002 update ⬇️

scientific article published on January 1, 2002

Development and evaluation of an automated annotation pipeline and cDNA annotation system

scientific article

Disease Ontology 2015 update: an expanded and updated database of human diseases for linking biomedical knowledge through disease data

scientific article

Disease Ontology: a backbone for disease semantic integration

scientific article

Disease Ontology: improving and unifying disease annotations across species.

scientific article

Diseasomics: Actionable machine interpretable disease knowledge at the point-of-care

scientific article published in 2022

ECO, the Evidence & Conclusion Ontology: community standard for evidence information

scholarly article

FAIRsharing, a cohesive community approach to the growth in standards, repositories and policies

FoodOn: a harmonized food ontology to increase global food traceability, quality control and data integration

scientific article published on 18 December 2018

Functional annotation of a full-length mouse cDNA collection

scientific article (publication date: 8 February 2001)

GeMInA, Genomic Metadata for Infectious Agents, a geospatial surveillance pathogen database

scientific article

Generating a focused view of disease ontology cancer terms for pan-cancer data integration and analysis

scientific article

Genomic Methods and Microbiological Technologies for Profiling Novel and Extreme Environments for the Extreme Microbiome Project (XMP)

scientific article

Genomic Standards Consortium Projects

article

Genomic standards consortium projects

scientific article

Global Genetic Cartography of Urban Metagenomes and Anti-Microbial Resistance

scientific article published on 06 August 2019

Habitat-Lite: a GSC case study based on free text terms for environmental metadata

scientific article published on June 2008

Human Disease Ontology 2018 update: classification, content and workflow expansion

Human disease genes and their cloned mouse orthologs: exploration of the FANTOM2 cDNA sequence data set

scientific article

Identification of 18 mouse ABC genes and characterization of the ABC superfamily in Mus musculus

scientific article published in February 2000

Integrated Genomic Analysis of Diverse Induced Pluripotent Stem Cells from the Progenitor Cell Biology Consortium

scientific article

Laying the foundation for a Genomic Rosetta Stone: creating information hubs through the use of consensus identifiers

scientific article published on June 2008

Linking Wikidata to the Rest of the Semantic Web ⬇️

scientific article (publication date: 19 February 2017)

MIxS-BE: a MIxS extension defining a minimum information standard for sequence data from the built environment.

scientific article

Meeting Report from the Genomic Standards Consortium (GSC) Workshop 10

scientific article (publication date: 25 December 2010)

Meeting Report from the Genomic Standards Consortium (GSC) Workshop 9

scientific article (publication date: 4 December 2010)

Meeting Report: "Metagenomics, Metadata and Meta-analysis" (M3) Workshop at the Pacific Symposium on Biocomputing 2010.

scientific article

Meeting report: the fifth Genomic Standards Consortium (GSC) workshop

scientific article published in June 2008

Metagenomes and metatranscriptomes from the L4 long-term coastal monitoring station in the Western English Channel

scientific article

Metagenomics: A foundling finds its feet

scientific article

Minimum Information about an Uncultivated Virus Genome (MIUViG)

scientific article published on 17 December 2018

Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications

scientific article

Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea.

scientific article

Modeling the enigma of complex disease etiology

scientific article published on 25 February 2023

Molecular, phenotypic, and sample-associated data to describe pluripotent stem cell lines and derivatives

scientific article

OBO Foundry in 2021: operationalizing open data principles to evaluate ontologies

scientific article published on 13 October 2021

Parasite microbiome project: Grand challenges

scientific article published on 10 October 2019

RCN4GSC Workshop Report: Managing Data at the Interface of Biodiversity and (Meta)Genomics, March 2011.

scientific article

Report of the 13(th) Genomic Standards Consortium Meeting, Shenzhen, China, March 4-7, 2012

scientific article (publication date: 25 May 2012)

Report of the 14th Genomic Standards Consortium Meeting, Oxford, UK, September 17-21, 2012

scientific article

Resources for genetic and genomic studies of Xenopus

scientific article published in January 2006

Standardized metadata for human pathogen/vector genomic sequences

scientific article (publication date: 2014)

Structure, function and diversity of the healthy human microbiome

scientific article

The DO-KB Knowledgebase: a 20-year journey developing the disease open science ecosystem

scientific article published on 11 November 2023

The Disease Ontology: fostering interoperability between biological and clinical human disease-related data

scientific article

The Genomic Standards Consortium

scientific article (publication date: June 2011)

The Human Disease Ontology 2022 update

scientific article published on 01 January 2022

The Metadata Coverage Index (MCI): A standardized metric for quantifying database metadata richness

scientific article (publication date: 30 July 2012)

The Translational Medicine Ontology and Knowledge Base: driving personalized medicine by bridging the gap between bench and bedside ⬇️

scientific article (publication date: 17 May 2011)

The founding charter of the Omic Biodiversity Observation Network (Omic BON)

scientific article published in 2022

The “Minimum Information about an ENvironmental Sequence” (MIENS) specification

Toward unrestricted use of public genomic data:

scientific article

Wikidata as a FAIR knowledge graph for the life sciences

scholarly article posted as a preprint in BioRxiv on 11 February 2020

Wikidata as a knowledge graph for the life sciences ⬇️

scientific article published on 17 March 2020

Wikidata as a linked-data hub for Biodiversity data

scientific article published on 18 June 2019

Wikidata as a semantic framework for the Gene Wiki initiative ⬇️

scientific article

Wikidata as a semantic framework for the Gene Wiki initiative

bioRxiv preprint

Wikidata as an intuitive resource towards semantic data modeling in data FAIRification ⬇️

scholarly article by Annika Jacobsen published in December 2018

Wikidata: A platform for data integration and dissemination for the life sciences and beyond ⬇️

2015 scientific article

List of works by Lynn Schriml

A framework for human microbiome research

A harmonized meta-knowledgebase of clinical interpretations of somatic genomic variants in cancer

A radiation hybrid map of mouse genes

Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs

Annotating public fungal ITS sequences from the built environment according to the MIxS-Built Environment standard – a report from a May 23-24, 2016 workshop (Gothenburg, Sweden)

Annotating unknown species of urban microorganisms on a global scale unveils novel functional diversity and local environment association

Assessing resource use: a case study with the Human Disease Ontology

Author response: Wikidata as a knowledge graph for the life sciences

COVID-19 pandemic reveals the peril of ignoring metadata standards

Connecting sequence and biology in the laboratory mouse

Consent insufficient for data release-Response

Corrigendum: Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea

Corrigendum: Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea

Creating a Translational Medicine Ontology

Creating a Translational Medicine Ontology

Database resources of the National Center for Biotechnology Information

Database resources of the National Center for Biotechnology Information

Database resources of the National Center for Biotechnology Information: 2002 update ⬇️

Development and evaluation of an automated annotation pipeline and cDNA annotation system

Disease Ontology 2015 update: an expanded and updated database of human diseases for linking biomedical knowledge through disease data

Disease Ontology: a backbone for disease semantic integration

Disease Ontology: improving and unifying disease annotations across species.

Diseasomics: Actionable machine interpretable disease knowledge at the point-of-care

ECO, the Evidence & Conclusion Ontology: community standard for evidence information

FAIRsharing, a cohesive community approach to the growth in standards, repositories and policies

FoodOn: a harmonized food ontology to increase global food traceability, quality control and data integration

Functional annotation of a full-length mouse cDNA collection

GeMInA, Genomic Metadata for Infectious Agents, a geospatial surveillance pathogen database

Generating a focused view of disease ontology cancer terms for pan-cancer data integration and analysis

Genomic Methods and Microbiological Technologies for Profiling Novel and Extreme Environments for the Extreme Microbiome Project (XMP)

Genomic Standards Consortium Projects

Genomic standards consortium projects

Global Genetic Cartography of Urban Metagenomes and Anti-Microbial Resistance

Habitat-Lite: a GSC case study based on free text terms for environmental metadata

Human Disease Ontology 2018 update: classification, content and workflow expansion

Human disease genes and their cloned mouse orthologs: exploration of the FANTOM2 cDNA sequence data set

Identification of 18 mouse ABC genes and characterization of the ABC superfamily in Mus musculus

Integrated Genomic Analysis of Diverse Induced Pluripotent Stem Cells from the Progenitor Cell Biology Consortium

Laying the foundation for a Genomic Rosetta Stone: creating information hubs through the use of consensus identifiers

Linking Wikidata to the Rest of the Semantic Web ⬇️

MIxS-BE: a MIxS extension defining a minimum information standard for sequence data from the built environment.

Meeting Report from the Genomic Standards Consortium (GSC) Workshop 10

Meeting Report from the Genomic Standards Consortium (GSC) Workshop 9

Meeting Report: "Metagenomics, Metadata and Meta-analysis" (M3) Workshop at the Pacific Symposium on Biocomputing 2010.

Meeting report: the fifth Genomic Standards Consortium (GSC) workshop

Metagenomes and metatranscriptomes from the L4 long-term coastal monitoring station in the Western English Channel

Metagenomics: A foundling finds its feet

Minimum Information about an Uncultivated Virus Genome (MIUViG)

Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications

Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea.

Modeling the enigma of complex disease etiology

Molecular, phenotypic, and sample-associated data to describe pluripotent stem cell lines and derivatives

OBO Foundry in 2021: operationalizing open data principles to evaluate ontologies

Parasite microbiome project: Grand challenges

RCN4GSC Workshop Report: Managing Data at the Interface of Biodiversity and (Meta)Genomics, March 2011.

Report of the 13(th) Genomic Standards Consortium Meeting, Shenzhen, China, March 4-7, 2012

Report of the 14th Genomic Standards Consortium Meeting, Oxford, UK, September 17-21, 2012

Resources for genetic and genomic studies of Xenopus

Standardized metadata for human pathogen/vector genomic sequences

Structure, function and diversity of the healthy human microbiome

The DO-KB Knowledgebase: a 20-year journey developing the disease open science ecosystem

The Disease Ontology: fostering interoperability between biological and clinical human disease-related data

The Genomic Standards Consortium

The Human Disease Ontology 2022 update

The Metadata Coverage Index (MCI): A standardized metric for quantifying database metadata richness

The Translational Medicine Ontology and Knowledge Base: driving personalized medicine by bridging the gap between bench and bedside ⬇️

The founding charter of the Omic Biodiversity Observation Network (Omic BON)

The “Minimum Information about an ENvironmental Sequence” (MIENS) specification

The “Minimum Information about an ENvironmental Sequence” (MIENS) specification

Toward unrestricted use of public genomic data:

Wikidata as a FAIR knowledge graph for the life sciences

Wikidata as a knowledge graph for the life sciences ⬇️

Wikidata as a linked-data hub for Biodiversity data

Wikidata as a semantic framework for the Gene Wiki initiative ⬇️

Wikidata as a semantic framework for the Gene Wiki initiative

Wikidata as an intuitive resource towards semantic data modeling in data FAIRification ⬇️

Wikidata: A platform for data integration and dissemination for the life sciences and beyond ⬇️