Systems biology of innate immunity (Q28752485)

describes a project that uses

Europe PubMed Central

title

Systems biology of innate immunity (English)

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author name string

Daniel E Zak

series ordinal

1

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Alan Aderem

series ordinal

2

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language of work or name

English

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publication date

January 2009

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published in

Immunological Reviews

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volume

227

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page(s)

264-82

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issue

1

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Cytoscape

1 reference

Europe PubMed Central

9 June 2022

https://europepmc.org/search?query=(METHODS:'Cytoscape')

inferred from PubMed Central ID database lookup

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16 March 2017

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16 March 2017

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16 March 2017

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Identification of Lps2 as a key transducer of MyD88-independent TIR signalling

16 March 2017

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16 March 2017

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ASC is an activating adaptor for NF-kappa B and caspase-8-dependent apoptosis

16 March 2017

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Pyogenic bacterial infections in humans with IRAK-4 deficiency

16 March 2017

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16 March 2017

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Identification of Ipaf, a human caspase-1-activating protein related to Apaf-1

16 March 2017

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Human CARD12 is a novel CED4/Apaf-1 family member that induces apoptosis

16 March 2017

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The innate immune response to bacterial flagellin is mediated by Toll-like receptor 5

16 March 2017

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Genome-wide location and function of DNA binding proteins

16 March 2017

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Quantitative analysis of complex protein mixtures using isotope-coded affinity tags

16 March 2017

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Integration of external signaling pathways with the core transcriptional network in embryonic stem cells

16 March 2017

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Multiplexed protein quantitation in Saccharomyces cerevisiae using amine-reactive isobaric tagging reagents

7 April 2017

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Connecting microRNA genes to the core transcriptional regulatory circuitry of embryonic stem cells

7 April 2017

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RNA interference screen for human genes associated with West Nile virus infection

7 April 2017

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The family of five: TIR-domain-containing adaptors in Toll-like receptor signalling

7 April 2017

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Type I interferons in host defense

7 April 2017

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The ubiquitin-modifying enzyme A20 is required for termination of Toll-like receptor responses

7 April 2017

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Genome-wide profiles of STAT1 DNA association using chromatin immunoprecipitation and massively parallel sequencing

7 April 2017

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7 April 2017

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Negative regulation of toll-like receptor-mediated immune responses

7 April 2017

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Targeted disruption of the MyD88 gene results in loss of IL-1- and IL-18-mediated function

7 April 2017

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Reverse engineering of regulatory networks in human B cells

7 April 2017

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Visualization, documentation, analysis, and communication of large-scale gene regulatory networks

9 May 2017

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Genome-wide association studies: a new window into immune-mediated diseases

20 June 2018

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MicroRNAs: new regulators of immune cell development and function

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2697920

Structures of TLR-ligand complexes

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2697920

Host innate immune receptors and beyond: making sense of microbial infections

20 June 2018

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Multiple Nod-like receptors activate caspase 1 during Listeria monocytogenes infection

20 June 2018

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Deep cap analysis gene expression (CAGE): genome-wide identification of promoters, quantification of their expression, and network inference

20 June 2018

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PeptideAtlas: a resource for target selection for emerging targeted proteomics workflows

20 June 2018

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The TRANSFAC project as an example of framework technology that supports the analysis of genomic regulation.

20 June 2018

1 reference

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Targeted quantitative analysis of Streptococcus pyogenes virulence factors by multiple reaction monitoring

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2697920

ChIPping away at gene regulation

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2697920

Uncovering a macrophage transcriptional program by integrating evidence from motif scanning and expression dynamics

20 June 2018

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Next-generation sequencing: the race is on.

20 June 2018

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Genome-wide approaches to studying chromatin modifications

20 June 2018

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Next-generation sequencing transforms today's biology

20 June 2018

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Fungal Recognition by TLR2 and Dectin-1.

20 June 2018

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Alternative splicing events identified in human embryonic stem cells and neural progenitors

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2697920

Transcription factor expression in lipopolysaccharide-activated peripheral-blood-derived mononuclear cells

20 June 2018

1 reference

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Genome-wide mapping of RELA(p65) binding identifies E2F1 as a transcriptional activator recruited by NF-kappaB upon TLR4 activation

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2697920

Exon expression profiling reveals stimulus-mediated exon use in neural cells

20 June 2018

1 reference

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A post-transcriptional regulatory switch in polypyrimidine tract-binding proteins reprograms alternative splicing in developing neurons

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2697920

MamuSNP: a resource for Rhesus Macaque (Macaca mulatta) genomics

20 June 2018

1 reference

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Toward a better analysis of secreted proteins: the example of the myeloid cells secretome

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2697920

Bacterial ligands generated in a phagosome are targets of the cytosolic innate immune system

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2697920

Cooperation of Toll-like receptor signals in innate immune defence

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2697920

Genome-wide analysis of Foxp3 target genes in developing and mature regulatory T cells.

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2697920

Alternative splicing and differential gene expression in colon cancer detected by a whole genome exon array.

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2697920

A polymorphism in Toll-interleukin 1 receptor domain containing adaptor protein is associated with susceptibility to meningeal tuberculosis

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2697920

Regulation of Legionella phagosome maturation and infection through flagellin and host Ipaf.

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2697920

Model-based analysis of tiling-arrays for ChIP-chip.

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2697920

ENU-mutagenesis: insight into immune function and pathology

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2697920

ChIP-chip comes of age for genome-wide functional analysis

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2697920

Details of Toll-like receptor:adapter interaction revealed by germ-line mutagenesis

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2697920

SBEAMS-Microarray: database software supporting genomic expression analyses for systems biology

20 June 2018

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A uniform proteomics MS/MS analysis platform utilizing open XML file formats

20 June 2018

1 reference

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Systems biology approaches identify ATF3 as a negative regulator of Toll-like receptor 4.

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2697920

The Inferelator: an algorithm for learning parsimonious regulatory networks from systems-biology data sets de novo

20 June 2018

1 reference

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Genome-wide location analysis: insights on transcriptional regulation

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2697920

Coordinated binding of NF-kappaB family members in the response of human cells to lipopolysaccharide.

20 June 2018

1 reference

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The Gaggle: an open-source software system for integrating bioinformatics software and data sources

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2697920

Genetic analysis of host resistance: Toll-like receptor signaling and immunity at large

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2697920

Quantitative mass spectrometric multiple reaction monitoring assays for major plasma proteins

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2697920

Global changes in STAT target selection and transcription regulation upon interferon treatments

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2697920

Negative regulation of the retinoic acid-inducible gene I-induced antiviral state by the ubiquitin-editing protein A20.

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2697920

A data integration methodology for systems biology

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2697920

Nova regulates brain-specific splicing to shape the synapse

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2697920

Salmonella flagellin, a microbial target of the innate and adaptive immune system.

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2697920

Toll-like receptor 4 polymorphisms are associated with resistance to Legionnaires' disease

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2697920

A20 is a negative regulator of IFN regulatory factor 3 signaling.

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2697920

Consequences of regulated pre-mRNA splicing in the immune system

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2697920

PAN1/NALP2/PYPAF2, an inducible inflammatory mediator that regulates NF-kappaB and caspase-1 activation in macrophages

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2697920

A Common Dominant TLR5 Stop Codon Polymorphism Abolishes Flagellin Signaling and Is Associated with Susceptibility to Legionnaires' Disease

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2697920

Collaborative induction of inflammatory responses by dectin-1 and Toll-like receptor 2.

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2697920

Cutting edge: a Toll-like receptor 2 polymorphism that is associated with lepromatous leprosy is unable to mediate mycobacterial signaling

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2697920

Phagocytosis of microbes: complexity in action

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2697920

Testing for differentially-expressed genes by maximum-likelihood analysis of microarray data

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2697920

The Toll-like receptor 2 is recruited to macrophage phagosomes and discriminates between pathogens.

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2697920

A selective defect in arachidonic acid release from macrophage membranes in high potassium media

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2697920

Fluorescence detection in automated DNA sequence analysis.

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2697920

Ligated complement receptors do not activate the arachidonic acid cascade in resident peritoneal macrophages

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2697920

Bacterial lipopolysaccharides prime macrophages for enhanced release of arachidonic acid metabolites

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2697920

The beginning of the end for microarrays?

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2697920

ChIP-seq: welcome to the new frontier.

27 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2697920

Topology of mammalian transcription networks.

27 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2697920

Alternate transcription of the Toll-like receptor signaling cascade

27 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2697920

Detection and measurement of alternative splicing using splicing-sensitive microarrays.

27 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2697920

Phagosome maturation proceeds independently of stimulation of toll-like receptors 2 and 4.

27 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2697920

Regulation of phagosome maturation by signals from toll-like receptors.

27 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2697920

Does Toll-like receptor 3 play a biological role in virus infections?

27 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2697920

Dizzy: stochastic simulation of large-scale genetic regulatory networks

27 November 2018

1 reference

12 December 2020

An essential role forRxrα in the development of Th2 responses

1 reference

12 December 2020

Cutting edge: cooperation of IPS-1- and TRIF-dependent pathways in poly IC-enhanced antibody production and cytotoxic T cell responses

1 reference

12 December 2020

The study of macromolecular complexes by quantitative proteomics

1 reference

12 December 2020

Interleukin-1 beta, interleukin-18, and the interleukin-1 beta converting enzyme

1 reference

12 December 2020

Toll-dependent selection of microbial antigens for presentation by dendritic cells

1 reference

12 December 2020

Isolation of glycoproteins and identification of their N-linked glycosylation sites

1 reference

12 December 2020

High sensitivity detection of plasma proteins by multiple reaction monitoring of N-glycosites

1 reference

12 December 2020

10.1111/J.1600-065X.2008.00721.X

Identifiers

DOI

1 reference

Fatcat

https://api.fatcat.wiki/v0/release/ecs3wsl7hjfclbod6ky5rbm62y

30 July 2022

release_ecs3wsl7hjfclbod6ky5rbm62y

Fatcat ID

1 reference

Fatcat

https://api.fatcat.wiki/v0/release/ecs3wsl7hjfclbod6ky5rbm62y

30 July 2022

https://api.fatcat.wiki/v0/release/ecs3wsl7hjfclbod6ky5rbm62y

1 reference

30 July 2022

https://api.fatcat.wiki/v0/release/ecs3wsl7hjfclbod6ky5rbm62y

1 reference

30 July 2022