The LOTUS Initiative for Open Natural Products Research: Knowledge Management through Wikidata (Q105742243)

From Wikidata

Jump to navigation Jump to search

scholarly article (preprint) by Adriano Rutz published in March 2021

edit

Language	Label	Description	Also known as
English	The LOTUS Initiative for Open Natural Products Research: Knowledge Management through Wikidata	scholarly article (preprint) by Adriano Rutz published in March 2021

Statements

instance of

preprint

of

The LOTUS initiative for open knowledge management in natural products research

0 references

image

Lotus initiative 1 graphical abstract.svg
2,400 × 1,350; 57 KB

0 references

Lotus initiative 1 alluvial plot.svg
2,027 × 1,350; 2.5 MB

0 references

Lotus initiative 1 structure organism distribution.svg
750 × 422; 10.05 MB

0 references

Lotus initiative 1 upset plot.svg
609 × 673; 589 KB

0 references

Lotus initiative 1 biologically interpreted chemical tree.svg
1,200 × 1,278; 11.45 MB

0 references

Lotus initiative 1 chemically interpreted biological tree.svg
1,314 × 1,338; 4.77 MB

0 references

Lotus initiative 1 chemically interpreted biological tree supplement.svg
2,400 × 1,350; 11.58 MB

0 references

title

The LOTUS Initiative for Open Natural Products Research: Knowledge Management through Wikidata (English)

0 references

main subject

Wikidata

0 references

natural product

0 references

chemotaxonomy

0 references

knowledge management

0 references

data quality of Wikidata

0 references

followed by

The LOTUS initiative for open knowledge management in natural products research

0 references

author

Daniel Mietchen

series ordinal

4

object named as

Daniel Mietchen

0 references

Egon Willighagen

series ordinal

5

object named as

Egon Willighagen

0 references

Roderic D. M. Page

series ordinal

9

object named as

Roderic Page

0 references

Adriano Rutz

series ordinal

1

object named as

Adriano Rutz

0 references

Maria Sorokina

series ordinal

2

object named as

Maria Sorokina

0 references

Jakub Galgonek

series ordinal

3

object named as

Jakub Galgonek

0 references

Jiří Vondrášek

series ordinal

10

object named as

Jiri Vondrasek

0 references

Ralf Stephan

series ordinal

8

object named as

Ralf Stephan

0 references

Guido F Pauli

series ordinal

12

object named as

Guido Pauli

0 references

Christoph Steinbeck

series ordinal

11

object named as

Christoph Steinbeck

0 references

Jonathan Bisson

series ordinal

14

object named as

Jonathan Bisson

0 references

Pierre-Marie Allard

series ordinal

15

object named as

Pierre-Marie Allard

0 references

Jean-Luc Wolfender

series ordinal

13

object named as

Jean-Luc Wolfender

0 references

Arnaud Gaudry

series ordinal

6

object named as

Arnaud Gaudry

0 references

James G Graham

series ordinal

7

object named as

James G. Graham

0 references

language of work or name

English

0 references

publication date

1 March 2021

start time

1 March 2021

end time

24 December 2021

0 references

number of pages

78

0 references

published in

bioRxiv

0 references

copyright status

copyrighted, dedicated to the public domain by copyright holder

0 references

describes a project that uses

Python

0 references

R

0 references

Wikidata

0 references

Java

0 references

Kotlin

0 references

OPSIN

0 references

Molconvert

0 references

Manubot

0 references

NPClassifier

0 references

Crossref

0 references

PubChem

0 references

PubMed

0 references

ClassyFire

0 references

RDKit

0 references

Chemistry Development Kit

0 references

Global Names Architecture

0 references

Tidyverse

0 references

Matplotlib

0 references

pandas

0 references

SciPy

0 references

OpenJDK

0 references

Log4j

0 references

RDF4J

0 references

JUnit

0 references

rotl

0 references

ChemmineR

0 references

ggalluvial

0 references

ggtree

0 references

ggtreeExtra

0 references

Plotly

0 references

rentrez

0 references

treeio

0 references

UpSetR

0 references

webchem

0 references

faerun

0 references

GitHub

0 references

Zenodo

0 references

on focus list of Wikimedia project

WikiProject Chemistry/Natural products

0 references

online access status

open access

1 reference

stated in

Unpaywall

retrieved

19 March 2024

reference URL

https://api.unpaywall.org/v2/10.1101/2021.02.28.433265?email=unpaywall_01@example.com

acknowledged

Dmitry Y Mozzherin

0 references

Evan E. Bolton

0 references

Tiejun Cheng

0 references

Manubot

0 references

Layla Michán

0 references

access restriction status

open access

1 reference

based on heuristic

inferred from online access status

funder

ELIXIR Czech Republic

0 references

Alfred P. Sloan Foundation

0 references

National Center for Complementary and Integrative Health

0 references

Swiss National Science Foundation

0 references

Office of Dietary Supplements

0 references

German Research Foundation

0 references

cites work

Scholia, Scientometrics and Wikidata

0 references

WikiPathways: connecting communities

0 references

Wikidata as a knowledge graph for the life sciences

0 references

The Chemistry Development Kit (CDK) v2.0: atom typing, depiction, molecular formulas, and substructure searching

0 references

SPLASH, a hashed identifier for mass spectra

0 references

Chemical Space and Biological Target Network of Anti-Inflammatory Natural Products

0 references

NPASS: natural product activity and species source database for natural product research, discovery and tool development

0 references

TMDB: a literature-curated database for small molecular compounds found from tea.

0 references

Carotenoids Database: structures, chemical fingerprints and distribution among organisms

0 references

The FAIR Guiding Principles for scientific data management and stewardship

0 references

Welcome to the Tidyverse

0 references

SMILES, a chemical language and information system. 1. Introduction to methodology and encoding rules

0 references

Treeio: An R Package for Phylogenetic Tree Input and Output with Richly Annotated and Associated Data

0 references

SciPy 1.0: fundamental algorithms for scientific computing in Python

0 references

The Natural Products Atlas: An Open Access Knowledge Base for Microbial Natural Products Discovery

0 references

Dr. Duke's Phytochemical and Ethnobotanical Databases

0 references

Advances in computational metabolomics and databases deepen the understanding of metabolisms.

0 references

Review on natural products databases: where to find data in 2020

0 references

COCONUT online: Collection of Open Natural Products database

0 references

KNApSAcK: A Comprehensive Species-Metabolite Relationship Database

0 references

BioPhytMol: a drug discovery community resource on anti-mycobacterial phytomolecules and plant extracts

0 references

Recent breakthroughs in metabolomics promise to reveal the cryptic chemical traits that mediate plant community composition, character evolution and lineage diversification.

0 references

RIKEN tandem mass spectral database (ReSpect) for phytochemicals: A plant-specific MS/MS-based data resource and database

0 references

DataWarrior: an open-source program for chemistry aware data visualization and analysis

0 references

Evolution of endophyte-plant symbioses.

0 references

Taxonomically Informed Scoring Enhances Confidence in Natural Products Annotation

0 references

Phenol-Explorer 3.0: a major update of the Phenol-Explorer database to incorporate data on the effects of food processing on polyphenol content

0 references

Automated assembly of a reference taxonomy for phylogenetic data synthesis

0 references

Robustifying Scholia: paving the way for knowledge discovery and research assessment through Wikidata

0 references

SmilesDrawer: Parsing and Drawing SMILES-Encoded Molecular Structures Using Client-Side JavaScript.

0 references

FUn: A Framework for Interactive Visualizations of Large, High Dimensional Datasets on the Web.

0 references

Visualization of very large high-dimensional data sets as minimum spanning trees

0 references

BIOFACQUIM: A Mexican Compound Database of Natural Products

0 references

NuBBEDB: an updated database to uncover chemical and biological information from Brazilian biodiversity

0 references

Credit data generators for data reuse

0 references

ProCarDB: a database of bacterial carotenoids

0 references

NANPDB: A Resource for Natural Products from Northern African Sources

0 references

Chemical fingerprinting for the evaluation of unintended secondary metabolic changes in transgenic food crops

0 references

Repository scale classification and decomposition of tandem mass spectral data

0 references

RDFFrames: Knowledge Graph Access for Machine Learning Tools

0 references

rotl : an R package to interact with the Open Tree of Life data

0 references

The value of universally available raw NMR data for transparency, reproducibility, and integrity in natural product research

0 references

Chemical Name to Structure: OPSIN, an Open Source Solution

0 references

DiaNat-DB: a molecular database of antidiabetic compounds from medicinal plants

0 references

The TRUST Principles for digital repositories

0 references

Bias in peer review.

0 references

Sachem: a chemical cartridge for high-performance substructure search.

0 references

Interoperable chemical structure search service

0 references

StreptomeDB 2.0--an extended resource of natural products produced by streptomycetes

0 references

TM-MC: a database of medicinal materials and chemical compounds in Northeast Asian traditional medicine

0 references

PubChem 2019 update: improved access to chemical data

0 references

Plant Secondary Metabolite Diversity and Species Interactions

0 references

MIBiG 2.0: a repository for biosynthetic gene clusters of known function

0 references

CyanoMetDB, a comprehensive public database of secondary metabolites from cyanobacteria

0 references

ReDU: a framework to find and reanalyze public mass spectrometry data

0 references

Binding of anti-Trypanosoma natural products from African flora against selected drug targets: a docking study

0 references

Matplotlib: A 2D Graphics Environment

0 references

PAMDB: a comprehensive Pseudomonas aeruginosa metabolome database.

0 references

MassBank: a public repository for sharing mass spectral data for life sciences

0 references

Ten Simple Rules for Developing Public Biological Databases

0 references

InChI - the worldwide chemical structure identifier standard

0 references

Chemotaxonomie der Pflanzen

0 references

MetaboLights: a resource evolving in response to the needs of its scientific community

0 references

SANCDB: a South African natural compound database

0 references

Comprehensive Toxic Plants-Phytotoxins Database and Its Application in Assessing Aquatic Micropollution Potential

0 references

Use of natural products as chemical library for drug discovery and network pharmacology

0 references

The NAPRALERT Database as an Aid for Discovery of Novel Bioactive Compounds

0 references

Micromolecular Evolution, Systematics and Ecology

0 references

ClassyFire: automated chemical classification with a comprehensive, computable taxonomy

0 references

Spatial and evolutionary predictability of phytochemical diversity

0 references

Seaweed metabolite database (SWMD): A database of natural compounds from marine algae

0 references

A data citation roadmap for scientific publishers

0 references

Bringing Citations and Usage Metrics Together to Make Data Count

0 references

Sixty Challenges – A 2030 Perspective on Natural Products and Medicines Security

0 references

Cognate and cognitive ecopharmacognosy — in an anthropogenic era

0 references

NPCARE: database of natural products and fractional extracts for cancer regulation

0 references

One molecular fingerprint to rule them all: drugs, biomolecules, and the metabolome

0 references

ChemmineR: a compound mining framework for R.

0 references

Alkamid database: Chemistry, occurrence and functionality of plant N-alkylamides.

0 references

Dissemination of original NMR data enhances reproducibility and integrity in chemical research

0 references

Can Invalid Bioactives Undermine Natural Product-Based Drug Discovery?

0 references

On disciplinary fragmentation and scientific progress

0 references

Pharmacognosy in the digital era: shifting to contextualized metabolomics.

0 references

Taxonomists need better access to published data.

0 references

KNApSAcK Family Databases: Integrated Metabolite-Plant Species Databases for Multifaceted Plant Research

0 references

ggtree: anrpackage for visualization and annotation of phylogenetic trees with their covariates and other associated data

1 reference

stated in

COCI

reference URL

https://opencitations.net/index/coci/api/v1/references/10.1101/2021.02.28.433265

retrieved

30 October 2021

Bias in peer review

1 reference

stated in

COCI

reference URL

https://opencitations.net/index/coci/api/v1/references/10.1101/2021.02.28.433265

retrieved

30 October 2021

rentrez: An R package for the NCBI eUtils API

1 reference

stated in

COCI

reference URL

https://opencitations.net/index/coci/api/v1/references/10.1101/2021.02.28.433265

retrieved

30 October 2021

All natural

1 reference

stated in

COCI

reference URL

https://opencitations.net/index/coci/api/v1/references/10.1101/2021.02.28.433265

retrieved

30 October 2021

Automated assembly of a reference taxonomy for phylogenetic data synthesis.

1 reference

stated in

COCI

reference URL

https://opencitations.net/index/coci/api/v1/references/10.1101/2021.02.28.433265

retrieved

30 October 2021

ggalluvial: Layered Grammar for Alluvial Plots

1 reference

stated in

COCI

reference URL

https://opencitations.net/index/coci/api/v1/references/10.1101/2021.02.28.433265

retrieved

1 January 2022

The stringdist Package for Approximate String Matching

1 reference

stated in

COCI

reference URL

https://opencitations.net/index/coci/api/v1/references/10.1101/2021.02.28.433265

retrieved

2 January 2022

webchem: An R Package to Retrieve Chemical Information from the Web

1 reference

stated in

COCI

reference URL

https://opencitations.net/index/coci/api/v1/references/10.1101/2021.02.28.433265

retrieved

3 January 2022

PUG-SOAP and PUG-REST: web services for programmatic access to chemical information in PubChem

1 reference

stated in

COCI

reference URL

https://opencitations.net/index/coci/api/v1/references/10.1101/2021.02.28.433265

retrieved

2 February 2022

The misuse of colour in science communication

1 reference

stated in

COCI

reference URL

https://opencitations.net/index/coci/api/v1/references/10.1101/2021.02.28.433265

retrieved

2 February 2022

Predatory impacts of alien decapod Crustacea are predicted by functional responses and explained by differences in metabolic rate

1 reference

stated in

COCI

reference URL

https://opencitations.net/index/coci/api/v1/references/10.1101/2021.02.28.433265

retrieved

2 February 2022

Save those molecules! Molecular biodiversity and life*

1 reference

stated in

COCI

reference URL

https://opencitations.net/index/coci/api/v1/references/10.1101/2021.02.28.433265

retrieved

2 February 2022

Actinobacteria in natural products research: Progress and prospects

1 reference

stated in

COCI

reference URL

https://opencitations.net/index/coci/api/v1/references/10.1101/2021.02.28.433265

retrieved

2 February 2022

Open Data in Science

1 reference

stated in

COCI

reference URL

https://opencitations.net/index/coci/api/v1/references/10.1101/2021.02.28.433265

retrieved

2 February 2022

NPClassifier: A Deep Neural Network-Based Structural Classification Tool for Natural Products

1 reference

stated in

COCI

reference URL

https://opencitations.net/index/coci/api/v1/references/10.1101/2021.02.28.433265

retrieved

2 February 2022

An update on PUG-REST: RESTful interface for programmatic access to PubChem.

1 reference

stated in

COCI

reference URL

https://opencitations.net/index/coci/api/v1/references/10.1101/2021.02.28.433265

retrieved

2 February 2022

Recent studies on terpenoids in Aspergillus fungi: Chemical diversity, biosynthesis, and bioactivity

1 reference

stated in

COCI

reference URL

https://opencitations.net/index/coci/api/v1/references/10.1101/2021.02.28.433265

retrieved

2 February 2022

WikiPathways: a multifaceted pathway database bridging metabolomics to other omics research

1 reference

stated in

COCI

reference URL

https://opencitations.net/index/coci/api/v1/references/10.1101/2021.02.28.433265

retrieved

2 February 2022

Systematic classification of unknown metabolites using high-resolution fragmentation mass spectra

1 reference

stated in

COCI

reference URL

https://opencitations.net/index/coci/api/v1/references/10.1101/2021.02.28.433265

retrieved

2 February 2022

Open collaborative writing with Manubot

1 reference

stated in

COCI

reference URL

https://opencitations.net/index/coci/api/v1/references/10.1101/2021.02.28.433265

retrieved

2 February 2022

Making your database available through Wikipedia: the pros and cons

1 reference

stated in

COCI

reference URL

https://opencitations.net/index/coci/api/v1/references/10.1101/2021.02.28.433265

retrieved

2 February 2022

What does ‘nature’ mean?

1 reference

stated in

COCI

reference URL

https://opencitations.net/index/coci/api/v1/references/10.1101/2021.02.28.433265

retrieved

2 February 2022

The Natural Products Atlas 2.0: a database of microbially-derived natural products

1 reference

stated in

COCI

reference URL

https://opencitations.net/index/coci/api/v1/references/10.1101/2021.02.28.433265

retrieved

2 February 2022

The Chemical Translation Service--a web-based tool to improve standardization of metabolomic reports

1 reference

stated in

COCI

reference URL

https://opencitations.net/index/coci/api/v1/references/10.1101/2021.02.28.433265

retrieved

24 February 2022

Phytochemistry and plant taxonomy — an essay on the chemotaxonomy of higher plants

1 reference

stated in

COCI

retrieved

29 July 2022

reference URL

https://opencitations.net/index/coci/api/v1/references/10.1101/2021.02.28.433265

Scholia and scientometrics with Wikidata

1 reference

stated in

COCI

reference URL

https://opencitations.net/index/coci/api/v1/references/10.1101/2021.02.28.433265

retrieved

13 December 2022

SciPy 1.0—Fundamental Algorithms for Scientific Computing in Python

1 reference

stated in

COCI

reference URL

https://opencitations.net/index/coci/api/v1/references/10.1101/2021.02.28.433265

retrieved

19 November 2023

Essai sur les propriétés médicales des plantes, comparées avec leurs formes extérieures et leur classification naturelle

1 reference

stated in

COCI

reference URL

https://opencitations.net/index/api/v1/references/10.1101/2021.02.28.433265

retrieved

12 April 2024

Identifiers

DOI

10.1101/2021.02.28.433265

0 references

BioRxiv ID

2021.02.28.433265

0 references

OpenAlex ID

W3171171659

0 references

Semantic Scholar corpus ID

235262250

0 references

Semantic Scholar paper ID

e986c5104fc955388b6b702579c2a6276992732d

0 references

 

Sitelinks

Wikipedia(0 entries)

edit

Wikibooks(0 entries)

edit

Wikinews(0 entries)

edit

Wikiquote(0 entries)

edit

Wikisource(0 entries)

edit

Wikiversity(0 entries)

edit

Wikivoyage(0 entries)

edit

Wiktionary(0 entries)

edit

Multilingual sites(0 entries)

edit

Retrieved from "https://www.wikidata.org/w/index.php?title=Q105742243&oldid=2126852088"