(Q40389931)

30 June 2018

title

PDID: database of molecular-level putative protein-drug interactions in the structural human proteome (English)

1 reference

30 June 2018

0 references

6

1 reference

PubMed publication ID

20 September 2017

4

Michal Brylinski

1 reference

30 June 2018

Chen Wang

1

1 reference

30 June 2018

Gang Hu

series ordinal

2

1 reference

30 June 2018

Kui Wang

series ordinal

3

1 reference

30 June 2018

Lei Xie

series ordinal

5

1 reference

30 June 2018

language of work or name

English

0 references

publication date

26 October 2015

1 reference

30 June 2018

published in

Bioinformatics

1 reference

30 June 2018

volume

32

1 reference

30 June 2018

issue

4

1 reference

30 June 2018

page(s)

579-586

1 reference

30 June 2018

eFindSite: Enhanced Fingerprint-Based Virtual Screening Against Predicted Ligand Binding Sites in Protein Models

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3 July 2018

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3 July 2018

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sc-PDB: a 3D-database of ligandable binding sites--10 years on

3 July 2018

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PL-PatchSurfer: a novel molecular local surface-based method for exploring protein-ligand interactions

3 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5963357

STITCH 4: integration of protein-chemical interactions with user data

3 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5963357

The ChEMBL bioactivity database: an update

3 July 2018

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DrugBank 4.0: shedding new light on drug metabolism

3 July 2018

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3 July 2018

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The druggable genome: Evaluation of drug targets in clinical trials suggests major shifts in molecular class and indication

3 July 2018

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Polypharmacology - foe or friend?

3 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5963357

Compound promiscuity: what can we learn from current data?

3 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5963357

Predicting targeted polypharmacology for drug repositioning and multi- target drug discovery

3 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5963357

eThread: a highly optimized machine learning-based approach to meta-threading and the modeling of protein tertiary structures

3 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5963357

Dr. PIAS 2.0: an update of a database of predicted druggable protein-protein interactions

3 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5963357

Raloxifene attenuates Pseudomonas aeruginosa pyocyanin production and virulence

3 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5963357

PoSSuM: a database of similar protein-ligand binding and putative pockets

3 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5963357

Reorganizing the protein space at the Universal Protein Resource (UniProt)

3 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5963357

SuperTarget goes quantitative: update on drug-target interactions

3 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5963357

Therapeutic target database update 2012: a resource for facilitating target-oriented drug discovery.

3 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5963357

ChEMBL: a large-scale bioactivity database for drug discovery

3 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5963357

Drug discovery using chemical systems biology: weak inhibition of multiple kinases may contribute to the anti-cancer effect of nelfinavir

3 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5963357

sc-PDB: a database for identifying variations and multiplicity of 'druggable' binding sites in proteins

3 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5963357

Dr. PIAS: an integrative system for assessing the druggability of protein-protein interactions

3 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5963357

PROMISCUOUS: a database for network-based drug-repositioning

3 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5963357

A multidimensional strategy to detect polypharmacological targets in the absence of structural and sequence homology

3 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5963357

A side effect resource to capture phenotypic effects of drugs

3 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5963357

SuperCYP: a comprehensive database on Cytochrome P450 enzymes including a tool for analysis of CYP-drug interactions

3 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5963357

Update of TTD: Therapeutic Target Database

3 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5963357

BioDrugScreen: a computational drug design resource for ranking molecules docked to the human proteome

3 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5963357

STITCH 2: an interaction network database for small molecules and proteins

3 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5963357

Drug discovery using chemical systems biology: repositioning the safe medicine Comtan to treat multi-drug and extensively drug resistant tuberculosis

3 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5963357

A unified statistical model to support local sequence order independent similarity searching for ligand-binding sites and its application to genome-based drug discovery

3 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5963357

Drug discovery using chemical systems biology: identification of the protein-ligand binding network to explain the side effects of CETP inhibitors

3 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5963357

FINDSITE: a combined evolution/structure-based approach to protein function prediction

3 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5963357

Targeting the human cancer pathway protein interaction network by structural genomics

3 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5963357

Detecting evolutionary relationships across existing fold space, using sequence order-independent profile-profile alignments.

3 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5963357

A threading-based method (FINDSITE) for ligand-binding site prediction and functional annotation

3 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5963357

In silico elucidation of the molecular mechanism defining the adverse effect of selective estrogen receptor modulators

3 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5963357

A robust and efficient algorithm for the shape description of protein structures and its application in predicting ligand binding sites

3 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5963357

Clustering by passing messages between data points

3 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5963357

BindingDB: a web-accessible database of experimentally determined protein-ligand binding affinities

3 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5963357

How many drug targets are there?

3 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5963357

Discovery and development of sorafenib: a multikinase inhibitor for treating cancer.

3 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5963357

Identifying off-target effects and hidden phenotypes of drugs in human cells

3 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5963357

DrugBank: a comprehensive resource for in silico drug discovery and exploration

3 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5963357

Origins, practices and future of safety pharmacology

3 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5963357

Relibase: design and development of a database for comprehensive analysis of protein-ligand interactions

3 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5963357

The Ensembl genome database project

3 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5963357

3 July 2018

The Protein Data Bank

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5963357

Gain-of-function mutations of c-kit in human gastrointestinal stromal tumors

3 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5963357

A geometric approach to macromolecule-ligand interactions

3 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5963357

Basic local alignment search tool

3 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5963357

Comparing Measures of Promiscuity and Exploring Their Relationship to Toxicity.

3 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5963357

Human structural proteome-wide characterization of Cyclosporine A targets

20 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5963357

eFindSite: improved prediction of ligand binding sites in protein models using meta-threading, machine learning and auxiliary ligands.

20 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5963357

Finding protein targets for small biologically relevant ligands across fold space using inverse ligand binding predictions.

20 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5963357

PDB-scale analysis of known and putative ligand-binding sites with structural sketches

20 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5963357

JSmol and the Next-Generation Web-Based Representation of 3D Molecular Structure as Applied to Proteopedia

20 August 2018

1 reference

Crossref

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTV597

Data completeness—the Achilles heel of drug-target networks

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTV597

IntSide: a web server for the chemical and biological examination of drug side effects

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTV597

In silico search of putative adverse drug reaction related proteins as a potential tool for facilitating drug adverse effect prediction

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/26504143

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1093/BIOINFORMATICS/BTV597

1 reference

30 June 2018

journals/bioinformatics/WangHWBXK16

DBLP publication ID

1 reference

DBLP Dataset 2021-01-02

release_og74jenfhfhl7fi4rk6b6bhpxa

28 January 2021

Fatcat ID

1 reference

Fatcat

https://api.fatcat.wiki/v0/release/og74jenfhfhl7fi4rk6b6bhpxa

mapped directly with Wikidata item

24 November 2022

based on heuristic

PMC publication ID

5963357

1 reference

30 June 2018

PubMed publication ID

26504143

1 reference

30 June 2018