Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

Dynamic Equilibrium02:20

Dynamic Equilibrium

62.0K
A reversible chemical reaction represents a chemical process that proceeds in both forward (left to right) and reverse (right to left) directions. When the rates of the forward and reverse reactions are equal, the concentrations of the reactant and product species remain constant over time and the system is at equilibrium. A special double arrow is used to emphasize the reversible nature of the reaction. The relative concentrations of reactants and products in equilibrium systems vary greatly;...
62.0K
Predator-Prey Interactions02:39

Predator-Prey Interactions

21.2K
Predators consume prey for energy. Predators that acquire prey and prey that avoid predation both increase their chances of survival and reproduction (i.e., fitness). Routine predator-prey interactions elicit mutual adaptations that improve predator offenses, such as claws, teeth, and speed, as well as prey defenses, including crypsis, aposematism, and mimicry. Thus, predator-prey interactions resemble an evolutionary arms race.
21.2K
Van der Waals Interactions01:24

Van der Waals Interactions

70.9K
Atoms and molecules interact with each other through intermolecular forces. These electrostatic forces arise from attractive or repulsive interactions between particles with permanent, partial, or temporary charges. The intermolecular forces between neutral atoms and molecules are ion–dipole, dipole–dipole, and dispersion forces, collectively known as van der Waals forces.
70.9K
piRNA - Piwi-interacting RNAs02:57

piRNA - Piwi-interacting RNAs

7.6K
PIWI-interacting RNAs, or piRNAs, are the most abundant short non-coding RNAs. More than 20,000 genes have been found in humans that code for piRNAs while only 2000 genes have been found for miRNAs. piRNAs can act at the transcriptional and post-transcriptional levels and have a vital role in silencing transposable elements present in germ cells. They are also involved in epigenetic silencing and activation. Previously, they were thought to function only in germ cells but new evidence suggests...
7.6K
Equation of Rotational Dynamics01:08

Equation of Rotational Dynamics

14.7K
Angular variables are introduced in rotational dynamics. Comparing the definitions of angular variables with the definitions of linear kinematic variables, it is seen that there is a mapping of the linear variables to the rotational ones. Linear displacement, velocity, and acceleration have their equivalents in rotational motion, which are angular displacement, angular velocity, and angular acceleration. Similar to the rotational variables, a mapping exists from Newton's second law of motion...
14.7K
Fermi Level Dynamics01:12

Fermi Level Dynamics

682
The vacuum level denotes the energy threshold required for an electron to escape from a material surface. It is usually positioned above the conduction band of a semiconductor and acts as a benchmark for comparing electron energies within various materials.
Electron affinity in semiconductors refers to the energy gap between the minimum of its conduction band and the vacuum level and it is a critical parameter in determining how easily a semiconductor can accept additional electrons.
The work...
682

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

Metatranscriptomics as a tool to identify fungal species and subspecies in mixed communities - a proof of concept under laboratory conditions.

IMA fungus·2020
Same author

Correction: Bat IFITM3 restriction depends on S-palmitoylation and a polymorphic site within the CD225 domain.

Life science alliance·2020
Same author

CCMetagen: comprehensive and accurate identification of eukaryotes and prokaryotes in metagenomic data.

Genome biology·2020
Same author

Author Correction: A new coronavirus associated with human respiratory disease in China.

Nature·2020
Same author

Newly identified viral genomes in pangolins with fatal disease.

Virus evolution·2020
Same author

An emergent clade of SARS-CoV-2 linked to returned travellers from Iran.

Virus evolution·2020
Same journal

Biomedical Concept Recognition with Error-aware Negative-enhanced Ranking Framework.

Bioinformatics (Oxford, England)·2026
Same journal

TEDLH: Domain HMMs for sensitive detection of remote homologues.

Bioinformatics (Oxford, England)·2026
Same journal

PLNFGL: Joint Estimation of Multi-Condition Gene Networks from Single-cell RNA-seq Data.

Bioinformatics (Oxford, England)·2026
Same journal

MCFST: Spatial domain identification method based on multi-view graph convolutional network and graph fusion network.

Bioinformatics (Oxford, England)·2026
Same journal

SpaBiT: Enhancing Spatial Transcriptomics Resolution via Bidirectional Attention Transformers.

Bioinformatics (Oxford, England)·2026
Same journal

EDEL: Enhancing Dense Retrievers for Curation of Biomedical Knowledge Bases.

Bioinformatics (Oxford, England)·2026
See all related articles

Related Experiment Video

Updated: Jan 25, 2026

Correlative Microscopy for 3D Structural Analysis of Dynamic Interactions
13:43

Correlative Microscopy for 3D Structural Analysis of Dynamic Interactions

Published on: June 24, 2013

14.5K

Entrezpy: a Python library to dynamically interact with the NCBI Entrez databases.

Jan P Buchmann1, Edward C Holmes1

  • 1Marie Bashir Institute for Infectious Diseases and Biosecurity, Charles Perkins Centre, School of Life and Environmental Sciences and Sydney Medical School, The University of Sydney, Sydney, NSW 2006, Australia.

Bioinformatics (Oxford, England)
|May 12, 2019
PubMed
Summary
This summary is machine-generated.

Entrezpy is a Python library for automating data retrieval from National Center for Biotechnology Information (NCBI) Entrez databases. It simplifies complex queries and data management for bioinformatics analysis pipelines.

More Related Videos

Quantifying Cytoskeleton Dynamics Using Differential Dynamic Microscopy
06:37

Quantifying Cytoskeleton Dynamics Using Differential Dynamic Microscopy

Published on: June 15, 2022

4.1K
Pharmacophore Modeling for Targets with Extensive Ligand Libraries: A Case Study on SARS-CoV-2 Mpro
05:50

Pharmacophore Modeling for Targets with Extensive Ligand Libraries: A Case Study on SARS-CoV-2 Mpro

Published on: September 26, 2025

1.5K

Related Experiment Videos

Last Updated: Jan 25, 2026

Correlative Microscopy for 3D Structural Analysis of Dynamic Interactions
13:43

Correlative Microscopy for 3D Structural Analysis of Dynamic Interactions

Published on: June 24, 2013

14.5K
Quantifying Cytoskeleton Dynamics Using Differential Dynamic Microscopy
06:37

Quantifying Cytoskeleton Dynamics Using Differential Dynamic Microscopy

Published on: June 15, 2022

4.1K
Pharmacophore Modeling for Targets with Extensive Ligand Libraries: A Case Study on SARS-CoV-2 Mpro
05:50

Pharmacophore Modeling for Targets with Extensive Ligand Libraries: A Case Study on SARS-CoV-2 Mpro

Published on: September 26, 2025

1.5K

Area of Science:

  • Bioinformatics
  • Computational Biology
  • Scientific Data Management

Background:

  • Accessing and processing data from the National Center for Biotechnology Information (NCBI) Entrez databases is crucial for biological research.
  • Manual querying and data handling can be time-consuming and prone to errors.
  • Existing tools may lack the flexibility for complex, iterative data retrieval pipelines.

Purpose of the Study:

  • To introduce Entrezpy, a Python library designed to automate the querying and downloading of data from NCBI Entrez databases.
  • To provide a tool that simplifies the creation of complex queries and facilitates data caching for efficient analysis.
  • To enhance the integration of Entrez data retrieval into broader bioinformatics analysis workflows.

Main Methods:

  • Entrezpy interacts with NCBI Entrez using E-Utilities.
  • It automatically constructs E-Utility parameters from query results for iterative querying.
  • The library supports local data caching and parameter adjustment within ongoing queries.

Main Results:

  • Entrezpy enables automated, complex querying of all Entrez databases.
  • It facilitates efficient data retrieval through caching and parameter adjustment.
  • The modular design allows for easy extension and customization of E-Utility functions.

Conclusions:

  • Entrezpy streamlines bioinformatics data retrieval from NCBI Entrez.
  • Its features support efficient, automated, and flexible data analysis pipelines.
  • The library is implemented in Python 3 and readily available for use in research.