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

Understanding Memory01:19

Understanding Memory

Memory is the retention of information or experiences over time, facilitated through three main processes: encoding, storage, and retrieval. Encoding is the process of inputting information into the memory system. For instance, when listening to a lecture, watching a play, reading a book, or having a conversation, the brain is actively encoding information. This initial stage involves transforming sensory input into a form that can be processed and stored by the brain. Various factors, such as...
System of Memory01:23

System of Memory

Memory is categorized into three major systems: sensory memory, short-term memory (STM), and long-term memory (LTM). These systems differ in their capacity and the duration for which they can hold information. Sensory memory captures raw sensory input from the environment, holding it for just a few seconds or less. For example, on hearing a brief, loud sound, like a car horn honking, the sound seems to linger in the mind for a moment even after it stops. This is an instance of sensory memory...
Mnemonic Devices01:23

Mnemonic Devices

Mnemonic devices are cognitive tools that facilitate memory retention by linking new information to familiar patterns or organizational strategies. These techniques are beneficial for remembering complex or lengthy sets of information by simplifying and structuring them in easily retrievable ways.
Acronyms
Acronyms are created by using the initial letters of a series of words to form a new word or phrase. This approach condenses complex information into a single, memorable entity. For example,...
Long-Term Memory01:18

Long-Term Memory

Long-term memory is a relatively permanent type of memory, capable of storing vast amounts of information over extended periods. Its storage capacity is generally considered unlimited.
Long-term memory can be categorized into two primary types: explicit and implicit memory. Explicit memory, also known as declarative memory, involves the conscious recollection of information that we deliberately try to remember, recall, and articulate. This type of memory encompasses specific facts, events, and...
Implicit Memories01:24

Implicit Memories

Implicit memories, also known as non-declarative memories, are long-term memories that function outside of conscious awareness. These memories influence behavior and skills without explicit knowledge. This type of memory is evident in tasks like playing tennis, snowboarding, and texting. Implicit memory has three subsystems: procedural memory, conditioning, and priming. This type of memory is essential in various activities, from everyday tasks to specialized skills.
One key aspect of implicit...
Flashbulb Memory01:16

Flashbulb Memory

A flashbulb memory is a highly vivid and detailed memory, often linked to events of significant emotional impact. These memories stand out in contrast to everyday memories due to their clarity and the precision with which they are recalled. The strong emotions associated with the event act as a catalyst, ensuring that specific details, such as one's location, actions, and even peripheral elements, are etched into memory with remarkable accuracy. For example, many people can vividly recall where...

You might also read

Related Articles

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

Sort by
Same author

Quantum Transition Rates in Arbitrary Physical Processes.

Physical review letters·2026
Same author

Correction to "Synthesis of Reversible Sequence-Defined Oligourethane Macrocycles through Click and Declick Thiol-Amine Conjugation with a Meldrum's Acid Derived Conjugate Acceptor".

The Journal of organic chemistry·2026
Same author

Synthesis of Reversible Sequence-Defined Oligourethane Macrocycles through Click and Declick Thiol-Amine Conjugation with a Meldrum's Acid-Derived Conjugate Acceptor.

The Journal of organic chemistry·2026
Same author

Transition State Theory for Dissociation of Dynamic Bonding Networks.

Journal of chemical theory and computation·2026
Same author

Droplet growth, Ostwald's rule, and emergence of order in Fused in Sarcoma.

Proceedings of the National Academy of Sciences of the United States of America·2026
Same author

Static and dynamic rough energy landscapes can lead to identical diffusivity.

Proceedings of the National Academy of Sciences of the United States of America·2026

Related Experiment Video

Updated: May 26, 2026

In Situ Transmission Electron Microscopy with Biasing and Fabrication of Asymmetric Crossbars Based on Mixed-Phased a-VOx
09:49

In Situ Transmission Electron Microscopy with Biasing and Fabrication of Asymmetric Crossbars Based on Mixed-Phased a-VOx

Published on: May 13, 2020

Milestoning with transition memory.

Alexander T Hawk1, Dmitrii E Makarov

  • 1Center for Nonlinear Dynamics and Department of Physics, University of Texas at Austin, Austin, Texas 78712, USA.

The Journal of Chemical Physics
|December 16, 2011
PubMed
Summary

Milestoning with transition memory (MTM) enhances molecular dynamics simulations by accounting for trajectory memory. This method allows for more milestones, improving accuracy and computational efficiency in calculating molecular process kinetics.

Area of Science:

  • Computational Chemistry
  • Molecular Dynamics
  • Statistical Mechanics

Background:

  • Milestoning calculates molecular process kinetics and thermodynamics for long timescales inaccessible to brute force molecular dynamics (MD).
  • Conventional milestoning sections conformation space into milestones and uses Markov renewal processes to model system dynamics.
  • A key limitation of milestoning is the need for milestones spaced widely enough for trajectories to lose memory, limiting resolution and computational speedup.

Purpose of the Study:

  • To introduce a generalized milestoning procedure, milestoning with transition memory (MTM), that accounts for memory of previous transitions.
  • To test the MTM procedure on a polymer chain model undergoing Langevin dynamics.
  • To assess the impact of MTM on the accuracy and efficiency of calculating mean first passage times.

More Related Videos

Gradient Echo Quantum Memory in Warm Atomic Vapor
10:00

Gradient Echo Quantum Memory in Warm Atomic Vapor

Published on: November 11, 2013

A Method for Growing Bio-memristors from Slime Mold
07:46

A Method for Growing Bio-memristors from Slime Mold

Published on: November 2, 2017

Related Experiment Videos

Last Updated: May 26, 2026

In Situ Transmission Electron Microscopy with Biasing and Fabrication of Asymmetric Crossbars Based on Mixed-Phased a-VOx
09:49

In Situ Transmission Electron Microscopy with Biasing and Fabrication of Asymmetric Crossbars Based on Mixed-Phased a-VOx

Published on: May 13, 2020

Gradient Echo Quantum Memory in Warm Atomic Vapor
10:00

Gradient Echo Quantum Memory in Warm Atomic Vapor

Published on: November 11, 2013

A Method for Growing Bio-memristors from Slime Mold
07:46

A Method for Growing Bio-memristors from Slime Mold

Published on: November 2, 2017

Main Methods:

  • Developed MTM, a generalized milestoning approach incorporating transition memory.
  • Applied MTM to a toy model of a polymer chain in solution using Langevin dynamics.
  • Calculated the mean first passage time for the polymer chain to reach a cyclic conformation.

Main Results:

  • MTM allows for at least 8 times more milestones than conventional milestoning without significant errors in mean first passage time calculations.
  • MTM enables closer milestone spacing, where trajectories do not fully lose velocity memory between transitions.
  • The MTM procedure incurs no significant additional computational cost compared to conventional milestoning when using a reaction coordinate.

Conclusions:

  • Milestoning with transition memory (MTM) offers a significant improvement over conventional milestoning for molecular dynamics simulations.
  • MTM enhances accuracy and computational efficiency by allowing for a higher density of milestones.
  • This method is particularly beneficial for studying molecular processes where memory effects are important.