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Related Concept Videos

Molecular Models02:00

Molecular Models

Physical models representing molecular architectures of chemical compounds play essential roles in understanding chemistry. The use of molecular models makes it easier to visualize the structures and shapes of atoms and molecules.
Structural Protein Function01:56

Structural Protein Function

Structural proteins are a category of proteins responsible for functions ranging from cell shape and movement to providing support to major structures such as bones, cartilage, hair, and muscles. This group includes proteins such as collagen, actin, myosin, and keratin.
Collagen, the most abundant protein in mammals, is found throughout the body. In connective tissue, such as skin, ligaments, and tendons, it provides tensile strength and elasticity.  In bones and teeth, it mineralizes to form...
Collagens are the Major Structural Proteins of ECM01:13

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Three main types of fibers are secreted by fibroblasts: collagen fibers, elastic fibers, and reticular fibers. Collagen fiber is made from fibrous protein subunits linked together to form a long, straight fiber. Collagen fibers, while flexible, have great tensile strength, resist stretching, and give ligaments and tendons their characteristic resilience and strength. These fibers hold connective tissues together, even during the body's movement.
Connective tissue proper includes loose...
Fibril-associated Collagen01:11

Fibril-associated Collagen

Fibril-associated collagens are a type of collagens present in the extracellular matrix with interrupted triple helices or FACIT (Fibril-associated collagens interrupted triple-helices). FACIT help connect and attach the collagen fibrils with each other as well as with other proteins of the extracellular matrix.
For example, the type II collagen fibrils in cartilage have covalently bound type IX fibril-associated collagens at regular intervals. Other types of fibril-associated collagens are...
Type IV Collagen of Basal Lamina01:05

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Type IV collagen is a 400 nm long, network-forming collagen that acts as a barrier between the epithelial and endothelial cells. Type IV collagen  forms the backbone of the basement membrane by scaffolding with laminin, entactin, proteoglycans, and fibronectin. Apart from rendering structural support to the basement membrane, it also helps entail signaling potentials necessary for both pathological and physiological functions.
A type IV collagen molecule has six alpha chains which can exist in...
X-ray Diffraction of Biological Samples01:10

X-ray Diffraction of Biological Samples

X-ray diffraction or XRD is an analytical tool that utilizes X-rays to study ordered structures such as crystalline organic and inorganic samples, polycrystalline materials, proteins, carbohydrates, and drugs.
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Related Experiment Video

Updated: Jul 1, 2026

Organotypic Collagen I Assay: A Malleable Platform to Assess Cell Behaviour in a 3-Dimensional Context
10:45

Organotypic Collagen I Assay: A Malleable Platform to Assess Cell Behaviour in a 3-Dimensional Context

Published on: October 13, 2011

The object technology framework: an object-oriented interface to molecular data and its application to collagen

C C Huang1, G S Couch, E F Pettersen

  • 1Computer Graphics Laboratory, University of California, San Francisco 94143-0446, USA.

Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing
|August 11, 1998
PubMed
Summary
This summary is machine-generated.

The Object Technology Framework (OTF) aids rapid development of biomolecular applications. It facilitates creating C++ class libraries for data access and collagen modeling, with source code freely available.

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Related Experiment Videos

Last Updated: Jul 1, 2026

Organotypic Collagen I Assay: A Malleable Platform to Assess Cell Behaviour in a 3-Dimensional Context
10:45

Organotypic Collagen I Assay: A Malleable Platform to Assess Cell Behaviour in a 3-Dimensional Context

Published on: October 13, 2011

Preparation of 3D Collagen Gels and Microchannels for the Study of 3D Interactions In Vivo
10:24

Preparation of 3D Collagen Gels and Microchannels for the Study of 3D Interactions In Vivo

Published on: May 9, 2016

Quantifying Fibrillar Collagen Organization with Curvelet Transform-Based Tools
07:58

Quantifying Fibrillar Collagen Organization with Curvelet Transform-Based Tools

Published on: November 11, 2020

Area of Science:

  • Computational Biology
  • Biomolecular Modeling
  • Software Engineering

Background:

  • Developing specialized software for biomolecular applications can be time-consuming.
  • Efficient data access and manipulation are crucial for scientific applications.
  • Standardized methods for creating reusable code libraries are needed.

Purpose of the Study:

  • To introduce the Object Technology Framework (OTF) for accelerated biomolecular application development.
  • To demonstrate the OTF's utility in generating C++ class libraries for scientific data.
  • To showcase the application of OTF in creating collagen structural models.

Main Methods:

  • Development of the Object Technology Framework (OTF) software system.
  • Utilizing the 'genlib' program and 'Molecule' toolkit to generate C++ class libraries.
  • Application of OTF for generating collagen structural models via 'gencollagen'.

Main Results:

  • The OTF system enables the creation of C++ classes for efficient data handling.
  • Generated class libraries facilitate rapid development of new biomolecular applications.
  • Successful application of OTF for generating ideal collagen structural models.

Conclusions:

  • The Object Technology Framework (OTF) significantly streamlines biomolecular application development.
  • OTF provides a robust solution for creating and utilizing scientific data class libraries.
  • The freely available OTF source code promotes wider adoption and further development.