Data from: Mechanical cues of an interpenetrating polysaccharide matrix regulate self-assembly of collagen fibers
Data files
Jul 21, 2026 version files 106 MB
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environment.yml.template
106 B
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Fig.2a_C-Alg_0.1Ca_Left.csv
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Fig.2a_C-Alg_0.2Ca_Middle.csv
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Fig.2a_C-Alg_0.3Ca_Right.csv
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Fig.2b_C-NbTz_NbTz11_Right.csv
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Fig.2b_C-NbTz_NbTz12_Middle.csv
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Fig.2b_C-NbTz_NbTz21_Left.csv
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Fig.3e_Alg_Continous_Left.csv
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Fig.3e_Alg_Stepshear_Left.csv
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Fig.3e_NbTz_Continous_Right.csv
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Fig.3e_NbTz_Stepshear_Right.csv
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Fig.3f_Alg.csv
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Fig.3f_NbTz.csv
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Fig.3g_Alg_NbTz_Left.csv
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Fig.3g_Alg_NbTz_Right.csv
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Fig.4b_Alg.csv
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Fig.4b_NbTz.csv
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Fig.4c_Alg_NbTz.csv
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Fig.5a_C-Alg_0.1Ca_Left.tif
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Fig.5a_C-Alg_0.2Ca_Middle.tif
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Fig.5a_C-Alg_0.3Ca_Right.tif
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Fig.5b_C-NbTz_NbTz11_Right.tif
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Fig.5b_C-NbTz_NbTz12_Middle.tif
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Fig.5b_C-NbTz_NbTz21_Left.tif
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Fig.5c_AreaFraction_Left.csv
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Fig.5c_Length_Middle.csv
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Fig.5c_Width_Right.csv
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Fig.5d_MultipleLinearRegression_AreaFraction_Left.csv
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Fig.5d_MultipleLinearRegression_Length_Middle.csv
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Fig.5d_MultipleLinearRegression_Width_Right.csv
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Fig.5ef_PCA.csv
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Fig.6c_NbTz0_t10.tif
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Fig.6c_NbTz0_t1000.tif
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Fig.6c_NbTz0_t20.tif
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Fig.6c_NbTz0_t40.tif
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Fig.6c_NbTz0_t90.tif
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Fig.6c_NbTz0.25_t10.tif
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Fig.6c_NbTz0.25_t1000.tif
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Fig.6c_NbTz0.25_t20.tif
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Fig.6c_NbTz0.25_t40.tif
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Fig.6c_NbTz0.25_t90.tif
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Fig.6c_NbTz0.375_t10.tif
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Fig.6c_NbTz0.375_t1000.tif
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Fig.6c_NbTz0.375_t20.tif
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Fig.6c_NbTz0.375_t40.tif
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Fig.6c_NbTz0.375_t90.tif
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Fig.6c_NbTz1_t10.tif
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Fig.6c_NbTz1_t1000.tif
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Fig.6c_NbTz1_t20.tif
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Fig.6c_NbTz1_t40.tif
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Fig.6c_NbTz1_t90.tif
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Fig.6d_FiberAreaPecent_Top.csv
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Fig.6d_NormalizedFiberArea_Bottom.csv
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Fig.6e_HalfTime.csv
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kinetics_sim.py
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mk_fwd_fig.py
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README.md
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setup.sh
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Abstract
Collagen molecules self-assemble into supramolecular fibers within a molecularly crowded, polysaccharide-rich extracellular matrix (ECM). The ECM typically has fluid-like, viscoelastic properties that can be quantified rheologically. Here, we determine that the viscoelasticity of a polysaccharide alginate ECM regulates the assembly of type I collagen fibers. The viscoelasticity and shear moduli of the alginate network were tuned by the polymer weight percentage and degree of cooperative ionic and covalent norbornene-tetrazine crosslinking. Stepwise shear strain applied to covalently crosslinked hydrogels generated higher stress than in ionic hydrogels. Hydrogels with reduced viscoelasticity also showed a reduction in water permeability. Second-harmonic generation confocal imaging revealed that decreasing viscoelasticity significantly suppressed collagen fiber self-assembly. Simulations demonstrated a mechanical coupling of the hydrogel network and the aggregate size of collagen molecules. Increased covalent crosslinking impaired the rate and magnitude of self-assembly in simulations and experimental results. These results suggest that ECM viscoelasticity plays a role in modulating the assembly and structural organization of collagen within the matrix. More broadly, they provide a framework for understanding how ECM mechanical properties can influence the assembly and organization of fibrillar macromolecules.
Dataset DOI: 10.5061/dryad.gxd25481t
Description of the data and file structure
Overview
This dataset contains all raw and processed data associated with the manuscript:
“Mechanical cues of an interpenetrating polysaccharide matrix regulate self-assembly of collagen fibers”
The study investigates how matrix stiffness, viscoelasticity, and permeability regulate collagen fibrillogenesis within interpenetrating collagen–alginate hydrogels.
All files are organized according to figure panels in the manuscript, and each file corresponds directly to the data used to generate those panels.
Methods Summary
• Rheology: Oscillatory shear (time sweep and frequency sweep) at 4°C
• Shear testing: Continuous and step strain protocols
• Permeability: Darcy’s law under compression
• Imaging: Second harmonic generation (SHG) microscopy
• Quantification: ImageJ and CT-FIRE
• Analysis: Multiple linear regression and PCA
Figure 2 — Rheological characterization of hydrogels
Files:
• Fig.2a_C-Alg_0.1Ca_Left.csv
• Fig.2a_C-Alg_0.2Ca_Middle.csv
• Fig.2a_C-Alg_0.3Ca_Right.csv
What this is: Time sweep rheology data (G′, G″, tanδ) during gelation at 4°C.
What it shows (based on manuscript):
• Increasing Ca²⁺ concentration increases stiffness (G′)
• Decreases viscoelastic dissipation (tanδ)
• Transitions the matrix from more fluid-like to more elastic behavior
Files:
• Fig.2b_C-NbTz_NbTz21_Left.csv
• Fig.2b_C-NbTz_NbTz12_Middle.csv
• Fig.2b_C-NbTz_NbTz11_Right.csv
What this is: Time sweep rheology for hydrogels with varying Nb:Tz ratios.
What it shows:
• Increasing covalent crosslinking increases stiffness
• Produces highly elastic networks (low tanδ)
• Suppresses stress relaxation compared to ionic gels
Figure 3 — Shear-dependent stress and relaxation behavior
Files:
• Fig.3e_Alg_Continous_Left.csv
• Fig.3e_Alg_Stepshear_Left.csv
• Fig.3e_NbTz_Continous_Right.csv
• Fig.3e_NbTz_Stepshear_Right.csv
What this is: Shear rheology data under continuous and stepwise strain.
What it shows:
• Alg: full stress relaxation after each step
• NbTz: stress accumulation and reduced relaxation
• Demonstrates increased mechanical resistance in covalently crosslinked gels
Files:
• Fig.3f_Alg.csv
• Fig.3f_NbTz.csv
What this is: Normalized stress relaxation curves.
What it shows:
• NbTz retains ~80% stress
• Alg retains ~60% stress
→ Indicates slower relaxation in NbTz networks
Files:
• Fig.3g_Alg_NbTz_Left.csv
• Fig.3g_Alg_NbTz_Right.csv
What this is: Aggregated data for relaxation percentage vs strain.
What it shows:
• Systematic difference in relaxation behavior across gel types
Figure 4 — Permeability measurements
Files:
• Fig.4b_Alg.csv
• Fig.4b_NbTz.csv
• Fig.4c_Alg_NbTz.csv
What this is: Flux vs pressure data and calculated permeability (Darcy’s law).
What it shows:
• Alg hydrogels have higher permeability
• NbTz hydrogels are more restrictive to fluid transport
→ Indicates tighter network and reduced pore transport
Figure 5 — Collagen fiber assembly and morphology
Files:
• Fig.5a_C-Alg_0.1Ca_Left.tif
• Fig.5a_C-Alg_0.2Ca_Middle.tif
• Fig.5a_C-Alg_0.3Ca_Right.tif
What this is: Second harmonic generation (SHG) images of collagen fibers.
What it shows:
• Increased Ca²⁺ changes fiber density and structure
Files:
• Fig.5b_C-NbTz_NbTz21_Left.tif
• Fig.5b_C-NbTz_NbTz12_Middle.tif
• Fig.5b_C-NbTz_NbTz11_Right.tif
What this is: SHG images for covalently crosslinked hydrogels.
What it shows:
• Reduced fibrillogenesis compared to C-Alg
• More dispersed and less developed fibers
Files:
• Fig.5c_AreaFraction_Left.csv
• Fig.5c_Length_Middle.csv
• Fig.5c_Width_Right.csv
What this is: Quantified collagen metrics from ImageJ + CT-FIRE.
What it shows:
• NbTz → lower area fraction, shorter, thinner fibers
• Alg → larger, thicker, more developed networks
Files:
• Fig.5d_MultipleLinearRegression_AreaFraction_Left.csv
• Fig.5d_MultipleLinearRegression_Length_Middle.csv
• Fig.5d_MultipleLinearRegression_Width_Right.csv
What this is: Regression linking mechanics → fiber structure
What it shows:
• Permeability = strongest predictor of fiber formation
• Stiffness negatively correlates with fiber growth
• Viscoelasticity supports elongation
Files:
• Fig.5ef_PCA.csv
What this is: Principal component analysis of all parameters
What it shows:
• PC1: stiffness vs permeability/viscoelasticity axis
• Clear separation between C-Alg and C-NbTz
• Collagen morphology clusters with permeability and relaxation
Figure 6 — Time-dependent collagen assembly
- environment.yml.template
- kinetics_sim.py
- mk_fwd_fig.py
- setup.sh
Files include all:
• Fig.6c_NbTz0_tXX.tif
• Fig.6c_NbTz0.25_tXX.tif
• Fig.6c_NbTz0.375_tXX.tif
• Fig.6c_NbTz1_tXX.tif
What this is: Time-resolved imaging of collagen assembly.
What it shows:
• Increasing NbTz crosslinking slows assembly
• High crosslinking can suppress fibril formation entirely
Files:
• Fig.6d_FiberAreaPercent_Top.csv
• Fig.6d_NormalizedFiberArea_Bottom.csv
What this is: Quantification of collagen fiber formation vs time
What it shows:
• Faster and greater assembly in C-Alg
• Delayed and reduced assembly in NbTz
Files:
• Fig.6e_HalfTime.csv
What this is: t₁/₂ from sigmoidal fitting
What it shows:
• Increasing crosslink density increases assembly half-time
→ Slower fibrillogenesis with stiffer, less permeable matrices
Key Takeaway
Across all datasets:
• Higher stiffness + lower permeability + reduced relaxation (NbTz)
→ suppress collagen assembly
• Higher permeability + higher viscoelasticity (Alg)
→ promote larger, thicker collagen networks
Files and variables
File: Fig.2a_C-Alg_0.1Ca_Left.csv
Description:
Time sweep rheology data of C-Alg hydrogel with 0.1 Ca²⁺ concentration (independent replicate).
Variables
- Time (s): Time during gelation
- Storage Modulus (Pa): G' representing hydrogel stiffness (elastic behavior)
- Loss Modulus (Pa): G″ (viscous behavior)
- tan(d): Loss tangent (G″/G′), indicating viscoelastic behavior
File: Fig.2a_C-Alg_0.2Ca_Middle.csv
Description:
Time sweep rheology data of C-Alg hydrogel with 0.2 Ca²⁺ concentration (independent replicate).
Variables
- Time (s): Time during gelation
- Storage Modulus (Pa): G' representing hydrogel stiffness (elastic behavior)
- Loss Modulus (Pa): G″ (viscous behavior)
- tan(d): Loss tangent (G″/G′), indicating viscoelastic behavior
File: Fig.2a_C-Alg_0.3Ca_Right.csv
Description:
Time sweep rheology data of C-Alg hydrogel with 0.3 Ca²⁺ concentration (independent replicate).
Variables
- Time (s): Time during gelation
- Storage Modulus (Pa): G' representing hydrogel stiffness (elastic behavior)
- Loss Modulus (Pa): G″ (viscous behavior)
- tan(d): Loss tangent (G″/G′), indicating viscoelastic behavior
File: Fig.2b_C-NbTz_NbTz21_Left.csv
Description:
Time sweep rheology of dual-crosslinked collagen–alginate NbTz hydrogel with Nb:Tz = 2:1 ratio.
Variables
- Time (s): Time during gelation
- Storage Modulus (Pa): G' representing hydrogel stiffness (elastic behavior)
- Loss Modulus (Pa): G″ (viscous behavior)
- tan(d): Loss tangent (G″/G′), indicating viscoelastic behavior
File: Fig.2b_C-NbTz_NbTz12_Middle.csv
Description:
Time sweep rheology of dual-crosslinked collagen–alginate NbTz hydrogel with Nb:Tz = 1:2 ratio.
Variables
- Time (s): Time during gelation
- Storage Modulus (Pa): G' representing hydrogel stiffness (elastic behavior)
- Loss Modulus (Pa): G″ (viscous behavior)
- tan(d): Loss tangent (G″/G′), indicating viscoelastic behavior
File: Fig.2b_C-NbTz_NbTz11_Right.csv
Description:
Time sweep rheology of dual-crosslinked collagen–alginate NbTz hydrogel with Nb:Tz = 1:1 ratio.
Variables
- Time (s): Time during gelation
- Storage Modulus (Pa): G' representing hydrogel stiffness (elastic behavior)
- Loss Modulus (Pa): G″ (viscous behavior)
- tan(d): Loss tangent (G″/G′), indicating viscoelastic behavior
File: Fig.3e_Alg_Continous_Left.csv
Description:
Shear rheology under continuous strain for Alg hydrogel.
Variables
- Shear Strain (%): Applied deformation
- Shear Stress (Pa): Measured stress response
File: Fig.3e_Alg_Stepshear_Left.csv
Description:
Stepwise strain rheology for Alg hydrogel to evaluate stress relaxation behavior.
Variables
- Shear Strain (%): Applied deformation
- Shear Stress (Pa): Measured stress response
File: Fig.3e_NbTz_Continous_Right.csv
Description:
Continuous shear rheology for NbTz hydrogel.
Variables
- Shear Strain (%): Applied deformation
- Shear Stress (Pa): Measured stress response
File: Fig.3e_NbTz_Stepshear_Right.csv
Description:
Stepwise strain rheology for NbTz hydrogel showing reduced stress relaxation.
Variables
- Shear Strain (%): Applied deformation
- Shear Stress (Pa): Measured stress response
File: Fig.3f_Alg.csv
Description:
Stress relaxation curve for Alg hydrogel.
Variables
- Time: Relaxation time
- Stress: Measured stress
- Normalized Stress: Stress normalized to highest value
File: Fig.3f_NbTz.csv
Description:
Stress relaxation curve for NbTz hydrogel.
Variables
- Time: Relaxation time
- Stress: Measured stress
- Normalized Stress: Stress normalized to highest value
File: Fig.3g_Alg_NbTz_Left.csv
Description:
Comparison of stress response between Alg and NbTz hydrogels under increasing strain.
Variables
- Strain (%): Applied strain
- Alg: Response for C-Alg hydrogel
- NbTz: Response for NbTz hydrogel
File: Fig.3g_Alg_NbTz_Right.csv
Description:
Comparison of relaxation percentage between Alg and NbTz hydrogels.
Variables
- Relaxation Percent for Alg (%)
- Relaxation Percent for NbTz (%)
File: Fig.4b_Alg.csv
Description:
Permeability measurements for Alg hydrogel based on flux vs pressure relationship.
Variables
- Normal Stress (Pa): Applied pressure
- q: Volumetric flow rate
- Flux (m/s): Flow per unit area
File: Fig.4b_NbTz.csv
Description:
Permeability measurements for NbTz hydrogel.
Variables
- Normal Stress (Pa): Applied pressure
- q: Volumetric flow rate
- Flux (m/s): Flow per unit area
File: Fig.4c_Alg_NbTz.csv
Description:
Comparison of calculated permeability values between C-Alg and NbTz hydrogels.
Variables
- Alg Permeability (m²): Hydraulic permeability of the hydrogel, calculated using Darcy’s law
- NbTz Permeability (m²): Hydraulic permeability of the hydrogel, calculated using Darcy’s law
File: Fig.5a_C-Alg_0.1Ca_Left.tif
Description:
Second harmonic generation (SHG) microscopy image of collagen fibers in C-Alg hydrogels at 0.1 Ca²⁺ concentration.
File: Fig.5a_C-Alg_0.2Ca_Middle.tif
Description:
Second harmonic generation (SHG) microscopy image of collagen fibers in C-Alg hydrogels at 0.2 Ca²⁺ concentration.
File: Fig.5a_C-Alg_0.3Ca_Right.tif
Description:
Second harmonic generation (SHG) microscopy image of collagen fibers in C-Alg hydrogels at 0.3 Ca²⁺ concentration.
File: Fig.5b_C-NbTz_NbTz21_Left.tif
Description:
SHG image of collagen fibers in C-NbTz hydrogels with Nb:Tz ratio of 2:1.
File: Fig.5b_C-NbTz_NbTz12_Middle.tif
Description:
SHG image of collagen fibers in C-NbTz hydrogels with Nb:Tz ratio of 1:2.
File: Fig.5b_C-NbTz_NbTz11_Right.tif
Description:
SHG image of collagen fibers in C-NbTz hydrogels with Nb:Tz ratio of 1:1.
File: Fig.5c_AreaFraction_Left.csv
Description: Quantification of collagen fiber area fraction from SHG images.
Variables
- Sample ID
- Area Fraction (%): Fraction of image area occupied by collagen fibers (extent of assembly)
File: Fig.5c_Length_Middle.csv
Description:
Quantification of collagen fiber length.
Variables
- Sample ID
- Length (pixel): Average length of collagen fibers
File: Fig.5c_Width_Right.csv
Description:
Quantification of collagen fiber width.
Variables
- Sample ID
- Width (pixel): Average thickness of collagen fibers
File: Fig.5d_MultipleLinearRegression_AreaFraction_Left.csv
Description:
Regression dataset relating mechanical properties to collagen area fraction.
Variables
- average area%: Fraction of image area occupied by collagen fibers (extent of assembly)
- G' (kPa): Storage modulus representing hydrogel stiffness (elastic behavior)
- tan(d): Loss Modulus/Storage Modulus
- permeability: Hydraulic permeability of the hydrogel, calculated using Darcy’s law
File: Fig.5d_MultipleLinearRegression_Length_Middle.csv
Description:
Regression dataset for fiber length.
Variables
- average length (pixel): Average length of collagen fibers
- G' (kPa): Storage modulus representing hydrogel stiffness (elastic behavior)
- tan(d): Loss Modulus/Storage Modulus
- permeability: Hydraulic permeability of the hydrogel, calculated using Darcy’s law
File: Fig.5d_MultipleLinearRegression_Width_Right.csv
Description:
Regression dataset for fiber width.
Variables
- average width (pixel): Average thickness of collagen fibers
- G' (kPa): Storage modulus representing hydrogel stiffness (elastic behavior)
- tan(d): Loss Modulus/Storage Modulus
- permeability: Hydraulic permeability of the hydrogel, calculated using Darcy’s law
File: Fig.5ef_PCA.csv
Description:
Dataset used for principal component analysis linking mechanical properties to collagen morphology.
Variables
- Nb:Tz :Ratio of norbornene to tetrazine crosslinkers controlling covalent crosslink density
- Polymer Content (% w/v): Concentration of alginate in the hydrogel (affects network density)
- Ca2+ Content (% w/v): Calcium concentration controlling ionic crosslinking strength
- Type of gel: Hydrogel formulation (e.g., C-Alg = ionic, C-NbTz = ionic + covalent)
- area%: Fraction of image area occupied by collagen fibers (extent of assembly)
- G' (kPa): Storage modulus representing hydrogel stiffness (elastic behavior)
- tan(d): Ratio of viscous to elastic behavior (G″/G′), indicating viscoelasticity
- permeability (m²): Ease of fluid transport through the hydrogel network
- length (pixel): Average length of collagen fibers
- width (pixel): Average thickness of collagen fibers
- straightness: Measure of fiber alignment (higher = straighter fibers)
- shear stress at 40% strain (kPa): Stress required to deform the gel at 40% strain (mechanical resistance)
- relaxation %: Percentage of stress dissipated over time (viscoelastic relaxation)
File: Fig.6c_NbTz0_t10.tif
Description:
Time-resolved SHG imaging of collagen fiber assembly under NbTz ratio of 0 (C-Alg) conditions.
The time point of t=10 minutes represents fibrillogenesis.
File: Fig.6c_NbTz0_t20.tif
Description:
Time-resolved SHG imaging of collagen fiber assembly under NbTz ratio of 0 (C-Alg) conditions. The time point of t=20 minutes represents fibrillogenesis.
File: Fig.6c_NbTz0_t40.tif
Description:
Time-resolved SHG imaging of collagen fiber assembly under NbTz ratio of 0 (C-Alg) conditions. The time point of t=40 minutes represents fibrillogenesis.
File: Fig.6c_NbTz0_t90.tif
Description:
Time-resolved SHG imaging of collagen fiber assembly under NbTz ratio of 0 (C-Alg) conditions.
The time point of t=90 minutes represents fibrillogenesis.
File: Fig.6c_NbTz0_t1000.tif
Description:
Time-resolved SHG imaging of collagen fiber assembly under NbTz ratio of 0 (C-Alg) conditions. The time point of t=1000 minutes represents fibrillogenesis.
File: Fig.6c_NbTz0.25_t10.tif
Description:
Time-resolved SHG imaging of collagen fiber assembly under NbTz ratio of 0.25 (C-NbTz) conditions. The time point of t=10 minutes represents fibrillogenesis.
File: Fig.6c_NbTz0.25_t20.tif
Description:
Time-resolved SHG imaging of collagen fiber assembly under NbTz ratio of 0.25 (C-NbTz) conditions.
The time point of t=20 minutes represents fibrillogenesis.
File: Fig.6c_NbTz0.25_t40.tif
Description:
Time-resolved SHG imaging of collagen fiber assembly under NbTz ratio of 0.25 (C-NbTz) conditions. The time point of t=40 minutes represents fibrillogenesis.
File: Fig.6c_NbTz0.25_t90.tif
Description:
Time-resolved SHG imaging of collagen fiber assembly under NbTz ratio of 0.25 (C-NbTz) conditions.
The time point of t=90 minutes represents fibrillogenesis.
File: Fig.6c_NbTz0.25_t1000.tif
Description:
Time-resolved SHG imaging of collagen fiber assembly under NbTz ratio of 0.25 (C-NbTz) conditions.
The time point of t=1000 minutes represents fibrillogenesis.
File: Fig.6c_NbTz0.375_t10.tif
Description:
Time-resolved SHG imaging of collagen fiber assembly under NbTz ratio of 0.375 (C-NbTz) conditions. The time point of t=10 minutes represents fibrillogenesis.
File: Fig.6c_NbTz0.375_t20.tif
Description:
Time-resolved SHG imaging of collagen fiber assembly under NbTz ratio of 0.375 (C-NbTz) conditions.
The time point of t=20 minutes represents fibrillogenesis.
File: Fig.6c_NbTz0.375_t40.tif
Description:
Time-resolved SHG imaging of collagen fiber assembly under NbTz ratio of 0.375 (C-NbTz) conditions.
The time point of t=40 minutes represents fibrillogenesis.
File: Fig.6c_NbTz0.375_t90.tif
Description:
Time-resolved SHG imaging of collagen fiber assembly under NbTz ratio of 0.375 (C-NbTz) conditions. The time point of t=90 minutes represents fibrillogenesis.
File: Fig.6c_NbTz0.375_t1000.tif
Description:
Time-resolved SHG imaging of collagen fiber assembly under NbTz ratio of 0.375 (C-NbTz) conditions.
The time point of t=1000 minutes represents fibrillogenesis.
File: Fig.6c_NbTz1_t10.tif
Description:
Time-resolved SHG imaging of collagen fiber assembly under NbTz ratio of 1 (C-NbTz) conditions. The time point of t=10 minutes represents fibrillogenesis.
File: Fig.6c_NbTz1_t20.tif
Description:
Time-resolved SHG imaging of collagen fiber assembly under NbTz ratio of 1 (C-NbTz) conditions.
The time point of t=20 minutes represents fibrillogenesis.
File: Fig.6c_NbTz1_t40.tif
Description:
Time-resolved SHG imaging of collagen fiber assembly under NbTz ratio of 1 (C-NbTz) conditions. The time point of t=40 minutes represents fibrillogenesis.
File: Fig.6c_NbTz1_t90.tif
Description:
Time-resolved SHG imaging of collagen fiber assembly under NbTz ratio of 1 (C-NbTz) conditions.
The time point of t=90 minutes represents fibrillogenesis.
File: Fig.6c_NbTz1_t1000.tif
Description:
Time-resolved SHG imaging of collagen fiber assembly under NbTz ratio of 1 (C-NbTz) conditions.
The time point of t=1000 minutes represents fibrillogenesis.
File: Fig.6d_FiberAreaPecent_Top.csv
Description:
Absolute collagen fiber area fraction over time for multiple replicates across NbTz conditions.
Variables
- time (min): Time after initiation of collagen assembly
- NbTz 0.25 Ca2+ 0.3 - 1 to 8: Collagen fiber area fraction (%) for eight independent replicates in hydrogels with NbTz = 0.25 and 0.3% Ca²⁺
- NbTz 0.375 Ca2+ 0.3 - 1 to 8: Collagen fiber area fraction (%) for eight independent replicates in hydrogels with NbTz = 0.375 and 0.3% Ca²⁺
- NbTz 1.0 Ca2+ 0.3 - 1 to 8: Collagen fiber area fraction (%) for eight independent replicates in hydrogels with NbTz = 1.0 and 0.3% Ca²⁺
- NbTz 0 Ca2+ 0.3 - 1 to 8: Collagen fiber area fraction (%) for eight independent replicates in ionically crosslinked hydrogels (NbTz = 0) with 0.3% Ca²⁺
File: Fig.6d_NormalizedFiberArea_Bottom.csv
Description:
Normalized collagen fiber area over time.
Variables
- time (min): Time after initiation of collagen assembly
- NbTz 0.25 Ca2+ 0.3 - 1 to 8: Collagen fiber area fraction (%) for eight independent replicates in hydrogels with NbTz = 0.25 and 0.3% Ca²⁺
- NbTz 0.375 Ca2+ 0.3 - 1 to 8: Collagen fiber area fraction (%) for eight independent replicates in hydrogels with NbTz = 0.375 and 0.3% Ca²⁺
- NbTz 1.0 Ca2+ 0.3 - 1 to 8: Collagen fiber area fraction (%) for eight independent replicates in hydrogels with NbTz = 1.0 and 0.3% Ca²⁺
- NbTz 0 Ca2+ 0.3 - 1 to 8: Collagen fiber area fraction (%) for eight independent replicates in ionically crosslinked hydrogels (NbTz = 0) with 0.3% Ca²⁺
File: Fig.6e_HalfTime.csv
Description:
Calculated half-time (t½) of collagen fiber assembly for each NbTz condition.
Variables
- NbTz (mM): Crosslinker concentration
- Half-time (min): Time to reach 50% maximum fiber formation