5-Hydroxymethyl-2’-deoxycytidine (Synonyms: 5hmdC)

Name: 5-Hydroxymethyl-2’-deoxycytidine
Brand: MedChemExpress
SKU: HY-131394
Rating: 4.5 (1 reviews)

Cat. No.: HY-131394 Purity: 99.96%: FAQs
Data Sheet SDS COA Handling Instructions

Molarity Calculator

5-Hydroxymethyl-2’-deoxycytidine (5hmdC) is an oxidation derivative of 5-methyl-2'-deoxycytidine (5-mdC) in DNA. 5-Hydroxymethyl-2’-deoxycytidine may serve as a marker of irreversibly damaged cells.

For research use only. We do not sell to patients.

5-Hydroxymethyl-2’-deoxycytidine Chemical Structure

CAS No. : 7226-77-9

Size	Price	Stock	Quantity
Solid + Solvent (Highly Recommended)
10 mM * 1 mL in DMSO ready for reconstitution	USD 110	In-stock	Estimated Time of Arrival: December 31
Solution
10 mM * 1 mL in DMSO	USD 110	In-stock	Estimated Time of Arrival: December 31
Solid
5 mg	USD 100	In-stock	Estimated Time of Arrival: December 31
10 mg	USD 150	In-stock	Estimated Time of Arrival: December 31
25 mg	USD 270	In-stock	Estimated Time of Arrival: December 31
50 mg	USD 410	In-stock	Estimated Time of Arrival: December 31
100 mg	USD 620	In-stock	Estimated Time of Arrival: December 31
200 mg		Get quote
500 mg		Get quote

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Customer Review

Based on 1 publication(s) in Google Scholar

Other Forms of 5-Hydroxymethyl-2’-deoxycytidine:

5-Hydroxymethyl-2'-deoxycytidine-d₃ Get quote

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Biological Activity
Purity & Documentation
References
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Description

Cellular Effect

Cell Line	Type	Value	Description	References
CEM-SS	CC₅₀	> 200 μM Compound: 2c	Cytotoxicity against human CEM-SS cells by MTT assay Cytotoxicity against human CEM-SS cells by MTT assay	[PMID: 20112915]
CEM-SS	IC₅₀	24 μM Compound: 2c	Antiviral activity against HIV1 LAI in human CEM-SS cells assessed as RT activity after 5 days by single passage assay Antiviral activity against HIV1 LAI in human CEM-SS cells assessed as RT activity after 5 days by single passage assay	[PMID: 20112915]
MT4	CC₅₀	> 200 μM Compound: 2c	Cytotoxicity against human MT4 cells by MTT assay Cytotoxicity against human MT4 cells by MTT assay	[PMID: 20112915]
MT4	IC₅₀	> 200 μM Compound: 2c	Antiviral activity against HIV1 3B in human MT4 cells assessed as RT activity after 5 days by single passage assay Antiviral activity against HIV1 3B in human MT4 cells assessed as RT activity after 5 days by single passage assay	[PMID: 20112915]

Molecular Weight

257.24

Formula

C₁₀H₁₅N₃O₅

CAS No.

7226-77-9

Appearance

Solid

Color

White to off-white

SMILES

O[C@H]1C[C@H](N2C(N=C(N)C(CO)=C2)=O)O[C@@H]1CO

Structure Classification

Others

Initial Source

Animals

in human lung carcinomas and in brain tumor DNA

Shipping

Room temperature in continental US; may vary elsewhere.

Storage

Powder	-20°C	3 years
	4°C	2 years
In solvent	-80°C	6 months
	-20°C	1 month

Solvent & Solubility

In Vitro:

DMSO : 50 mg/mL (194.37 mM; Need ultrasonic; Hygroscopic DMSO has a significant impact on the solubility of product, please use newly opened DMSO)

Preparing
Stock Solutions

Concentration Solvent Mass	1 mg	5 mg	10 mg

1 mM	3.8874 mL	19.4371 mL	38.8742 mL
5 mM	0.7775 mL	3.8874 mL	7.7748 mL
10 mM	0.3887 mL	1.9437 mL	3.8874 mL

View the Complete Stock Solution Preparation Table

* Please refer to the solubility information to select the appropriate solvent. Once prepared, please aliquot and store the solution to prevent product inactivation from repeated freeze-thaw cycles.
Storage method and period of stock solution: -80°C, 6 months; -20°C, 1 month. When stored at -80°C, please use it within 6 months. When stored at -20°C, please use it within 1 month.

Molarity Calculator
Dilution Calculator

Mass (g) = Concentration (mol/L) × Volume (L) × Molecular Weight (g/mol)

Concentration _(start) × Volume _(start) = Concentration _(final) × Volume _(final)

This equation is commonly abbreviated as: C₁V₁ = C₂V₂

Concentration _(start)

Volume _(start)

Concentration _(final)

Volume _(final)

In Vivo:

Select the appropriate dissolution method based on your experimental animal and administration route.

For the following dissolution methods, please ensure to first prepare a clear stock solution using an In Vitro approach and then sequentially add co-solvents:
To ensure reliable experimental results, the clarified stock solution can be appropriately stored based on storage conditions. As for the working solution for in vivo experiments, it is recommended to prepare freshly and use it on the same day.
The percentages shown for the solvents indicate their volumetric ratio in the final prepared solution. If precipitation or phase separation occurs during preparation, heat and/or sonication can be used to aid dissolution.

Protocol 1

Add each solvent one by one: 10% DMSO 40% PEG300 5% Tween-80 45% Saline
Solubility: ≥ 2.5 mg/mL (9.72 mM); Clear solution

This protocol yields a clear solution of ≥ 2.5 mg/mL (saturation unknown).
Taking 1 mL working solution as an example, add 100 μL DMSO stock solution (25.0 mg/mL) to 400 μL PEG300, and mix evenly; then add 50 μL Tween-80 and mix evenly; then add 450 μL Saline to adjust the volume to 1 mL.
Preparation of Saline: Dissolve 0.9 g sodium chloride in ddH₂O and dilute to 100 mL to obtain a clear Saline solution.
Protocol 2

Add each solvent one by one: 10% DMSO 90% (20% SBE-β-CD in Saline)
Solubility: ≥ 2.5 mg/mL (9.72 mM); Clear solution

This protocol yields a clear solution of ≥ 2.5 mg/mL (saturation unknown).
Taking 1 mL working solution as an example, add 100 μL DMSO stock solution (25.0 mg/mL) to 900 μL 20% SBE-β-CD in Saline, and mix evenly.
Preparation of 20% SBE-β-CD in Saline (4°C, storage for one week): 2 g SBE-β-CD powder is dissolved in 10 mL Saline, completely dissolve until clear.
Protocol 3

Add each solvent one by one: 10% DMSO 90% Corn Oil
Solubility: ≥ 2.5 mg/mL (9.72 mM); Clear solution

This protocol yields a clear solution of ≥ 2.5 mg/mL (saturation unknown). If the continuous dosing period exceeds half a month, please choose this protocol carefully.
Taking 1 mL working solution as an example, add 100 μL DMSO stock solution (25.0 mg/mL) to 900 μL Corn oil, and mix evenly.

For the following dissolution methods, please prepare the working solution directly. It is recommended to prepare fresh solutions and use them promptly within a short period of time.
The percentages shown for the solvents indicate their volumetric ratio in the final prepared solution. If precipitation or phase separation occurs during preparation, heat and/or sonication can be used to aid dissolution.

Protocol 1

Add each solvent one by one: 0.5% CMC-Na/saline water
Solubility: 10 mg/mL (38.87 mM); Clear solution; Need ultrasonic
Protocol 2

Add each solvent one by one: 50% PEG300 50% PBS
Solubility: 10 mg/mL (38.87 mM); Clear solution; Need ultrasonic

In Vivo Dissolution Calculator

Please enter the basic information of animal experiments:

Dosage

mg/kg

Animal weight
(per animal)

Dosing volume
(per animal)

μL

Number of animals

Recommended: Prepare an additional quantity of animals to account for potential losses during experiments.

Please enter your animal formula composition:

DMSO +

Tween-80 +

Saline

Recommended: Keep the proportion of DMSO in working solution below 2% if your animal is weak.

The co-solvents required include: DMSO, . All of co-solvents are available by MedChemExpress (MCE). , Tween 80. All of co-solvents are available by MedChemExpress (MCE).

Calculation results:

Working solution concentration: mg/mL

Method for preparing stock solution: mg drug dissolved in μL DMSO (Stock solution concentration: mg/mL).

The concentration of the stock solution you require exceeds the measured solubility. The following solution is for reference only. If necessary, please contact MedChemExpress (MCE).

Method for preparing in vivo working solution for animal experiments: Take μL DMSO stock solution, add μL . μL , mix evenly, next add μL Tween 80, mix evenly, then add μL Saline.

If the continuous dosing period exceeds half a month, please choose this protocol carefully.

Please ensure that the stock solution in the first step is dissolved to a clear state, and add co-solvents in sequence. You can use ultrasonic heating (ultrasonic cleaner, recommended frequency 20-40 kHz), vortexing, etc. to assist dissolution.

Purity & Documentation

Purity: 99.96%

Select Batch:

Data Sheet (274 KB) SDS (393 KB)

COA (250 KB) HNMR (135 KB) RP-HPLC (244 KB) LCMS (233 KB)

Handling Instructions (2659 KB)

References

[1]. Ewelina Zarakowska, et al. Oxidation Products of 5-Methylcytosine are Decreased in Senescent Cells and Tissues of Progeroid Mice. J Gerontol A Biol Sci Med Sci. 2018 Jul 9;73(8):1003-1009. [Content Brief]

[2]. Shuo Liu, et al. Quantitative assessment of Tet-induced oxidation products of 5-methylcytosine in cellular and tissue DNA. Nucleic Acids Res. 2013 Jul;41(13):6421-9. [Content Brief]

Complete Stock Solution Preparation Table

Optional Solvent	Concentration Solvent Mass	1 mg	5 mg	10 mg	25 mg

DMSO	1 mM	3.8874 mL	19.4371 mL	38.8742 mL	97.1855 mL
	5 mM	0.7775 mL	3.8874 mL	7.7748 mL	19.4371 mL
	10 mM	0.3887 mL	1.9437 mL	3.8874 mL	9.7186 mL
	15 mM	0.2592 mL	1.2958 mL	2.5916 mL	6.4790 mL
	20 mM	0.1944 mL	0.9719 mL	1.9437 mL	4.8593 mL
	25 mM	0.1555 mL	0.7775 mL	1.5550 mL	3.8874 mL
	30 mM	0.1296 mL	0.6479 mL	1.2958 mL	3.2395 mL
	40 mM	0.0972 mL	0.4859 mL	0.9719 mL	2.4296 mL
	50 mM	0.0777 mL	0.3887 mL	0.7775 mL	1.9437 mL
	60 mM	0.0648 mL	0.3240 mL	0.6479 mL	1.6198 mL
	80 mM	0.0486 mL	0.2430 mL	0.4859 mL	1.2148 mL
	100 mM	0.0389 mL	0.1944 mL	0.3887 mL	0.9719 mL

5-Hydroxymethyl-2’-deoxycytidine Related Classifications

Help & FAQs

Do most proteins show cross-species activity?
Species cross-reactivity must be investigated individually for each product. Many human cytokines will produce a nice response in mouse cell lines, and many mouse proteins will show activity on human cells. Other proteins may have a lower specific activity when used in the opposite species.

Keywords:

5-Hydroxymethyl-2’-deoxycytidine7226-77-95hmdCOthersoxidationderivative5-methyl-2'-deoxycytidineDNAcelltissuedamagedmarkerInhibitorinhibitorinhibit

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5-Hydroxymethyl-2’-deoxycytidine (Synonyms: 5hmdC)

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Other Forms of 5-Hydroxymethyl-2’-deoxycytidine:

5-Hydroxymethyl-2’-deoxycytidine Related Antibodies

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•Related Screening Libraries:

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•Related Proteins:

Biological Activity

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References

Customer Review

Molarity Calculator

Dilution Calculator

Complete Stock Solution Preparation Table

5-Hydroxymethyl-2’-deoxycytidine Related Classifications

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