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Microarray

Microarray

Macrogen provides various gene analysis services using precise DNA microarray technology.
Known by various terms such as DNA chip, biochip and gene-array, microarray is a technology
that measures the expression pattern of genes and verifies whether there is a mutation
by arranging invisible probes on a chip and reacting DNA, RNA, protein, etc.

Macrogen is the only company in Korea that has all the products of Illumina, Affymetrix and Agilent,
which are the main suppliers of microarray products. Based on such equipment,
we offer genetic testing services for research purposes such as mRNA, miRNA, SNP, CGH
and DNA methylation.

mRNA Expression Microarray

With an mRNA expression microarray, tests are performed for the mRNA analysis of various organisms
and significant genes can be selected by conducting a statistical analysis of the data obtained from the tests.

Expression Microarray Platforms
Manufacturer Specimen Platform
Agilent
  • -Human
  • -Mouse
  • -Rat
  • -Model Org/Non-Human
  • -SurePrint G3 Gene Expression
  • -SurePrint G3 Exon
  • -Customization
  • -Others
Affymetrix
  • -Gene ST (Whole Transcript)
  • -GenomeArray (3'IVT)
  • -Others
Life Technologies
  • -Taqman mRNA Expression
  • -Openarray Customization
Analysis
Analysis Items Contents
Affymetrix Basic statistics(Fold change, group mean, sd etc.)
Identifying differentially expressed genes(T-test, LPE test, ANOVA etc.)
Multiple testing correction (FDR, Bonferroni etc.)
Clustering Analysis for DEG ( Hierarchical clustering, K-means etc.)
Functional analysis KEGG pathway, GeneOntologyannotation(DAVID, goProfiles, GOstats etc.)
GeneSet Enrichment Analysis
Customized analysis Integrative analysis (mRNA-miRNA, methylation~mRNA, mRNA-CNV etc.)

microRNA Expression Microarray

microRNAs exist in many forms according to the generation process.
We have many microarray products to analyze the expression patterns of mature miRNAs known by studies.

Macrogen provides analysis services including selection of microRNAs where differential expression is confirmed
and target mRNA prediction, as well as test services using microarrays.

miRNA Expression Microarray Platforms
Manufacturer Specimen Platform
Agilent
  • -Human
  • -Mouse
  • -Rat
  • -Model Org/Non-Human
  • -SurePrint G3 miRNA Expression
  • -Customization
Affymetrix
  • -miRNA 4.0 (203 specimens)
Life Technologies
  • -Taqman miRNA Expression
Analysis
Analysis Items Contents
Data analysis of DE Basic statistics(Fold change, group mean, sd etc.)
Identifying differentially expressed genes(T-test, LPE test, ANOVA etc.)
Multiple testing correction (FDR, Bonferroni etc.)
Clustering Analysis for DEG ( Hierarchical clustering, K-means etc.)
Customized analysis Target gene prediction
Integrative analysis (mRNA-miRNA)

SNP Genotyping Microarray

For human genome composed of about 3 billion pairs of bases, most DNA sequences of individuals match,
but about 0.1% is SNP (Single Nucleotide Polymorphism), which is where the difference lies.

Research institutes and medical institutions around the world are actively conducting research to define the functional characteristics of SNP.
With various kinds of microarrays, Macrogen can easily provide analysis for hundreds of thousands to millions of Human SNP.

SNP Genotyping Microarray Platforms
Manufacturer Specimen Type Platform SNP contents
Illumina
  • -Human
  • -Model Org / Non-Human
Genome Wide SNP Array Infinium Omni5Exome-4 4.5M
Infinium Omni5-4 4.3M
Infinium Omni2.5Exome-8 2.7M
Infinium Omni2.5-8 2.5M
Infinium OmniExpressExome-8 950K
Infinium OmniExpress-24 715K
Infinium Asian Screening Array 660K
Infinium GlobalScreeningArray 660K
Etc
Life Technologies
  • -Any pre-designed probes
  • -Customized probes
Openarray Customization Up to 240 SNPs
Taqman genotyping
Analysis
Analysis Items Contents
SNP analysis SNP analysis
Single Based Association Study (PLINK, R)
Gene Based Association Study (SKAT, Score-Seqetc)
Family based Association Study (TDT, FBAT)
Linkage analysis (Merlin)
CNV analysis CNV segments Data (cnvPartition)
CNVR association study
DGV mapping
Customized analysis Additional plotting, annotation, etc..

CGH Microarray

CNV (Copy Number Variation) means the DNA variation that a certain sequence section
more than 1Kb is lost or amplified and repeated in the chromosome.
Such copy number variation can cause various genetic diseases as well as the proliferation of cancer cells.

Macrogen analyzes structure variation in chromosomes including CNV
using CGH (Comparative Genome Hybridization) microarray.

CGH Microarray Platforms
Agilent CGH
· High resolution (60mer) & sensitivity CGH/CNV chips are provided
· CGH/CNV chips related to organisms other than human are provided and can be customized
· CGH test using FFPE samples available
Products No. of probes Average marker spacing
Human CGH 1x1M 1M 3,118 base
Human CGH 2x400K 400K 7,304 base
Human CGH 4x180K 180K 17,627 base
Human CGH 8x60K 60K 54,455 base
Analysis
Analysis items Contents
CNV analysis CNV segments Data (cnvPartition)
CNVR association study
DGV mapping
Customized analysis Additional plotting, annotation, etc..

DNA Methylation Microarray

DNA methylation is a chemical transformation that controls gene expression.
This phenomenon of methyl generated in cytosine at the CpG site exists around the promoter region of a gene.

Macrogen can correctly identify whether there is genome methylation using Illumina microarray
and give biological meaning with statistical analysis of the results.

miRNA Expression Microarray Platforms
Product Contents Feature
Infinium Methylation
EPIC Bead Chip
>860,000 CpG sites
(>26,000 genes)
* 8 samples are tested per chip
Test on FFPE sample is available
Analysis
Analysis item Contents
Data analysis of DM CpG Basic statistics(delta_mean, group mean, sd etc.)
Identifying differentially methylated CpGs(T-test, LPE test, ANOVA etc.)
Multiple testing correction (FDR, Bonferroni etc.)
Clustering Analysis for DM CpGs( Hierarchical clustering, K-means etc.)
Functional analysis KEGG pathway, GeneOntologyannotation(DAVID, goProfiles, GOstats etc.)
GeneSet Enrichment Analysis
Customized analysis Integrative analysis (methylation~mRNA etc.)
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General Terms & Conditions

This agreement is a contract between you and Macrogen Inc. and applies to Macrogen’s services usage in whole. You shall read, agree with and accept all of the terms and conditions contained in this agreement.

Article.1 General rule

1. 1. Purpose,

This agreement is to comply with the law of electric communication enterprise and an Enforcement Ordinance in Korea on the utilization stipulation and procedure of all the related service provided by Macrogen Inc.

1.2. Service,

Service defines that it furnishes DNA sequencing and other additional information through http://dna.macrogen.com to be provided by Macrogen Inc hereunder.

1.3 Effectiveness and change of the agreement,

  1. It shall come into effect on the date when Macrogen Inc. post it in public.
  2. It may be amended by any such change of important business reasons and proceeded with work as changed after all the amendments are made.

Article 2. Enrollment of a membership and Service Usage,

2.1 Eligibility and Types of accounts

  1. To be eligible for our service, you shall obtain the consent of service usage from Macrogen and make an agreement.
  2. In the event that you have the desire to create your own account and use our service, you shall provide us with your personal information in accordance with Macrogen Inc’s request
  3. In the event that Macrogen Inc. authorizes the Service Usage to you, such notice shall be considered to be received by Macrogen Inc with User ID and other related information.
  4. Macrogen Inc. does not authorize the application of our service usage in accordance with the following:
    - apply to service with name of other persons.
    - provide false, inaccurate or misleading information
    - register on purpose of a manner that is defamatory, trade libelous, unlawfully threatening or unlawfully harassing.

2.2 Service usage and limitation

  1. Macrogen Inc. can temporarily suspend the Service usage due to system inspection, change, defect, communication interruption and Force Majeure.
  2. In the event that the service usage is suspended as set forth below in clauses a), any claims of either user or third party shall be excluded.

Article 3. Liability

3.1 Macrogen Inc’s Liability

  1. Macrogen Inc. shall take a step that you can use our service immediately from the date to be registered without any failure, except for our special cases.
  2. You shall agree to receive an e-mail related to service, important notice and promotion email / letter sent by Macrogen.
  3. In the event that you escalate any claim, we will gather information from you and take a appropriate step. While it is take a few time to settle it, we will notify the reasons and schedule to you.
  4. Macrogen Inc. shall not disclose your personal information to any third party that is not directly related to the agreement and will limit to use and improve high quality service, unless the disclosure is requires by the law, regulations or orders of the governmental authorities concerned national security and safety in very exceptional case.
  5. Macrogen Inc. would not accept liability for any damage caused by natural disasters(earthquake, a war of the elements, flood, typhoon, etc).

3.2 User’s Liability

  1. You shall be liable for all the management of your own ID and Password.
  2. You shall agree to receive an e-mail related to service sent by Macrogen.
  3. You shall give the notice to Macrogen on this matters, if your ID is used on illegally purposes,
  4. You shall abide by clauses specified on the agreement and related laws.
  5. You agree to acknowledge that any data generated from Macrogen's DNA sequencing and delivered to you resulted from labour, efforts, material and assets of Macrogen and its affiliated entities, and that you shall be liable for the payments of the processed order regardless of the success or fail of the sequence data.

Article 4. Supply and usage of Service result

4.1 Supply of Service result

  1. The turnaround time define the one from the arrival of your samples to the sending of result.
  2. If the result is delayed beyond the promised date, you shall be notified in writing of the fact of delayed service.

4.2 Services Usage,

  1. Macrogen Inc. shall treat all the sample data and information provided by you confidentially and shall not disclose them to any third party without your consent, except if the disclosure is required by following purpose:
    1. provide it by anonymity for a statistical report, academic research and market investigation
    2. identity the said person to prevent use by stealth
    3. required by the laws, regulations or orders of the Governmental authorities concerned

Article 5. Effectiveness, termination and limitation

5.1 Effectiveness

  1. You shall provide your identified information as per Macrogen’s required form and make this agreement with Macrogen.
  2. Macrogen agree to register users as a member who comply with clause 5.1.a.

5.2 Termination and usage limitation

  1. You may for its convenience, terminate contract at any time. Such termination becomes effective by your e-mail notice of termination to Macrogen after identifying your personal information (Name, TEL, Institute, FAX etc)
  2. Upon receipt of the notice, you can not, except as otherwise directed by you in the notice, log in with your ID & PW and use it.
  3. Macrogen may terminate the Contract without any notice, in whole or in part, if:
    1. violate the public order and established social morals
    2. relate to criminal act
    3. intend to utilize service for damaging national interests and social public benefit.
    4. use ID and Password of other users.
    5. bring disgrace and inflict a loss on other users.
    6. register another ID in duplicate under same user.
    7. damage sound usage of service.

5.3 Cancellation procedure of usage limitation

  1. In the case of limiting service usage, Macrgoen shall notify users or representatives in writing or phone of Macrogen’s intension fixing given date and time to terminate the contract. Such termination becomes effective by KHNP's written notice of termination to Supplier.
  2. Macrogen may, for its convenience, terminate all or any part of the service at any time by urgent problem. Such termination becomes effective by Macrogen's written notice of termination to Supplier.
  3. Under the article of 4.2.1, users or representative who is notified the termination of service usage, could make a objection.
  4. In the event of resolving the suspension of service usage, Macrogen will take a appropriate action to cancel the suspension immediately.

5. 4 User’s notice management

Macrogen can delete the notice posted by users for the following without any pre-notice.

  1. injure to a persons or group’s reputation by a slander
  2. violate public order or established social morals.
  3. commit a criminal act
  4. infringe copyright against other people
  5. violate related law or Macrogen’s rule.

Article 6. Arbitration

All disputes, controversies or differences which may arise out of or in connection with the Contract or for the breach thereof shall be finally settled by arbitration in Seoul, Korea in accordance with the Commercial Arbitration Rules of the Korean Commercial Arbitration Board and the laws of Korea.

Aricle 7. Governing Law

The Contract shall be governed and interpreted by the laws of the Republic of Korea.

Article8. Liabilities and remedy

8.1 Liabilities

Unless otherwise provided herein, Supplier shall not be liable for any consequential, direct or indirect damages, related to free service , except for the damages caused by willful misconduct.
Macrogen lifetime storage service will be provided to all of our customers at free of charge up to fifteen (15) years from the date of data creation.
We are not liable for damage or losses to any of one’s standard sequencing result files which are stored in Macrogen’s server resulting from participation in or accessing or downloading file or data in connection with the Service.
We reserve the right, in our sole discretion, to cancel or suspend the Service should a virus, bugs, or other causes beyond our control corrupt the administration, security or proper operation of the Service.

8.2 Remedy

  1. Macrogen have no obligation to confirm and represent any opinion and information provided by Macrogen’ sequencing service, users and third party.
  2. Macorgen shall not be liable for any loss caused by commodity transaction or leading and borrowing money through service between users and a third party and expected profit from service.

8.3 Liquidated damage,

You shall pay liquidated damages, not as a penalty, to Macrogen in an amount of 10% of total amount of the delayed payment behind due date.

# Appendix

  1. All payment shall be made by you to the designated Macrogen’s banking account, or by the individual or corporate credit card and shall be made in the United States Dollar or Euro or Japanese Yen or British Pound.
  2. According to the general terms and conditions on above-mentioned, we would like to inform you that we will charge you the amount of the service charge as per the inserted card number unless the payment is done no later than one month after the receipt of the commercial invoice of our sequencing service.
  3. You can choose one of the payment methods among the followings.
    1. Telegraphic Transfer in advance
    2. Telegraphic Transfer at sight of the commercial invoice
    3. Payment of credit card as per your the level of the credit
    4. Banking Check
  4. Single Pass Sample Resequencing policy
    Resequencing is provided in order to verify any possibility of machine error or operator's mishandling and carried out only when
    DNA sequencing quality can be improved. Therefore, retrial request for failures owing to template preparation or composition
    will be all charged. Also, re-sending a new batch, in spite of the same sample names, will be regarded as a new order.