Data Analysis Service

If you have not done the experiment yet, please consider Premium Analysis Service. If you already have experimental data files, or if you want examine others' data for assessment of technologies, please read below.

Subio's Products and Services Data Analysis Service(for assessment) Premium Analysis Service FASTQ File Processing Service Data Analysis Service Basic Plug-in Advanced Plug-in Subio Platform System Plug-in Balloons are designed by Freepik.

What is the result of data analysis service do you think? You may imagine an Excel sheet of genes with fold change or p-values, or a heatmap in a PDF file. Yes, they are the output of so-called "data analysis". But how can you interpret them, or how can you measure the reliability of them? You cannot, because they are only a part of information.

It is only a starting point. The most difficult part of omics data analysis is interpreting them. Omics data is so complicated that you need to examine it from multi-angles and –layers. Due to its multifaceted nature, you can interpret it differently from others. It means it is very easy to get a wrong conclusion. Although you have to rightly understand the characteristics of data and the analysis steps to properly interpret, you cannot know about them from the limited information on Excel or PDF.

So we receive the raw data files from you, and return the SSA(Subio Series Archive) file. You can import the SSA file into Subio Platform to view not only the final result, but also intermediate results. You can see every step of normalization, pre-processing, filtering, statistical tests and multivariate analysis. And we explain each of them to help your rightly understanding the data.

But this is all what we can do. After that, it is you who closely look at the data, and interpret it. Please check the whole workflow to see what we do, and what you do.

We have supported many researchers, and one of them published a paper in Nature magazine.

Data Analysis Service flow

It is ultra-hard to interpret omics data and the analysis results and discover something biologically significant. We support your challenge from the following three points.

  1. Free online support.
  2. Supporting your teamwork.
  3. Supporting your comparing with other studies.

Free Online Support

On delivering the SSA file, we explain you the characteristics and limitation of the experimental data as showing how to visualize them on Subio Platform. And we illustrate each analysis step which we chose according to the characteristics. This is why our data analysis service is very useful especially for novice analysts, who tend to apply steps on a textbook as they are, without thinking if they are applicable case or not. We are sure they can learn quickly and deeply about omics data analysis by ordering the service for a variety of data sets, rather than reading textbook.

You can request online supports whenever you need. It is free, so it is efficient for you to ask when you encounter a question, rather than asking many questions at once.

Request a free online support

Supporting Your Teamwork

You can share the SSA file with team members or collaborators. It facilitates co-working and discussion on the data. It also enables re-analysis by a third-party to assure the quality of the analysis.

Supporting Your Comparing with Other Studies

If you find a gene showing an interesting pattern, maybe you want to know how does the gene behave in other data. You can order Data Analysis Service not only for your own data set, but also public data sets which are available from internet. Storing them in your Subio Platform allows your using them as a hypotheses testing tool, (You need a System Plug-in).

About data sets and data types

We charge not on sample, but on data set. For example, we charge per Data Set (GDS) or Series (GSE) of Gene Expression Omnibus. If a data set containing less than 100 samples, it is counted as "Small Data Set." If a number of samples exceeds, it is counted as "Large Data Set." Even if a number of samples is less than 100, it is counted as Large Data Set if data rows is larger than 100,000.

Users usually specify data sets to be analysed though, you can order the service by giving a theme. For example, "I want you to collect data sets of miRNA expression experiments measured by different technologies so that I can compare the performance of them." Or "Please collect data sets of XX cancer." In this case, please order "Data sets of a theme." We charge for the working time per week, regardless of a number of data sets.

By the way, let me talk about data types for this service. We basically can analyze any data which is composed of IDs and corresponding measurement values.

For example;

  • gene expression data
  • miRNA expression data
  • Exon or splicing variant expression data
  • ChIP-chip or ChIP-seq data
  • CGH data
  • DNA methylation data
  • Proteome data
  • Metabolome data
  • We do not accept FASTQ files from sequencers. Please order FASTQ File Processing Service with this service.
  • We do not support identifying compounds or peptides from MS. Please prepare a table of identified substance and values.

Price List

Small Data Set *1 200 USD 75% discount, if you order with a Plug-in Set.
Large Data Set 500 USD 60% discount, if you order with a Plug-in Set.
Data sets of a theme
(research period per week)
2,000 USD
PDF Report Option *2 200 USD
CD/DVD Delivery Option *3 50 USD
Express Option *4 50% of total amount
Small Data Set *1 200 EUR 75% discount, if you order with a Plug-in Set.
Large Data Set 500 EUR 60% discount, if you order with a Plug-in Set.
Data sets of a theme
(research period per week)
2,000 EUR
PDF Report Option *2 200 EUR
CD/DVD Delivery Option *3 50 EUR
Express Option *4 50% of total amount
Small Data Set *1 20,000 JPY 75% discount, if you order with a Plug-in Set.
Large Data Set 50,000 JPY 60% discount, if you order with a Plug-in Set.
Data sets of a theme
(research period per week)
200,000 JPY
PDF Report Option *2 20,000 JPY
CD/DVD Delivery Option *3 5,000 JPY
Express Option *4 50% of total amount
  • *1 Small Data Set: <100,000 rows and <100 samples. Data sets exceeding the criteria are classified as Large Data Set.
  • *2 We explain about the data and analysis steps in a web meeting. But if you want to keep the information as a file, you can add this option.
  • *3 If the conditions of acceptance require physical goods and do not allow data, you can add this option.
  • *4 We usually deliver the results within 2 weeks, but the delivery date is not guaranteed. If you need to specify the delivery date, please order "express option" as well. We will deliver the results by 16:00 of the specified date.

Requesting a Quote

If you are purchasing services, please fill the form below to specify numbers of items, payment and delivery options, and click "Calculate" button.

And then check the items and total amount, please fill your name and contact information and send a request of quote. After receiving it, we will contact you by email ASAP.


Data set and options

200 USD 200 EUR 20,000 JPY
500 USD 500 EUR 50,000 JPY
2,000 USD 2,000 EUR 200,000 JPY
200 USD 200 EUR 20,000 JPY
50 USD 50 EUR 5,000 JPY
50% of total amount

Payment and Shipping


1 Prepare a annotation file.

We need the annotation file if you use custom microarrays.

We do not need it for RNA-Seq data or catalog microarray like Agilent or Affymetrix. But still you can send a file if you want us to add.

2 Prepare experimental data files.

We accept following formats as experimental data files.

  • Raw data files (TXT or CEL) of microarrays (gene expression, microRNA, exon, CGH, etc.)
  • TXT files of counts/FPKM or RPKM of RNA-seq
  • BED or TXT files of ChIP-seq or Methyl-seq
  • GEO accession ID (GSE or GDS number) or the download URL of data sets

If you're not sure, please let us know what kind of files you have. Sending screenshots of directories helps a lot. Or you can request an online support.

3 Prepare documents about the data set.

Please prepare a table of file names and experimental parameters.

Additionally you can send us documents about experimental design and purpose. If you tell us what pattern you are interested in, we apply the best way for that.

4 Send a zip file.

Please make a zip file of all the files you prepare for step 1 - 3, and send it from Contact Us page.

Contact Us

5 Receive a SSA file.

We return a SSA or SOA file as a result. You can see the contents by importing it into Subio Platform. Please select "Import Archive..." under Platform menu to open the file.

6 Understand the analysis flow.

The service includes a web meeting to explain about the characteristics of the data, and analysis steps. You can ask alternative or additional analysis within the meeting. In such cases, we will re-analyze the data and send the result again. We ask you to order another service for further requests.

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