Coming Soon · Launching August 2026
Kaohsiung Medical University · Center for Disease Multi-Omics Research

From Multi-Omics Data
to Publication-Ready Results

Providing data integration, bioinformatics analysis, and result visualization services for clinical and precision medicine research, helping researchers produce traceable, reproducible, and publication-ready analytical results.

Leveraging KMU's in-hospital data ecosystem and the Center's standardized analysis pipelines, we support integrations with in-hospital clinical records (EMR), National Health Insurance Research Database (KMUHRD), and TPMI genotype data — capabilities that external vendors typically cannot offer.

This platform provides data analysis services through the Computing Division. Sample collection, specimen processing, and laboratory analysis are not included. All fees include a 21% university administrative overhead.

Which Type of Analysis Support Fits Your Research?

Who Is This For

From existing sequencing data and in-hospital data linkage to pre-submission figures and methods preparation, quickly determine how this platform can assist your research.

You have sequencing or multi-omics data and need standardized analysis

You have completed WGS / WES / RNA-seq / microbiome sequencing and need a complete analysis pipeline from raw data to publication-ready figures and reports.

You need to link TPMI or in-hospital clinical data

Your research involves TPMI genotype data, electronic medical records, or the National Health Insurance Research Database, and you need help with data linkage, cleaning, and integrated analysis.

You are preparing for publication or a grant application and need reproducible figures

You have preliminary results but need journal-standard statistical figures, methods descriptions, and traceable analysis records.

You are unsure if your data is sufficient and need a preliminary consultation

You are in the planning stage and want to assess data quality, whether sample size is adequate, and the feasibility of your analysis plan.

Four Core Analysis Services

Four Core Analysis Services

Sequencing and RNA-seq analysis follow a three-tier structure (L1 → L3) by analysis depth. Prices shown are per-sample / per-project / per-hour internal rates (L3 custom analysis is billed hourly).

SEQUENCING

① High-Throughput Sequencing Analysis

WGS / WES / Cancer Panel
L1Basic pipeline: QC, alignment, variant callingNT$3,000 / sample
L2Advanced: annotation, filtering, quality reportNT$6,000 / sample
L3Custom in-depth analysis & integrated interpretationNT$1,250 / hour
Deliverables

QC summary report, alignment statistics, variant call list (VCF), functional annotation results, filtering criteria records, analysis pipeline documentation, and publication-ready figures.

RNA-SEQ

② RNA-seq Data Analysis

Transcriptomics · Bulk RNA-seq
L1Standard bulk RNA-seq analysisNT$3,000 / sample
L2Differential expression, enrichment, visualizationNT$6,000 / sample
L3Advanced custom analysisNT$1,250 / hour
Currently available for bulk RNA-seq. Proteomics, metabolomics, scRNA-seq, and cross-omics integration are under development; availability will be announced separately.
Deliverables

Expression matrix, differentially expressed gene list, enrichment analysis results (GO / KEGG / GSEA), visualization charts (volcano, heatmap, PCA), and analysis parameter records.

METAGENOMICS

③ Metagenomics Analysis

Metagenomics · Microbiome
BasicQC + diversity analysisNT$1,000 / sample
CustomAdvanced / custom analysisNT$1,250 / hour
Deliverables

OTU/ASV table, alpha/beta diversity analysis, microbial composition plots, differential abundance statistics (LEfSe), disease association analysis results, and publication-ready figures.

TPMI

④ TPMI Analysis Services

Taiwan Precision Medicine Initiative · Genotype Applications
SNPSNP screening (≥100 genes: quote on request)NT$2,500 / project
VariantGenome-wide variant frequencyNT$3,500 / project
PRSPolygenic risk score constructionNT$7,500 / project
CustomCustom analysisNT$1,250 / hour
Restricted to KMU-affiliated institutions (not available to external applicants). TPMI data is managed by the Division of Medical Statistics; collaboration with Medical Statistics is required. The above fees are for this Center's analysis only; Medical Statistics charges separate data retrieval, secure workspace, and data cleaning fees (see collaboration workflow below).
Deliverables

Genotype frequency statistics, allele screening results, risk score models and predictive performance reports, and analysis pipeline documentation.

Portfolio & Capabilities

Portfolio & Capabilities

Our analysis team combines multi-omics analysis, clinical data integration, and research-grade database development experience. Below are representative completed and ongoing projects.

TPMI genotype data analysis results
Completed

Precision Medicine & TPMI Genotype Data Analysis

Research NeedTransform genotype data into interpretable disease risk information
MethodsSNP screening, genome-wide variant frequency, PRS model construction
DeliverablesRisk score models, population frequency statistics, machine learning prediction reports
Microbiome cladogram and 16S taxonomic composition analysis figure
Published Research

Gut Microbiome & Disease Association Analysis

Research NeedExplore the associations between gut microbiota and disease
MethodsQIIME2 / DADA2 / LEfSe complete 16S and metagenomics pipeline
DeliverablesMicrobial composition plots, diversity indices, differential abundance statistics, and publication-ready figures
TCGA-LIHC multi-omics analysis overview figure
Live

Cancer Multi-Omics Integration & Public Analysis Portal

Research NeedLarge-scale cancer cohort data requiring multi-level integration and transformation into a publicly queryable online resource
MethodsMutation, CNV, methylation, and proteomics multi-level data integration; interactive visualization and reproducible analysis pipelines
DeliverablesTCGA-LIHC and TCGA-BLCA genomics portals, cross-cohort RNA-Seq analysis platform, pan-cancer comparison and interactive query interface
TCGA-LIHC Portal →  TCGA-BLCA Portal →  RNA-Seq Analysis Platform →
WGS analysis pipeline and output diagram
In Development

Whole Genome Sequencing (WGS) Analysis Pipeline

DirectionOngoing development of a standardized WGS analysis pipeline supporting variant calling and gene functional annotation
Planned CapabilitiesSequencing data processing, variant analysis, and gene functional annotation integration

How We Ensure Analysis Quality

Quality Assurance

Standardized analysis pipelines with full version and parameter records maintained for each run

Every analysis includes quality control (QC) checkpoints; anomalous data is flagged before entering downstream steps

Key results are traceable to raw data, supporting methodological review and result verification during peer review

Deliverables include publication-ready figures and supplementary materials, with format adjustments available upon request

Feasibility assessment provided before custom analysis to confirm data volume and quality support the intended analysis

In-hospital data is handled in accordance with KMU's data governance and privacy protection policies

Pricing

Pricing · Internal / External

All fees are in New Taiwan Dollars (NTD), inclusive of 21% university administrative overhead. Fees do not cover equipment managed by the Office of Research and Development.

ServiceDescriptionInternalExternal
① High-Throughput Sequencing (WGS / WES / Cancer Panel)
L1 / L2 AnalysisBasic to AdvancedNT$3,000–6,000 / sampleNT$3,600–7,200 / sample
L3 Custom In-Depth AnalysisCustom in-depth analysis & integrated interpretationNT$1,250 / hourNT$1,500 / hour
② RNA-seq Data Analysis (Bulk RNA-seq)
L1 / L2 AnalysisBulk RNA-seq Basic to AdvancedNT$3,000–6,000 / sampleNT$3,600–7,200 / sample
L3 Advanced Custom AnalysisCustom pricing based on research needsNT$1,250 / hourNT$1,500 / hour
③ Metagenomics Analysis
Basic AnalysisQC + DiversityNT$1,000 / sampleNT$1,200 / sample
Custom AnalysisAdvanced microbiome analysisNT$1,250 / hourNT$1,500 / hour
④ TPMI Analysis Services (KMU-affiliated only; not available externally)
SNP Screening≥100 genes: quote on requestNT$2,500 / projectN/A
Genome-wide Variant FrequencyVariant frequency & statistical analysisNT$3,500 / projectN/A
PRS ConstructionPolygenic risk score constructionNT$7,500 / projectN/A
Custom AnalysisAdvanced genetic association & risk analysisNT$1,250 / hourN/A
Minimum sample size is 50 samples. Orders exceeding 100 samples receive a 15% discount; orders of 200 or more samples are quoted on request.
TPMI Analysis Services: Restricted to KMU-affiliated institutions (not available externally). TPMI data is managed by the Division of Medical Statistics, Department of Medical Research. Collaboration with Medical Statistics is required. The above table shows this Center's analysis fees only; Medical Statistics charges separate data retrieval, secure workspace, and data cleaning fees. Please confirm actual amounts with Medical Statistics before applying (see "TPMI Collaboration Workflow" below).
Need a quote or want to apply? Fill out the fee form online: select items, enter quantities, and the system will automatically calculate costs. You can print or save as PDF; blank forms are also available for download.
Online Fee Calculator →

Why Choose This Platform

Why Us

In-Hospital Data Expertise

Experienced in working with TPMI genotype data, EMR, and KMUHRD in-hospital datasets, with established workflows for cross-departmental data integration.

Research-Grade Deliverables

Deliverables go beyond raw data — they include statistical figures, methods descriptions, and analysis records ready for manuscript preparation and grant applications.

Reproducible Pipelines & Version Control

Every analysis retains full parameter and execution records. Results are traceable to raw data, supporting peer review verification and downstream extensions.

End-to-End Support

From initial feasibility assessment and data processing to statistical analysis and figure preparation — a single point of contact, no multi-vendor coordination needed.

Application Process

How It Works

General Analysis Services · Application Process

For High-Throughput Sequencing, RNA-seq Data Analysis, Metagenomics, and other non-TPMI services. Single point of contact, four simple steps:

① Consultation
  • Contact the Center via email or in person
  • Describe research goals, data types, and sample size
  • Preliminary feasibility assessment
→
② Assessment & Quotation
  • Confirm analysis tier (L1 / L2 / L3)
  • Evaluate data quality and preprocessing needs
  • Provide formal quotation and timeline estimate
→
③ Payment & Execution
  • Complete the fee form and campus payment process
  • Provide raw data (or coordinated retrieval by the Center)
  • Execute analysis per the agreed plan
→
④ Delivery & Review
  • Deliver analysis results, figures, and pipeline records
  • Explain key result interpretations
  • Assist with publication figure formatting as needed

* Custom analysis (L3 / hourly) includes a feasibility assessment before formal execution. Hourly billing begins only after data and plan confirmation. Each project allows up to 3 information revisions.

TPMI Analysis Services · Collaboration Workflow

TPMI data is managed by the Division of Medical Statistics (Biostatistics and Bioinformatics Research Laboratory), Department of Medical Research. Collaboration with Medical Statistics is required. The process has two stages with separate fee components:

① Medical Statistics
  • Accept and process online application
  • Medical record data linkage and cleaning
  • Provide TPMI secure workspace access
Fees: Data retrieval, secure workspace usage, and data cleaning fees (amounts confirmed by Medical Statistics)
→
② This Center
  • Perform genomic analysis within the secure workspace
  • SNP screening / variant frequency / PRS / custom analysis
Fees: Analysis fees (per TPMI items in the pricing table above)
→
③ Release
  • Review by the TPMI Data Security Committee
  • Analysis results released to the applicant

* TPMI applicants must coordinate with both Medical Statistics and this Center. Please confirm data retrieval, secure workspace, and data cleaning fees with Medical Statistics before applying. This Center's analysis fees can be estimated using the online fee calculator.

Terms of Service & Important Notes

  • All fees are in New Taiwan Dollars (NTD), inclusive of 21% university administrative overhead. Fees do not cover equipment managed by the Office of Research and Development.
  • This platform provides data analysis only. Sample collection, specimen processing, and laboratory analysis are not included (please contact the Clinical Cohort Division or Multi-Omics Technology Division).
  • Projects totaling NT$100,000 or more require a service contract. Projects reaching the Government Procurement Act threshold are subject to applicable regulations.
  • Each project allows up to 3 information revisions.
  • TPMI applications require: KMUHRD application year, disease codes (ICD-9 + ICD-10), NHI medication codes (optional), inclusion/exclusion criteria, and gene names (for SNP screening projects only).

Launching August 2026

Internal and external researchers are welcome to inquire about analysis needs in advance

Contact Us for Consultation Fee Calculator / Download Form

Platform Director: Prof. Jaw-Yuan Wang · Computing Division, Center for Disease Multi-Omics Research