# Supplement Information

**URL:** <https://forum.biobakery.org/t/supplement-information/1229>\
**Category:** IBDMDB\
**Created:** [November 4, 2020, 8:57pm UTC](https://forum.biobakery.org/t/supplement-information/1229 "2020-11-04T20:57:29Z")\
**Posts on this page:** 3\
**Page:** 1

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**Author:** ![sagunmaharjann](https://yyz1.discourse-cdn.com/flex027/user_avatar/forum.biobakery.org/sagunmaharjann/32/168_2.png) [@sagunmaharjann](https://forum.biobakery.org/u/sagunmaharjann)\
**Post date:** [November 4, 2020, 8:57pm UTC](https://forum.biobakery.org/t/supplement-information/1229/1 "2020-11-04T20:57:29Z")

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I’m very interested in your research work, and prepare to perform personalized analysis for IBD individuals based on your database.

```
    I downloaded all the available data through the provided weblink. According to the file "hmp2_metadata.csv",column "data_type",the individualized omics data needs some supplement:

```

- 
  1. host\_genome: genetic data of each sample were not provided.

- 
  1. Metatranscript: the gene family, pathway and enzyme commission information were provided ,but not all the gene expression data of each sample.

- 
  1. Proteomics: the differentially expressed proteins between CD/UC non-IBD were provided, as well as enzyme commission information and protein pathway information. But we did not found information about all protein expression data of each sample.

- 
  1. Methylome: there is no link to download the methylation data of each sample.

- 5.Serology:cs there is no raw data for expression of serological markers.
- 
  1. Stool\_16S: no link for Stool\_16S were provided.

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**Author:** ![sagunmaharjann](https://yyz1.discourse-cdn.com/flex027/user_avatar/forum.biobakery.org/sagunmaharjann/32/168_2.png) [@sagunmaharjann](https://forum.biobakery.org/u/sagunmaharjann)\
**Post date:** [November 5, 2020, 4:54pm UTC](https://forum.biobakery.org/t/supplement-information/1229/2 "2020-11-05T16:54:40Z")

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Hi User,

Below, I have listed the sources:

1. host\_genome: The host genome data is available in dbGAP. Please direct to this [link - **Study Accession** : phs001626.v1.p1](https://www.ncbi.nlm.nih.gov/projects/gap/cgi-bin/study.cgi?study_id=phs001626.v1.p1) for more information.

2. Metatranscript: The raw metatranscriptome files are available for download [here](https://ibdmdb.org/tunnel/public/HMP2/MTX/1750/rawfiles).

3. Proteomics: The protein expression data of each sample are in their own files.

4. Methylome: The Methylome data is available in dbGAP as well.

5.Serology: The raw serology is included in the [metadata file](https://ibdmdb.org/tunnel/products/HMP2/Metadata/hmp2_metadata.csv).

1. Stool\_16S: **Not Available**

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**Author:** ![hqr](https://avatars.discourse-cdn.com/v4/letter/h/ba8739/32.png) [@hqr](https://forum.biobakery.org/u/hqr)\
**Post date:** [November 12, 2020, 6:49pm UTC](https://forum.biobakery.org/t/supplement-information/1229/3 "2020-11-12T18:49:39Z")

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Dear Professor Dr.Maharjan:

Thanks for quick reply.

I went to the dbGAP database to search for them, and came to the conclusion that I need to apply through [https://dbgap.ncbi.nlm.nih.gov/aa/wga.cgi?login=&page=login](https://dbgap.ncbi.nlm.nih.gov/aa/wga.cgi?login=&page=login).

In fact, for these omics (host genome, Methylome, Metatranscript, Proteomics, Serology), we just need a merged file containing annotation/expression data of each sample, similar to “iHMP\_metabolomics.csv”. we do not need to download the original raw data. Is it convenient for you to provide these data ?

For serology, I only found two serological indicators of “CRP (mg/L)” and “ESR (mm/hr)” in “hmp2\_metadata.csv”. I wonder if there is any omission?

Best Regards.