Gene Analysis Toolkit base on R language

Input IDs

Symbols/Aliases, Entrez, Ensembl or Uniprot IDs

Select Organism

Select human genome version:

GRCh38

GRCh19

Attributes (click the box to show more)

Result

Input IDs

Symbols/Aliases, Entrez, Ensembl or Uniprot IDs

Select Organism

Select human genome version:

GRCh38

GRCh19

Convert to

symbol

entrez

ensembl

uniprot

One-to-one mapping?

Result

Input probe IDs

Only support human

Convert to

symbol

entrez

ensembl

uniprot

Result

Input IDs

Symbols/Aliases, Entrez, Ensembl or Uniprot IDs

Basic Parameters

Organism

Select category:

Select gene set:

Select method:

Select descriptor:

Select gene set:

Advanced Parameters

Simplify GO terms?

Semantic similarity method:

P-value & Padj-value cutoff:

Q-value cutoff:

P-value adjust method:

Minimal geneset size:

Maximal geneset size:

Result

Upload gene list

Please provide .xlsx/.tsv/.csv file

Upload Data

Note:
1. The file should have two columns.
First column: genes (Entrez/Ensembl/Symbol/Alias)
Second column: decreasing logFC value
2. Old file will be overwritten by the lastest one.

Basic Parameters

Organism

Select category:

Reminder: the GSEA may be
slower than ORA method.

Select gene set:

Select method:

Select descriptor:

Select gene set:

Advanced Parameters

Simplify GO terms?

Semantic similarity method:

P-value & Padj-value cutoff:

Q-value cutoff:

P-value adjust method:

Minimal geneset size:

Maximal geneset size:

Result

Upload GSEA Result

Please provide .xlsx/.tsv/.csv file

Upload Data

Note:
1. Please use GSEA module of GeneEnrich
then you can upload the result.
2. Old file will be overwritten by the lastest one.

Basic Parameters

Plot type:

Choose pathway name:

Choose gene name:

Select pathway by:

Choose pathway number:

Choose pathway name:

Select pathway by:

Choose pathway number:

Choose pathway name:

Legend label:

Advanced Parameters

Figure body text size (pts):

Figure legend text size (pts):

Figure border thickness (mm):

Remove figure legend?

Figure body text size (pts):

Figure legend text size (pts):

Figure border thickness (mm):

Positive NES:

Negative NES:

Choose pathway name:

Remove figure legend?

Figure body text size (pts):

Figure legend text size (pts):

Figure border thickness (mm):

Positive NES:

Negative NES:

Figure body text size (pts):

Figure border thickness (mm):

Positive NES:

Negative NES:

Plot

Figure width (inches):

Figure height (inches):

Format (default 300 dpi)

Select Group Number

Note:
1. Please select group number at first
2. Paste your IDs or click the example button to load the demo IDs
3. Group names are editable
4. Classic venn suports less than 6 groups.

Parameters

Plot type:

Figure alpha degree:

Figure body text size (pts):

Figure border thickness (mm):

Show percentage?

Legend position:

Figure body text size (pts):

Figure legend text size (pts):

Figure border thickness (mm):

Plot

Figure width (inches):

Figure height (inches):

Format (default 300 dpi)

Upload DEG Result

Please provide .xlsx/.tsv/.csv file

Upload Data

Note:
1. The data should include gene, logFC
and pvalue/p.adjust column.
2. Old file will be overwritten by the lastest one.

Basic Parameters

Y-axis label:

Choose gene name:

Advanced Parameters

Remove figure legend?

Statistical threshold:

log2(fold change) threshold:

Figure body text size (pts):

Figure legend text size (pts):

Dot size (pts):

Figure border thickness (mm):

Up-regulated:

Down-regulated:

Plot

Figure width (inches):

Figure height (inches):

Format (default 300 dpi)

Usage-GeneInfo

Introduction

Input ID

input gene ID (Gene Symbol or Alias, Entrez, Ensembl) or protein ID (Uniprot) [Note: seperators \n, ;, ,, spaces are accepted]
Example : click to load example data

Organism

select organism (format: common name - latin name )

Result panel

Download link : click to save as Excel file

Example

Usage-IDConvert

Introduction

Input ID

input gene ID (Gene Symbol or Alias, Entrez, Ensembl) or protein ID (Uniprot) [Note: seperators \n, ;, ,, spaces are accepted]
Example : click to load example data

Organism

select organism (format: common name - latin name )

Convert to

select one or more conversion types (symbol/entrez/ensembl/uniprot )
Keep result unique: if YES, input will have one-to-one matching. Only the perfect match will be remained.
Convert button : do conversion job
Clear button : clear input id and all other results

Result panel

Download link : click to save as Excel file
View result : dynamic data frame