Computational Systems Biology Methods and Protocols.7z

submits text file with multiple sequences, the user uploads the text

with multiple sequences (1) and provides email address (2) and

then clicks the “submit” button (3); the user can close the page

when submitting successfully. The notification will be sent to the

user in term of email when task is completed. The user can check

their result according to job id and email (4). In addition, the user

can download the results (5) and search the result with disease

name (6). Figure4 shows the usage guideline of LDAP by upload-

ing multiple sequences.

Supervised learning methods based on hypothesis that the

separation of disease-related lncRNAs and non-disease-related

Input:LncRNA

Sequence

Fusing IncRNA

similarity with

karcher mean

Disease Gaussian

interaction

profile similarity

Disease

similarity

based on gene

Disease

similarity

based on PPI

Disease

similarity

based on

topology

Disease

similarity

based on gene

onthology

Output

Inferring IncRNA-

disease association

by using bagging

SVM

Fusing disease

similarity with

karcher mean

LncRNA

Gaussian

interaction profile

similarity

Calculating

IncRNA

Sequence

Similarity

Check

format

Fig. 2The flow chart of LDAP

Identifying Interactions Between Long Noncoding RNAs and Diseases... 213