Identification and Provenance fields
  Name: human_glycan_sequences.csv
  Title: Glycan Sequences
  Created: August 7, 2018; 15:30:45
  Created by: Rahi Navelkar [rsn13@gwu.edu]
  Modified:    
  Modified by: 
  Digital Signature: YTHUJ22594E0TYHGRHI
  Verification status: Approved
  Publication status: Reviewed
  Authors: Nathan Edwards [nje5@georgetown.edu]; Reza Mousavi [rezamousavi@gwmail.gwu.edu]; Rahi Navelkar [rsn13@gwu.edu]
  License: Data - Attribution 4.0 International CC BY 4.0 [https://creativecommons.org/licenses/by/4.0/]
	   Scripts - GNU General Public License v3.0 [https://www.gnu.org/licenses/gpl-3.0.en.html]

Usability Domain
  List of Glycans identified by GlyTouCan Accessions and their sequences in IUPAC, WURCS, GlycoCT format.

Description Domain
  Description: This file contains GlyTouCan accessions with sequences in IUPAC, WURCS and GlycoCT format. The List of GlyTouCans(glycan list) is compiled when the GlyTouCan accession is observed under
               one or more criteria:
               a) If the glycan has source/taxonomy annotation[taxid:9606] in GlyTouCan
               b) If the glycan is listed on human[taxid:9606] glycan webpage at UniCarbKB
               c) If the glycan is listed on a human [taxid:9606] protein webpage at UniCarbKB
               d) If the glycan is synthesized by a human[taxid:9606] protein [http://data.glygen.org/GLYDS00064]
               e) If the glycan is known to be attached to a human[taxid:9606] protein [http://data.glygen.org/GLYDS00040] 


  Pipeline Steps:
    Step 1: The input file(s) were downloaded from the source link. The files were unzipped and processed to generate a 2 column individual input text files (glytoucan_acc|format_sequence). 
    Step 2: The input file(s) were processed based on the compiled glycan list using a python script[make-glycan-csv.py] to generate the final output csv file.

  Keywords: GlyTouCan, Glycan, IUPAC, WURCS, GlycoCT

Execution Domain:
  Script Location:[public] https://github.com/glygener/glygen-backend/blob/master/integration/ 
  Scripts List: make-glycan-csv.py
  Script Type: Text  
  Software Prerequisites:
    Name: Python
    Version: 2.7.13
    Name: Microsoft Excel
    Version: 14 or above

I/O Domain
  Input Subdomain:

    name: iupac.zip
    mime-type: zip
    source/uri: http://data.glygen.org/datasets/source/iupac.zip

    name: wurcs.zip
    mime-type: zip
    source/uri: http://data.glygen.org/datasets/source/wurcs.zip

    name: glycoct.zip
    mime-type: zip
    source/uri: http://data.glygen.org/datasets/source/glycoct.zip
 
    name: iupac_sequences.txt
    mime-type: txt
    source/uri: http://data.glygen.org/datasets/source/iupac_sequences.txt

    name: wurcs_sequences.txt
    mime-type: txt
    source/uri: http://data.glygen.org/datasets/source/wurcs_sequences.txt

    name: glycoct_sequences.txt
    mime-type: txt
    source/uri: http://data.glygen.org/datasets/source/glycoct_sequences.txt

  Output Subdomain:
    name: human_glycan_sequences.csv 
    mime-type: csv
    source/uri: http://data.glygen.org/GLYDS00061

    Content:
      Column Headers:			
        glytoucan_acc: Glycan accession from GlyTouCan database
        iupac: Glycan sequences in IUPAC format
	wurcs: Glycan sequences in WURCS format
	glycoct: Glycan sequences in GlycoCT format



	


	Statistics:
	      5824 : glytoucan_acc
	      5564 : iupac_extended
	      6305 : glycoct
	      6242 : wurcs