The Glycomic MS Database and Repository


Katarina Madunic . LUMC .

Sample preparation

1.Sample Origin

General information:

Growth/harvest conditions for recombinantly produced material:

Treatments and/or storage conditions:

For commercial material, vendor and applicable item information:

Generation of chemically derived material:

2. Sample Processing

Purification steps:
Cation exchange desalting; Carbon SPE

2. Defined Sample

Sample name:
O-linked oligosaccharides


1. General settings

Instrument: Thermo Fisher 1100 Series

Manufacturer url: NA

Injector: DioneX autosampler

Injector settings:

2. Column

Manufacturer: Thermo Fisher

Model: Hypercarb

Type of Chromatography: Reverse phase

Type of Material: Carbon

Column diameter: 0,75

Column length: 100

Particle size: 3

Manufacturer url: NA

3. Method run

Temperature: 45C

Solvent a: 10mM ammonium bicarbonate

Solvent b: 60% ACN, 10mM ammonium bicarbonate

Other solvent:

Flow rate: 0,6ul/min

Flow gradient: 2%-52% buffer B

Run time: 80min

Phase: Reverse


1. General features

Date stamp: Fri May 11 00:00:00 UTC 2018

Instrument: Bruker Daltonik amaZon Speed ETD ETD

Customizations from the manufacturer's specification:

ion_mode: -

2. Ion sources

(a) Electrospray ionisation - ESI

Sprayer type : Static

Interface name:

Other data for the Interface:

Sprayer name: Captive spray

Other data for the sprayer:

Relevant voltages:

Degree of prompt fragmentation evaluated: Yes

In-source dissociation performed: Yes

Other parameters if discriminant for the experiment: ACN enriched nebulizing gas (N2)- nanobooster


Plate composition (or type): NA

Matrix composition: NA

Deposition technique: NA

Relevant voltages: NA

Degree of prompt fragmentation evaluated: NA

PSD (or LID/ISD) summary: NA

Operation with or without delayed extraction: NA

Laser type: NA

Other laser related parameters: NA

url: NA

3. Ion transfer optics

Hardware options:

3. Post-source componentry

Collision-Induced Dissociation - CID

CID. Gas composition: Helium

CID. Gas pressure:

CID. Collision energy: 0.27

Electron Transfer Dissociation - ETD

ETD. Reagent gas: NA

ETD. Pressure: NA

ETD. Reaction time: NA

ETD. Reagent atoms: NA

Electron Capture Dissociation - ECD

ECD. Emitter type: NA

ECD. Voltage: NA

ECD. Current: NA

TOF drift tube

TOF. Reflectron status: NA

Ion Trap

Ion trap. Final MS stage achieved: NA

Ion mobility

Ion mobility. Gas type : NA

Ion mobility. Pressure: NA

Ion mobility. Instrument parameters: NA


Peak selection: NA

FT-ICR. Pulse: NA

FT-ICR. Width: NA

FT-ICR. IR: Decay time: NA


FT-ICR. Other parameters: NA


Detector type: NA