Key Features of Our Facility

Mass spectrometers have low detection limits; however, the ionization of analytes may be suppressed by contaminants (including common buffer salts and detergents) present in samples.

Many commonly used reagents especially for biological samples have poor compatibility with mass spectrometric ionization techniques. Additionally, the mass spectrometer can be contaminated or clogged if crude samples containing non-volatile components are introduced into the instrument.

State-of-the-art mass spectrometry equipment
Experienced and dedicated team of scientists
Comprehensive range of services including proteomics, metabolomics, and lipidomics
Collaborative projects with academic and industrial partners
Advanced data analysis and interpretation support
Training and workshops for researchers and students

Consequently, sample preparation is a critical component of a mass spectrometric analysis and directly relates to the quality of data the instruments can realize.

Good sample preparation is essential for good data and preventing instrument damage.

* MS facility is available for the following jobs/services based on instrument user charges and Instrument user charges (per sample/ run) for ILS Mass Spectrometry Facility (Excluding GST charges) is given below :-

Our Services Overview

Job Type	Jobs Requested #	ILS / BRIC-AI Users (In INR/ sample)	Academic (In INR/ sample)	Non-Academic / Industry (In INR / sample)
A	Protein identification on HRMS for simple/purified samples (Orbitrap fusion Lumos direct injection) -> Purified, Digested & desalted Samples	2,500/-	5,000/-	8,000/-
B	Protein identification on HRMS for complex samples (Orbitrap fusion Lumos with neoUHPLC) -> Digested & desalted Samples	3,000/-	8,000/-	10,000/-
C	Quantitative proteome analysis on HRMS for complex samples (excluding Labelling) (Orbitrap fusion Lumos with neoUHPLC) -> Digested & desalted Samples	3,500/-	7,000/-	12,000/-
D	PTM identification by MS/MS on HRMS (Orbitrap fusion Lumos with neoUHPLC) -> PTM Enriched, Digested & desalted Samples	7,500/-	15,000/-	20,000/-
E	Un-targeted metabolomics/ lipidomics on HRMS (Orbitrap fusion Lumos with UHPLC) -> Purified samples	3,000/-	6,000/-	10,000/-
F	Targeted proteome analysis on LC-MS/MS per 60 min run (Triple Quadrupole with UHPLC) -> For Digested & desalted samples	1,000/-	2,000/-	5,000/-
G	Additional charges for enzyme digestion and desalting for protein mixture sample if required.	2,000/-	4,000/-	8,000/-

*If you wish to submit samples to the MS Facility for analysis, please follow the guidelines for each mass spectrometry technique listed below or contact facility manager for more details.

Mass spectrometry facility manager:

Mr. R. Rajendra K. Reddy
Phone- 91-674- 2304233(D), 2300137 Ext: 233

Process for Submission

First, go through the MS facility guidelines or contact the facility manager for sample preparation and protocols.
Download the Sample submission form from the ILS website or request it by email to the MS Facility.
Complete the Sample submission form, sign it, and pay the applicable charges.
If you are submitting more than one sample, enclose a separate list of samples with respective sample details in an Excel sheet format.
Give unique names to sample tubes (1.5 ml microfuge tubes preferred).
Samples should be prepared strictly as per the protocol compatible with the Mass spectrometer. In case, you are not aware of the correct protocols, use the protocol standardized at the ILS MS Facility.
Samples in dry/lyophilised form with proper tube labeling and matching with the enclosed list will be accepted.
Once the sample is processed, results obtained will be sent by email to PI upon job completion.
The time required to complete the job from the submission of the sample, along with the filled and signed request form, to results mailed to PI.
The below-mentioned time for job completion may vary in case of sample queue, system failure, or any other unavoidable circumstances.

Preferred samples as per jobs request and tentative time required to complete requested job which includes sample run on Mass spectrometer, acquisition of data, data processing and analysis, results analysis, result preparation and mailing to PI are as follows:

Our Services Overview

Job Type	Jobs Requested #	Type of sample required / preferred
A	Protein identification on HRMS for simple/purified samples (Orbitrap fusion Lumos direct injection)	Purified, Digested & desalted Samples
B	Protein identification on HRMS for complex samples (Orbitrap fusion Lumos with neoUHPLC)	Digested & desalted Samples
C	Quantitative proteome analysis on HRMS for complex samples (excluding Labelling) (Orbitrap fusion Lumos with neoUHPLC)	Digested & desalted Samples
D	PTM identification by MS/MS on HRMS (Orbitrap fusion Lumos with neoUHPLC)	PTM Enriched, Digested & desalted Samples
E	Un-targeted metabolomics/ lipidomics on HRMS (Orbitrap fusion Lumos with UHPLC)	Purified samples
F	Targeted proteome analysis on LC-MS/MS per 60 min run (Triple Quadrupole with UHPLC)	For Digested & desalted samples
G	Additional charges for enzyme digestion and desalting for protein mixture sample if required.	For Digested & desalted samples

*All users must acknowledge the ILS MS facility in their publication/patent etc while publishing data generated from the facility.

*User may contact & discuss their requirement with facility manager prior to avail the services. Time may vary depending on sample queue, instrument functionality or unavoidable circumstances etc.

Please contact for sample preparation guidelines and more details-

Mass spectrometry facility manager:
Mr. R. Rajendra K. Reddy Phone- 91-674- 2304233(D), 2300137 Ext: 233

Contact MS facility and discuss regarding sample preparation and protocol.
Submit sample convenient time after discussing with MS facility along with signed sample submission form.
Concentration 1 mg/ml sample is required.
Sample send with 50mm Ammonium bicarbonate having PH-8.
Always use LC MS Grade water for sample preparation.
Always use glass container and rinsed with 70% ACN or methanol.
Avoid keratin contamination by using mask, gloves, caps.
Use Only volatile salts (e.g., ammonium bicarbonate, ammonium format, ammonium acetate, triethylammonium bicarbonate (TEAB)) are compatible with mass spectrometers.
If your sample contain non-volatile salts use c18 Zip tip, and suitable cut of membrane and buffer exchange.
The species data is required for user.
The user should provide a protein database (in. fasta format).
Use powder free nitrile Gloves, mask, cap, shoe cover for MS sample preparation.
After desalting and buffer exchange, do protein quantification.
Freshly prepare all the buffers for MS analysis with MS grade reagent.
Desalt samples prior to sample submission.
The sample to be shipped in refrigerator condition.
Sample will not be analysed if payment is not received.
Don’t store buffers in plastic container and do not seal either parafin with solvents.
Non-volatile salts and additives (e.g., sodium (Na+), potassium (K+), or phosphate) can precipitate at the high‐organic end of the solvent gradient. This will block the columns and MS source.
Do not wash Flask and tube with detergent or soap.

To Avoid Keratin Contamination

Keratin is found in almost all samples because humans shed pieces of skin / hair. Common recommendations to reduce contamination include:

Wear nitrile gloves (latex may introduce latex proteins).
Do not lean over samples, skin particles may fall from your head introducing keratin.
Keep solutions in closed containers to exclude dust.
Keep lab ware covered or enclosed to exclude dust, and close pipet tip boxes.
Work in an area cleaned of dust before hand, preferably a laminar flow hood.
Avoid long sleeves and wool when handling samples; long sleeves funnel hairs and skin flakes toward the sample.
Use tubes that have been kept sealed from possible dust.
When opening a tube containing a sample, blow with clean air to remove dust from the tube.

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Standard Operating Procedure

Sample Preparation for Mass Spectrometry Analysis

Key Features of Our Facility

Our Services Overview

Sample Submission for Mass Spectrometry Analysis

Process for Submission

Our Services Overview