Download DIVISION OF MOLECULAR MEDICINE – CLINICAL PROTEOMICS

DIVISION OF MOLECULAR MEDICINE – CLINICAL PROTEOMICS
Dr. Amit Kumar Mandal
Professor
PUBLICATIONS:
1. A cognate tRNA specific conformational change in glutaminyl-tRNA synthetase and its
implication for specificity. Mandal AK, Bhattacharyya A, Bhattacharyya S, Bhattacharyya
T, Roy S. Protein Sci. 1998; 7(4): 1046-51.
2. Dynamics of compact denatured states of glutaminyl-tRNA synthetase probed by bisANS binding kinetics. Bhattacharyya A, Mandal AK, Banerjee R, Roy S. Biophys Chem.
2000; 87(2-3): 201-12.
3. Solvation dynamics of a probe covalently bound to a protein and in an AOT
microemulsion: 4-(N-bromoacetyl-amino)-phthalimide. Mandal D, Sen S, Sukul D,
Bhattacharyya K, Mandal AK, Banerjee R, and Roy S. J Phys. Chem. B 2002; 106: 107417.
4. Glutamate counteracts the denaturing effect of urea through its effect on the denatured
state. Mandal AK, Samaddar S, Banerjee R, Lahiri S, Bhattacharyya A, Roy S. J Biol Chem.
2003; 278(38): 36077-84.
5. Solvation change and ion release during aminoacylation by aminoacyl-tRNA synthetases.
Banerjee R, Mandal AK, Saha R, Guha S, Samaddar S, Bhattacharyya A, Roy S. Nucleic
Acids Res. 2003; 31(20): 6035-42.
6. Solvation dynamics of a protein in the pre-molten globule state. Samaddar S, Mandal
AK, Mondal SK, Sahu K, Bhattacharyya K, Roy S. J Phys Chem B. 2006; 110(42): 21210-5.
7. Sequencing of T-superfamily conotoxins from Conus virgo: Pyroglutamic acid
identification and disulfide arrangement by MALDI mass spectrometry. Mandal AK,
Ramasamy MS, Sabareesh V, Openshaw, Krishnan KS, Balaram P. Journal of the
American Society for Mass Spectrometry. 2007; 18: 1396-1404.
8. Quantitation and characterization of glutathionyl hemoglobin as an oxidative stress
marker in chronic renal failure by mass spectrometry. Mandal AK, Murali W, Varun S,
Patanam RK, Anjali R, Sudarshan B, Padmanabhan B. Clinical Biochemistry. 2007; 40:
986-994.
9. Mass spectrometric identification of pyroglutamic acid in peptides following selective
hydrolysis. Mandal AK, Padmanabhan B. Analytical Biochemistry. 2007; 370: 118-120.
10. Electrospray mass spectrometric characterization of hemoglobin Q (Hb Q-India) and a
double mutant hemoglobin S/D in clinical samples. Mandal AK, Bisht S, Bhat V,
Krishnaswamy PR, Balaram P. Clinical Biochemistry. 2008; 41: 75-81.
11. Analysis of Protein Post-translational Modifications by Mass Spectrometry: With Special
Reference to Hemoglobin. Woodi M, Mandal AK, Balaram P, Krishnaswamy PR. Indian
Journal of Clinical Biochemistry. 2009; 24: 23-29.
12. Proteomics in Hematology and Oncology: A Novel Tool for Clinical Investigation. Chapter
in Hematology Today 2010 Edition. Arun S. Shet, Amit K. Mandal.
13. Characterization of A Hemoglobin Variant: Hbq-India/Ivs 1-1[G >T]-Β-Thalassemia. Bhat
V, Dewan K, Krishnaswamy PR, Mandal AK, Balaram P. Indian Journal of Clinical
Biochemistry. 2010; 25: 99-104.
14. Analysis of hemoglobin variants using non-denaturing gel electrophoresis and matrixassisted laser desorption ionization mass spectrometry. Mathew B, Bhat V, Mandal AK.
Analytical Biochemistry. 2011; 416: 135-137.
15. Structural perturbation of human hemoglobin on glutathionylation probed by hydrogendeuterium exchange and MALDI mass spectrometry. Mitra G, Muralidharan M, Pinto J,
Srinivasan K, Mandal AK. Bioconjugate Chemistry. 2011; 22: 785-793.
16. Glutathionyl Hemoglobin is elevated in Iron Deficiency Anemia. Shet AS, Pinto SM, Mitra
G, Mandal AK. Acta Haematol. 2011; 127: 26-30.
17. Glutathionylation induced structural changes in oxy human hemoglobin analyzed by
backbone amide hydrogen/deuterium exchange and MALDI-mass spectrometry. Mitra
G, Muralidharan M, Narayanan S, Pinto J, Srinivasan K, Mandal AK. Bioconjug Chem.
2012; 23(12): 2344-53.
18. Co-inheritance of HbD (Iran)/Beta Thalassemia IVS1-5 (G>C) Trait in a Punjabi Lady with
Diabetes. Bhat V, Mandal AK, Mathew B. Indian J Clin Biochem. 2012; 27(2): 202-6.
19. Identification of a Rare Hemoglobin Variant HbJ-Rajappen [alpha90 (FG2)Lys → Thr]
Using Mass Spectrometry. Bhat V, Mandal AK, Mathew B. Int J Clin Biochem. 2012;
27(4): 414-6.
20. Automated analysis of hemoglobin variants using NanoLC-MS and customized
database. Das R, Mitra G, Mathew B, Ross C, Bhat V, Mandal AK. J Proteome Res. 2013;
12(7): 3215-22.
21. Structural Proteomics Takes Aim at Disease: A combination of H/DX-MS and IMS will
help to explore the basis of functional failures in proteins linked to medical conditions.
Mitra A, Mandal AK. The Analytical Scientist. 2013; 0613: 303.
22. Characterization of a Double Heterozygote HbE/β(+) Thalassemia IVS 1-1 [G>T] in a
Juvenile Diabetic. Bhat VS, Lokeshwarappa S, Mandal AK. J Clin Biochem. 2015; 30:238242.
23. Beneficiary effect of nanosizing Ferric Pyrophosphate as food fortificant in Iron
Deficiency Anemia: evaluation of bioavailability, toxicity and plasma biomarker.
Srinivasu B, Mitra G, Muralidharan M, Srivastava D, Pinto J, Thankachan P, Suresh S,
Shet A, Rao S, Ravikumar G, Thomas T, Kurpad A, Mandal AK. RSC Advances. 2015;
5:61678-61687.
24. Mass spectrometry based characterization of Hb Beckman variant in a falsely elevated
HbA1c sample Das R, Muralidharan M, Mitra G, Bhat VS, Mathew B, Pal D, Ross C,
Mandal AK. Analytical Biochemistry. 2015; 489, 53-58.
25. Protein Structure−Function Correlation in Living Human Red Blood Cells Probed by
Isotope Exchange-based Mass Spectrometry. Sreekala Narayanan, Gopa Mitra, Monita
Muralidharan, Boby Mathew, and Mandal AK. Analytical Chemistry. 2015; 87:11812-8.
26. Interaction of p-benzoquinone with hemoglobin in smoker’s blood causes alteration of
structure and loss of oxygen binding capacity. Arunava Ghosh, Santanu Banerjee, Amrita
Mitra, Monita Muralidharan, Bappaditya Roy, Rajat Beanerjee, Mandal AK, Indu B
Chatterjee. Toxicology Reports. 2016; 3: 295-305.
27. Mass spectrometry based diagnosis of Hemoglobinapathies: A potential tool for the
screening of genetic disorder. Rajdeep Das, Gopa Mitra, Boby Mathew, Vijay Bhat, Cecil
Ross, Debnath Pal, Amit Kumar Mandal. Biochemical Genetics. 2016. 54:816–825.
INVITED LECTURES / ORAL PRESENTATIONS
1. Application of mass spectrometry in de nova sequencing of peptides and detection of
hemoglobin variants under diseases condition. Bose Institute, Kolkata on 24th Jul, 2007.
2. Mass spectroscopy of Hemoglobin Variants. National Conference on Protein folding
Dynamics and Diseases, PES Institute of Technology, Bangalore from 29th - 31st Oct,
2009.
3. Structural characterization of hemoglobin in solution phase using mass spectroscopy.
National Seminar on Proteomics: Advances, Applications and Challenges, Institute of
Bioinformatics and Applied Biotechnology, Bangalore from 19th - 20th Feb, 2010.
4. Quantification of Glutathionyl hemoglobin, a biomarker of oxidative stress, using LC/ESIMS and its conformational analysis using hydrogen/deuterium exchange coupled to
MALDI-MS. Gopa Mitra, Monita Muralidharan, Amit Kumar Mandal. International
Conference on Omics Meets Disease, Proteomics Society of India, Saha Institute of
Nuclear Physics, Kolkata from 15th - 18th Dec, 2011.
5. Conformational Dynamics of Protein probed by hydrogen deuterium exchange mass
spectrometry. Gopa Mitra, Monita Muralidharan, Jennifer Pinto, K Srinivasan, Amit
Kumar Mandal. National Seminar on Biotechnology for Sustainable Development (BSD
2012) Heritage Institute Technology, Kolkata from 23rd - 24th Feb, 2012.
6. Mass spectrometry based analysis of hemoglobin variants using customized database.
Medical Proteomics, Proteomics Society of India, Indian Institute of Science Bangalore
from 28th - 30th Nov, 2013.
7. Application of isotope exchange based mass spectrometry in structural analysis of
hemoglobin in vivo. Sreekala Narayanan, Boby Mathew, Amit Kumar Mandal. Molecular
Architecture, Dynamics and Assembly in Living Systems (MADALS 2014), Saha Institute
of Nuclear Physics from 7th - 10th Feb, 2014.
8. Hemoglobin structure function correlation in living human Red Blood cells probed by
isotope exchange based mass spectrometry. Interdisciplinary Science: Catalyst for
Sustainable Progress, NIAS Auditorium, Indian Institute of Science, Bangalore from 4th 6th Sep, 2014.
9. Mass spectrometry based analysis of hemoglobin inside live Red Blood Cells and in the
Screening of Hemoglobinapathies. Indian Institute of Science Education and Research,
Kolkata on 5th Jan, 2015.
10. Mass spectrometry based analysis of hemoglobin variants in the screening of
Hemoglobinapathies. Contemporary Research Trends in diagnostics and Therapeutics,
Department of Biotechnology, Anna University, Chennai from 16th - 18th Feb, 2015.
11. De nova sequencing of a venom peptide using Mass Spectrometry. National workshop
on Proteomics, Department of Biochemistry, Biotechnology and Microbiology,
University of Calcutta, Kolkata from 23rd - 27th Feb, 2015.
12. Hydrogen Deuterium exchange Mass spectrometry to understand protein conformation
and dynamics. National workshop on Proteomics, Department of Biochemistry,
Biotechnology and Microbiology, University of Calcutta, Kolkata from 23rd - 27th Feb,
2015.
13. Beneficiary effect of nanosizing Ferric Pyrophosphate as food fortificant in Iron
Deficiency Anemia: evaluation of bioavailability, toxicity and plasma biomarker. National
conference on emerging issues in environmental and occupational health and safety its
National Scenario and Regional Needs, Regional Occupational Health Centre (ICMR,
Govt Of India), Bangalore from 22nd - 24th Jul, 2015.
14. Protein Structure-Function Correlation in Living Human Red Blood Cells Probed by
Isotope Exchange-based Mass Spectrometry. Dept. of Chemistry, IIT Guwahati on 6th
Dec, 2015.
15. Probing Hemoglobin Structure inside Living Red Blood Cells: An Application of Isotope
Exchange Based Mass Spectrometry. International Conference on Frontiers of Mass
Spectrometry (ICMS 2015), Kottayam from 11th - 14th Dec, 2015.
16. Probing hemoglobin structure inside living red blood cells: An application of isotope
exchange based mass spectrometry. A National Symposium on Emerging Trends in
Chemistry, North Eastern Hill University, Shillong, Meghalaya from 28th - 29th Mar, 2016.
17. Structural Proteomics of Abnormal Hemoglobin. Department of Biotechnology and Dr. B
C Guha Centre for Genetic Engineering and Biotechnology, University of Calcutta,
Kolkata on 7th Sep, 2016.
18. Clinical Proteomics of Hemoglobinopathies. Research Scholar’s Day, School of Medical
Science and Technology, IIT, Kharagpur on 9th Nov, 2016.
19. Structural Proteomics of Glutathionyl Sickle Cell Hemoglobin: An Approach to
Understand the Molecular Mechanism of Inhibition in Sickle Hemoglobin
Polymerization. Structural Proteomics of Macromolecular Complexes using x-ray
Crystallography and Mass Spectrometry, Regional Centre for Biotechnology, Gurgaon,
Haryana from 18th - 20th Dec, 2016.
CONFERENCE ABSTRACTS:
1. Title: Using Molecular Dynamics Simulations to study effects of Glutathionylation in
Hemoglobin and Human Serum Albumin. Gurunath M Katagi, Amit Kumar Mandal,
Debnath Pal. Asia Pacific Bioinformatics Conference, Bangalore, India from 18th - 21st
Jan, 2010.
2. Title: Novel biomarkers of Iron Deficiency Anemia. Shet AS, Pinto S, Mitra G,
Subramaniam P, Amit Kumar Mandal. Fifth Conference on Iron Deficiency Anemia,
Hyderabad, India from 5th - 7th Feb, 2010.
3. Title: An automated method for Hemoglobin analysis using mass spectrometry. Rajdeep
Das, Boby Mathew, Gopa Mitra, Vijay Bhat, Amit Kumar Mandal. National Conference
on Molecular Medicine & Nano Biotechnology, NIHMANS, Bangalore from 13 th - 14th
Oct, 2010.
4. Title: Ferric Pyrophosphate Nanoparticles: Feasibility, Bioavailability & Toxicity
Assessments. Jennifer Pinto, Gopa Mitra, Bindu Srinivasu, Monita Muralidharan, Sudha
Suresh, Arun Shet, Anura V Kurpad, Amit Kumar Mandal. Nanoscience and
Naotechnology-2011, Nano Mission Council, Department of Science and Technology,
Indian Institute of Technology, Delhi from 25th -27th Feb, 2011.
5. Title: Automated analysis of hemoglobin variants using NanoLC/MS and customized
tryptic peptides database. Rajdeep Das, Gopa Mitra, Boby Mathew, Amit Kumar Mandal.
International Interdisciplinary Science Conference (IISC-2012) on Protein Folding and
Diseases, Jamia Millia Islamia, New Delhi, India from 8th - 10th Dec, 2012.
6. Title: Down regulation of plasma Apolipoprotein A-IV in suicidal attempters: A mass
spectrometry based approach. Boby Mathew, K Srinivasan, Johnson Pradeep, Amit
Kumar Mandal. National conference on recent trends in biosciences - challenges and
future prospects, Marthoma College of Science and Technology, Kollam, Kerala from
13th - 15th Mar, 2014.
7. Title: Effect of nanosizing ferric pyrophosphate in rats with iron deficiency anemia.
Bindu Srinivasu, Gopa Mitra, Monita Muralidharan, Deepsikha Srivastava, Jennifer Pinto,
Anura V Kurpad, Amit Kumar Mandal. South Regional Conference of the Association of
Clinical Biochemists of India, KMC, Mangalore from 23rd - 24th May, 2014.
8. Title: Down Regulation of plasma appolipoprotien A-1V in Suicidal Attempters: A Mass
Spectroscopy based approach. Boby Mathew, K Srinivasan, Johnson Pradeep, Amit
Kumar Mandal. 13th Human proteome Organization World Congress” Madrid, Spain
from 5th - 8th Oct, 2014.
9. Title: Glutathionylation induced structural changes in deoxy and oxy human hemoglobin
analyzed by hydrogen/deuterium exchange based MALDI mass spectrometry. Monita
Muralidharan, Gopa Mitra, Sreekala Narayanan, Jennifer Pinto, K Srinivasan, Amit Kumar
Mandal. The Second International Symposium on Protein folding and dynamics, NCBS,
Bangalore from 5th - 7th Nov, 2014.
10. Title: “Bioavailability of Nano Ferric Pyrophosphate salt and its effect on proteins in
vivo”. Bindu Srinivasu, Gopa Mitra, Monita Muralidharan, Deepsikha Srivastava, Jennifer
Pinto, Anura V Kurpad, Amit Kumar Mandal. BioChromatography, Molecular Recognition
and Proteomics, Proteomics Society of India, International Conference, Indian Institute
of Technology, Mumbai from 6th - 11th Dec, 2014.
11. Title: Nanoparticle Ferric Pyrophosphate in Iron Deficiency, its Impact on Plasma
Proteins in Vivo. Bindu Srinivasu, Gopa Mitra, Monita Muralidharan, Deepsikha
Srivastava, Jennifer Pinto, Anura V Kurpad, Amit Kumar Mandal. 14 th Human proteome
Organization World Congress, Vancouver, Canada from 27th - 30th Sep, 2015.
12. Title: Nano Ferric pyrophosphate as a Food Fortificant in Iron Deficiency Anemia and its
Effect on Plasma Proteins in a Rat Model. Bindu Srinivasu, Gopa Mitra, Monita
Muralidharan, Deepsikha Srivastava, Jennifer Pinto, Anura V Kurpad, Amit Kumar
Mandal. International Conference on Nanomaterials and Nanotechnology (NANO-2015)
K.S. Rangasamy College of Technology, Tiruchengode from 7th - 10th Dec, 2015.
INSTRUMENTAL FACILITIES AVAILABLE AT THE LABORATORY:
Mass Spectrometer (Dual Source - ESI & MALDI) with ETD source; DESI source, ion mobility
mass spectrometry and imaging facility - two (Synapt G1 & Synapt G2-Si, Waters); Automated
sprayer and spotter; High-end proteomics computational facility; Two-dimensional nano liquid
chromatography system, Waters; Hydrogen deuterium exchange module, Waters; Twodimensional gel electrophoresis system, gel scanner and ImageMaster Platinum software, GE;
Circular dichroism spectrometer, (J-815), Jasco; Fluorescence spectrophotometer with
polarizer, (F-7000) Hitachi; UV-Vis spectrophotometer, (UV-1800), Shimadzu; FTIR (8400S),
Shimadzu; Ultra-fast liquid chromatography system, Shimadzu; Lyophilizer, Christ; Speed vac
system, Christ; Heamox Analyzer, Radiometer; -80 deg cen freezer (Thermo); Milli-Q water
system, Millipore; High-speed refrigerated centrifuge - three (Beckman & Eppendrof (2)),
Circulating thermostat (-5 deg cen to 100 deg cen), GE; Laminar air flow; Shaking Incubator;
Autoclave system; Milli-Q filtration unit with pump, Millipore; FPLC (Acta purifier, GE) with 4
deg cen cold chamber (Uniequip); Ultrasound probe sonicator & bath sonicator; Mini gel
electrophoresis system, BioRAD; High sensitive balance; Denver.
GROUP MEMBERS:
CURRENT:
PhD Scholar:
1. Rajdeep Das
2. Boby Mathew
3. Monita Muralidharan
4. Bindu Srinivasu
5. Sreekala Narayanan
6. Amrita Mitra
7. Arun Kumar
Research Associate / Postdoctoral Fellow:
1. Dr. Deepsikha Srivastava
ALUMNI:
Research Associate / Postdoctoral Fellow:
1. Dr. Vinuchakkaravarthy T
Research Assistant:
1. Sneha
2. Jennifer