Faculty
Faculty Details
Faculty Details
Prof.Nagarajaram obtained his PhD in 1995 under the mentorship of Prof. C.Ramakrishnan, Molecular Biophysics Unit (MBU), Indian Institute of Science (IISc), Bengaluru. Soon after PhD he joined Prof. Sir Tom Blundell’s group at the Department of Biochemistry, University of Cambridge, England, and carried out his post-doctoral work from 1996 to 2000. In 2000 he returned to India and joined CDFD as Staff Scientist and established the Laboratory of Computational Biology (LCB). At CDFD he was also holding an additional responsibility of heading its Bioinformatics Facility and served as the India Node Manager of EMBnet as well as the elected member of the Executive Committee of theM ASEA-PACIFIC Bioinformatics Network (APBioNet). In Feb, 2017, he accepted the Professor position in the School of Life Sciences (SLS), University of Hyderabad (UoH) and moved LCB to the SLS premises. Since the last quarter of 2018 he has been made the first Head of the newly formed Department of Systems and Computational Biology (DoSCB). Till recently (Oct, 2020) he also served as Professor-in-Charge of Centre for Modelling, Simulation and Design (CMSD) .
So far, under his guidance, 10 students have obtained their PhD degrees and currently pursuing their careers as scientists in India and abroad. Currently, he is mentoring 7 PhD students. In addition, he has mentored several Masters's students as well.
He has published a little over 80 articles in international peer-reviewed journals that, include the Journal of Proteome Research, Human Mutation, Proteomics, PNAS, JMB, Protein Science etc.
As a teacher, he has been teaching PhD students (Course: Biostatistics) and Masters Students (Courses: Computational Systems Biology and Maths and Stats).
He has been a member/chairman/coordinator of several committees within and outside the university.
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Students/Projects Trainees
| Name | Joined As | Contact | |
|---|---|---|---|
| S Suryanarayana | PhD Student | surya@cdfd.org.in | --- |
| Konduru Guruprasad Varma | PhD | kguruprasad@cdfd.org.in | --- |
| C Nithya | PhD | 17ltph07@uohyd.ac.in | --- |
| Aishwarya Gholse | PhD | 16LTPM01@uohyd.ac.in | --- |
| Rachana | PhD | 18ltph03@uohyd.ac.in | --- |
| Dinkar Wadhwa | PhD student | dinkar.wadhwa84@gmail.com | --- |
| Dr Anwesh Maile | Project Scientist (DBT-CMI) | --- | --- |
| Aishwarya Barik | Project Associate | --- | --- |
| 97 | Nithya, C., Manjari Kiran and H.A.Nagarajaram (2024) , Hubs and Bottlenecks in Protein-Protein Interaction Networks , In: Mandal, S. (eds) Reverse Engineering of Regulatory Networks. Methods Molecular Biology, (doi.org/10.1007/978-1-0716-3461-5_13), Springer-Nature,2719,,. |
| 96 | Nithya, Chandramohan., Kiran, Manjari., Nagarajaram, Hampapathalu Adimurthy., (2023) , Dissection of hubs and bottlenecks in a protein-protein interaction network , Computational Biology and Chemistry, Elsevier,102,,107802 IF - 3.737. |
| 95 | Nilisha Rastogi, Sheeba Zarin, Anwar Alam, Guruprasad Varma Konduru, P. Manjunath, Abhay Mishra, Saroj Kumar, Hampapathalu Adimurthy Nagarajaram, Seyed Ehtesham Hasnain, Nasreen Zafar Ehtesham (2023) , Structural and biophysical properties of therapeutically important proteins Rv1509 and Rv2231A of Mycobacterium tuberculosis , International Journal of Biological Macromolecules, Elsevier ,245,,125455 IF - 8.025. |
| 94 | Saratchandra Singh Khumukcham $ Vasudevarao Penugurti $ Suresh Bugide Anju Dwivedi Anita Kumari P.S. Kesavan Sruchytha Kalali Yasaswi Gayatri Mishra Vakkalagadda A. Ramesh Hampapathalu A. Nagarajaram Aprotim Mazumder Bramanandam Manavathi (2023) , HPIP and RUFY3 are non-canonical guanine exchange factors of Rab5 to regulate endocytosis-coupled focal adhesion turnover , J. Biol.Chem. https://doi.org/10.1016/j.jbc.2023.105311), ,,, IF - 5.485. |
| 93 | Seera, Suryanarayana., Nagarajaram, Hampapathalu A., (2022) , Effect of disease causing missense mutations on intrinsically disordered regions in proteins , Protein and Peptide Letters, Bentham Science Publishers,29,3,254-267. |
| 92 | Chaudhary, Ajay Kumar., Gholse, Aishwarya., Nagarajaram, Hampapathalu Adimurthy., Dalal, Ashwin Bhikaji., Gupta, Neerja., Dutta, Atanu Kumar., Danda, Sumita., Gupta, Rekha., Sankar, Hariharan V., Bhavani, Gandham SriLakshmi., (2022) , Ectodysplasin pathogenic variants affecting the furin‐cleavage site and unusual clinical features define X‐linked hypohidrotic ectodermal dysplasia in India , American Journal of Medical Genetics Part A, John Wiley & Sons, Inc. Hoboken, USA,188,3,788-805. |
| 91 | Gholse, Aishwarya., Nagarajaram, Hampapathalu Adimurthy., (2022) , Network, Structure and Functional Characteristic Features of the Human proteins targeted by both HIV and MTB proteins , Research Square, ,,,. |
| 90 | Konduru, Guruprasad Varma., Nagarajaram, Hampapathalu Adimurthy., (2022) , Human TMPRSS2 non-catalytic ectodomain and SARS-CoV-2 S2\'subunit interaction mediated SARS-CoV-2 endocytosis: a model proposal with virtual screening for potential drug molecules to inhibit this interaction , Journal of Biomolecular Structure and Dynamics, Taylor & Francis,,,1-12. |
| 89 | Trivedi, Rakesh., Nagarajaram, Hampapathalu Adimurthy., (2022) , Intrinsically Disordered Proteins: An Overview , International Journal of Molecular Sciences, MDPI,23,22,14050. |
| 88 | Parapatla, Hari., Gudla, Ramurthy., Konduru, Guruprasad Varma., Devadasu, Elsin Raju., Nagarajaram, Hampapathula Adimurthy., Sritharan, Manjula., Subramanyam, Rajagopal., Siddavattam, Dayananda., (2020) , Organophosphate hydrolase interacts with ferric-enterobactin and promotes iron uptake in association with TonB-dependent transport system , Biochemical Journal, Portland Press,477,15,2821-2840. |
| 87 | Taware, Ravindra., Taunk, Khushman., Kumar, Totakura VS., Pereira, Jorge AM., Câmara, José S., Nagarajaram, HA., Kundu, Gopal C., Rapole, Srikanth., (2020) , Extracellular volatilomic alterations induced by hypoxia in breast cancer cells , Metabolomics, Springer US,16,,1-12. |
| 86 | Trivedi, Rakesh., Nagarajaram, Hampapathalu Adimurthy., (2020) , Substitution scoring matrices for proteins‐An overview , Protein Science, Wiley Online Library,29,11,2150-2163. |
| 85 | Gudla, Ramurthy., Konduru, Guruprasad Varma., Nagarajaram, Hampapathalu Adimurty., Siddavattam, Dayananda., (2019) , Organophosphate hydrolase interacts with Ton components and is targeted to the membrane only in the presence of the ExbB/ExbD complex , FEBS letters, Wiley Online Library,593,6,581-593. |
| 84 | Trivedi, Rakesh., Nagarajaram, Hampapathalu Adimurthy., (2019) , Amino acid substitution scoring matrices specific to intrinsically disordered regions in proteins , Scientific reports, Nature Publishing Group,9,1,1-12. |
| 83 | Taunk, Khushman., Taware, Ravindra., More, Tushar H., Porto-Figueira, Priscilla., Pereira, Jorge AM., Mohapatra, Rajkishore., Soneji, Dharmesh., Câmara, José S., Nagarajaram, HA., Rapole, Srikanth., (2018) , A non-invasive approach to explore the discriminatory potential of the urinary volatilome of invasive ductal carcinoma of the breast , RSC advances, Royal Society of Chemistry,8,44,25040-25050. |
| 82 | Taware, Ravindra., Taunk, Khushman., Pereira, Jorge AM., Shirolkar, Amey., Soneji, Dharmesh., Câmara, José S., Nagarajaram, HA., Rapole, Srikanth., (2018) , Volatilomic insight of head and neck cancer via the effects observed on saliva metabolites , Scientific reports, Nature Publishing Group,8,1,1-10. |
| 81 | Cavaco, Carina., Pereira, Jorge AM., Taunk, Khushman., Taware, Ravindra., Rapole, Srikanth., Nagarajaram, Hampapathalu., Câmara, José S., (2018) , Screening of salivary volatiles for putative breast cancer discrimination: An exploratory study involving geographically distant populations , Analytical and bioanalytical chemistry, Springer Berlin Heidelberg,410,,4459-4468. |
| 80 | Taware, Ravindra., Taunk, Khushman., Pereira, Jorge AM., Dhakne, Rahul., Kannan, Narayanan., Soneji, Dharmesh., Câmara, José S., Nagarajaram, HA., Rapole, Srikanth., (2017) , Investigation of urinary volatomic alterations in head and neck cancer: A non-invasive approach towards diagnosis and prognosis , Metabolomics, Springer US,13,,1-11. |
| 79 | Kumar, Parveen., Munnangi, Prathyusha., Chowdary, KVS Rammohan., Shah, Varun J., Shinde, Swapnil R., Kolli, Nanci R., Halehalli, Rachita R., Nagarajaram, Hampapathalu A., Maddika, Subbareddy., (2017) , A human tyrosine phosphatase interactome mapped by proteomic profiling , Journal of Proteome Research, American Chemical Society,16,8,2789-2801. |
| 78 | Chaudhary, AK., Mohapatra, R., Nagarajaram, HA., Ranganath, P., Dalal, Ashwin., Dutta, A., Danda, S., Girisha, KM., Bashyam, MD., (2017) , The novel EDAR p. L397H missense mutation causes autosomal dominant hypohidrotic ectodermal dysplasia , Journal of the European Academy of Dermatology and Venereology, Wiley Online Library,31,1,e17-e20. |
| 77 | Devi, A Radha Rama., Ramesh, Vakkalagadda A., Nagarajaram, HA., Satish, SPS., Jayanthi, U., Lingappa, Lokesh., (2016) , Spectrum of mutations in Glutaryl-CoA dehydrogenase gene in glutaric aciduria type I–Study from South India , Brain and Development, Elsevier,38,1,54-60. |
| 76 | Kiran, M., Nagarajaram, HA., (2016) , Interaction and localization diversities of global and local hubs in human protein–protein interaction networks , Molecular BioSystems, Royal Society of Chemistry,12,9,2875-2882. |
| 75 | Bidchol, Abdul Mueed., Dalal, Ashwin., Trivedi, Rakesh., Shukla, Anju., Nampoothiri, Sheela., Sankar, VH., Danda, Sumita., Gupta, Neerja., Kabra, Madhulika., Hebbar, Shrikiran A., (2015) , Recurrent and novel GLB1 mutations in India , Gene, Elsevier,567,2,173-181. |
| 74 | Halehalli, Rachita Ramachandra., Nagarajaram, Hampapathalu Adimurthy., (2015) , Molecular principles of human virus protein–protein interactions , Bioinformatics, Oxford University Press,31,7,1025-1033. |
| 73 | Uttarilli, Anusha., Ranganath, Prajnya., Jain, S Jamal Md Nurul., Krishna, Prasad C., Sinha, Anupam., Verma, Ishwar C., Phadke, Shubha R., Puri, Ratna D., Danda, Sumita., Muranjan, Mamta N., (2015) , Novel mutations of the arylsulphatase B (ARSB) gene in Indian patients with mucopolysaccharidosis type VI , The Indian Journal of Medical Research, Wolters Kluwer--Medknow Publications,142,4,414. |
| 72 | Pereira, Jorge., Porto-Figueira, Priscilla., Cavaco, Carina., Taunk, Khushman., Rapole, Srikanth., Dhakne, Rahul., Nagarajaram, Hampapathalu., Câmara, José S., (2015) , Breath analysis as a potential and non-invasive frontier in disease diagnosis: an overview , Metabolites, MDPI,5,1,3-55. |
| 71 | Bidchol, Abdul Mueed., Dalal, Ashwin., Shah, Hitesh., Nampoothiri, Sheela., Kabra, Madhulika., Gupta, Neerja., Danda, Sumita., Gowrishankar, Kalpana., Phadke, Shubha R., Kapoor, Seema., (2014) , GALNS mutations in Indian patients with mucopolysaccharidosis IVA , American Journal of Medical Genetics Part A, Wiley Online Library,164,11,2793-2801. |
| 70 | Bashyam, Murali D., Chaudhary, Ajay K., Kiran, Manjari., Reddy, Venkat., Nagarajaram, Hampapathalu A., Dalal, Ashwin., Bashyam, Leena., Suri, Deepti., Gupta, Anju., Gupta, Neerja., (2014) , Molecular analyses of novel ASAH1 mutations causing Farber lipogranulomatosis: analyses of exonic splicing enhancer inactivating mutation , Clinical genetics, Blackwell Publishing Ltd Oxford, UK,86,6,530-538. |
| 69 | Bashyam, Murali D., Chaudhary, Ajay K., Kiran, Manjari., Nagarajaram, Hampapathalu A., Devi, Radha Rama., Ranganath, Prajnya., Dalal, Ashwin., Bashyam, Leena., Gupta, Neerja., Kabra, Madhulika., (2014) , Splice, insertion‐deletion and nonsense mutations that perturb the phenylalanine hydroxylase transcript cause phenylketonuria in India , Journal of Cellular Biochemistry, ,115,3,566-574. |
| 68 | Mudunuri, Suresh B., Patnana, Sujan., Nagarajaram, Hampapathalu A., (2014) , MICdb3. 0: a comprehensive resource of microsatellite repeats from prokaryotic genomes , Database, Oxford Academic,2014,,. |
| 67 | Sinha, Anupam., Nagarajaram, Hampapathalu Adimurthy., (2014) , Nodes occupying central positions in human tissue specific PPI networks are enriched with many splice variants , Proteomics, Wiley Online Library,14,20,2242-2248. |
| 66 | Rachita, HR., Nagarajaram, HA., (2014) , Viral proteins that bridge unconnected proteins and components in the human PPI network , Molecular BioSystems, Royal Society of Chemistry,10,9,2448-2458. |
| 65 | Patil, Siddaramappa J., Rai, Gaurava Kumar., Bhat, Venkatraman., Ramesh, Vakkalagadda A., Nagarajaram, HA., Matalia, Jyoti., Phadke, Shubha R., (2014) , Distal arthrogryposis type 5D with a novel ECEL1 gene mutation , American Journal of Medical Genetics Part A, Wiley Online Library,164,11,2857-2862. |
| 64 | Kiran, Manjari., Nagarajaram, Hampapathalu Adimurthy., (2013) , Global versus local hubs in human protein–protein interaction network , Journal of Proteome Research, American Chemical Society,12,12,5436-5446. |
| 63 | Sinha, Anupam., Nagarajaram, Hampapathalu Adimurthy., (2013) , Effect of alternative splicing on the degree centrality of nodes in protein–protein interaction networks of Homo sapiens , Journal of proteome research, American Chemical Society,12,4,1980-1988. |
| 62 | Acharya, Vishal., Nagarajaram, Hampapathalu A., (2013) , Response to: Statistical analysis of missense mutation classifiers , Human Mutation, ,34,2,407-407. |
| 61 | Thoh, Maikho., Kumar, Pankaj., Nagarajaram, Hampathalu A., Manna, Sunil K., (2013) , Withdrawal: Azadirachtin interacts with the tumor necrosis factor (TNF) binding domain of its receptors and inhibits TNF-induced biological responses. , Journal of Biological Chemistry, ASBMB,288,12,8561. |
| 60 | Acharya, Vishal., Nagarajaram, Hampapathalu A., (2012) , Hansa: an automated method for discriminating disease and neutral human nsSNPs , Human Mutation, Wiley Subscription Services, Inc., A Wiley Company Hoboken,33,2,332-337. |
| 59 | Bashyam, MD., Chaudhary, AK., Reddy, EC., Reddy, V., Acharya, V., Nagarajaram, HA., Devi, ARR., Bashyam, L., Dalal, AB., Gupta, N., (2012) , A founder ectodysplasin A receptor (EDAR) mutation results in a high frequency of the autosomal recessive form of hypohidrotic ectodermal dysplasia in India , British Journal of Dermatology, Blackwell Publishing Ltd Oxford, UK,166,4,819-829. |
| 58 | Bashyam, Murali D., Purushotham, Guroji., Chaudhary, Ajay K., Rao, Katika Madhumohan., Acharya, Vishal., Mohammad, Tabrez A., Nagarajaram, Hampapathalu A., Hariram, Vuppaladadhiam., Narasimhan, Calambur., (2012) , A low prevalence of MYH7/MYBPC3 mutations among familial hypertrophic cardiomyopathy patients in India , Molecular and cellular biochemistry, Springer US,360,,373-382. |
| 57 | Bashyam, Murali D., Chaudhary, Ajay K., Sinha, Manjari., Nagarajaram, HA., Devi, A Radha Rama., Bashyam, Leena., Reddy, E Chandrakanth., Dalal, Ashwin., (2012) , Molecular genetic analysis of MSUD from India reveals mutations causing altered protein truncation affecting the C‐termini of E1α and E1β , Journal of Cellular Biochemistry, Wiley Subscription Services, Inc., A Wiley Company Hoboken,113,10,3122-3132. |
| 56 | Mudunuri, Suresh B., Nagarajaram, HA., Mishra, Priyatosh., (2012) , In silico survey of distribution and frequency of imperfect microsatellite repeats in viral genomes , 2012 International Conference on Data Science & Engineering (ICDSE), IEEE,,,31-36. |
| 55 | Thoh, Maikho., Kumar, Pankaj., Nagarajaram, Hampathalu A., Manna, Sunil K., (2012) , Azadirachtin interacts with the tumor necrosis factor (TNF) binding domain of its receptors and inhibits TNF-induced biological responses. , The Journal of Biological Chemistry, American Society for Biochemistry and Molecular Biology,287,17,13556. |
| 54 | Kumar, Pankaj., Nagarajaram, HA., (2012) , A study on mutational dynamics of simple sequence repeats in relation to mismatch repair system in prokaryotic genomes , Journal of molecular evolution, Springer-Verlag,74,,127-139. |
| 53 | Mudunuri, Suresh B., Nagarajaram, HA., Mishra, Priyatosh., (2012) , Distributional analysis and motif frequencies of compound microsatellite repeats in viral genomes , 2012 International Conference on Computing, Electronics and Electrical Technologies (ICCEET), IEEE,,,887-893. |
| 52 | Mohammad, Tabrez Anwar Shamim., Nagarajaram, Hampapathalu Adimurthy., (2011) , Svm-based method for protein structural class prediction using secondary structural content and structural information of amino acids , Journal of Bioinformatics and Computational biology, World Scientific,9,4,489-502. |
| 51 | Vaz, Candida., Bharti, Richa., Gupta, Rashi., Pandey, Priyatama., Ahmed, Hafiz., Kumar, Lalit., Kulshreshtha, Ritu., Bhattacharya, Alok., (2011) , CML patients: Decoding the miRNA Transcriptome , Journal of Natural Science, Biology and Medicine, Medknow Publications & Media Pvt. Ltd.,2,3,. |
| 50 | Nagarajaram, H., (2011) , Prediction of the effects of missence mutations in human proteins , Journal of Natural Science, Biology and Medicine, Medknow Publications & Media Pvt. Ltd.,2,3,. |
| 49 | Mohammad, Tabrez Anwar Shamim., Nagarajaram, Hampapathalu Adimurthy., (2011) , A hierarchical approach to protein fold prediction , Journal of Integrative Bioinformatics (JIB), De Gruyter,8,1,66-77. |
| 48 | Thoh, Maikho., Kumar, Pankaj., Nagarajaram, Hampathalu A., Manna, Sunil K., (2010) , Azadirachtin interacts with the tumor necrosis factor (TNF) binding domain of its receptors and inhibits TNF-induced biological responses , Journal of Biological Chemistry, Elsevier,285,8,13556. |
| 47 | Mudunuri, Suresh B., Kumar, Pankaj., Rao, Allam Appa., Pallamsetty, S., Nagarajaram, Hampapathalu Adimurthy., (2010) , G-IMEx: a comprehensive software tool for detection of microsatellites from genome sequences , Bioinformation, Biomedical Informatics Publishing Group,5,5,221. |
| 46 | Mudunuri, Suresh B., Rao, Allam Appa., Pallamsetty, S., Nagarajaram, HA., (2010) , Comparative analysis of microsatellite detecting software: a significant variation in results and influence of parameters , Proceedings of the International Symposium on Biocomputing, ,,,1-7. |
| 45 | Acharya, V., Nagarajaram, HA., (2010) , Prediction of disease-associated single nucleotide polymorphisms mapping on to human proteins , New Biotechnology, ,,27,S23. |
| 44 | Kumar, Pankaj., Chaitanya, Pasumarthy S., Nagarajaram, Hampapathalu A., (2010) , PSSRdb: a relational database of polymorphic simple sequence repeats extracted from prokaryotic genomes , Nucleic acids research, Oxford University Press,39,suppl_1,D601-D605. |
| 43 | Purushotham, G., Madhumohan, K., Anwaruddin, Mohammad., Nagarajaram, HA., Hariram, Vuppaladadhiam., Narasimhan, Calambur., Bashyam, Murali D., (2010) , The MYH7 p. R787H mutation causes hypertrophic cardiomyopathy in two unrelated families , Experimental & Clinical Cardiology, Pulsus Group,15,1,e1. |
| 42 | Korupolu, Radhika V., Achary, MS., Aneesa, F., Sathish, K., Wasia, R., Sairam, M., Nagarajaram, HA., Singh, Surya S., (2009) , Profilin oligomerization and its effect on poly (L-proline) binding and phosphorylation , International journal of biological macromolecules, Elsevier,45,3,265-273. |
| 41 | Achary, Malkaram S., Nagarajaram, Hampapathalu A., (2009) , Effects of disease causing mutations on the essential motions in proteins , Journal of Biomolecular Structure and Dynamics, Taylor & Francis,26,5,609-623. |
| 40 | Mudunuri, SB., Appa Rao, A., Pallamsetty, S., Mishra, P., Nagarajaram, HA., (2009) , VMD: viral microsatellite database-A comprehensive resource for all viral microsatellites , Journal of Computer Science & Systems Biology, OMICS International,2,6,283-286. |
| 39 | Achary, Malkaram Sridhar., Nagarajaram, Hampapathalu Adimurthy., (2008) , Comparative docking studies of CYP1b1 and its PCG-associated mutant forms , Journal of biosciences, Springer India,33,,699-713. |
| 38 | Sreenu, Vattipally B., Kumar, Pankaj., Nagaraju, Javaregowda., Nagarajaram, Hampapathalu A., (2007) , Simple sequence repeats in mycobacterial genomes , Journal of biosciences, Springer-Verlag,32,,3-15. |
| 37 | Shamim, Mohammad Tabrez Anwar., Anwaruddin, Mohammad., Nagarajaram, Hampapathalu A., (2007) , Support vector machine-based classification of protein folds using the structural properties of amino acid residues and amino acid residue pairs , Bioinformatics, Oxford University Press,23,24,3320-3327. |
| 36 | Mudunuri, Suresh B., Nagarajaram, Hampapathalu A., (2007) , IMEx: imperfect microsatellite extractor , Bioinformatics, Oxford University Press,23,10,1181-1187. |
| 35 | Sreenu, Vattipally B., Kumar, Pankaj., Nagaraju, Javaregowda., Nagarajaram, Hampapathalu A., (2006) , Microsatellite polymorphism across the M. tuberculosis and M. bovis genomes: implications on genome evolution and plasticity , BMC genomics, BioMed Central,7,,1-10. |
| 34 | Achary, Malkaram S., Reddy, Aramati BM., Chakrabarti, Subhabrata., Panicker, Shirly G., Mandal, Anil K., Ahmed, Niyaz., Balasubramanian, Dorairajan., Hasnain, Seyed E., Nagarajaram, Hampapathalu A., (2006) , Disease-causing mutations in proteins: structural analysis of the CYP1B1 mutations causing primary congenital glaucoma in humans , Biophysical journal, Elsevier,91,12,4329-4339. |
| 33 | Achary, Malkaram S., Reddy, Aramati BM., Chakrabarti, Subhabrata., Panicker, Shirly G., Mandal, Anil K., Ahmed, Niyaz., Balasubramanian, Dorairajan., Hasnain, Seyed E., Nagarajaram, Hampapathalu A., (2006) , Biophysical Theory and Modeling-Disease-Causing Mutations in Proteins: Structural Analysis of the CYP1b1 Mutations Causing Primary Congenital Glaucoma in Humans. , Biophysical Journal, New York: Rockefeller University Press.,91,12,4329-4339. |
| 32 | Cheeran, Anoop., Suganthan, Rajan Babu., Swapna, G., Bandey, Irfan., Achary, M Sridhar., Nagarajaram, HA., Sen, Ranjan., (2005) , Escherichia coli RNA polymerase mutations located near the upstream edge of an RNA: DNA hybrid and the beginning of the RNA-exit channel are defective for transcription antitermination by the N protein from lambdoid phage H-19B , Journal of molecular biology, Elsevier,352,1,28-43. |
| 31 | Prasad, MD., Muthulakshmi, M., Arunkumar, KP., Madhu, M., Sreenu, Vattipally B., Pavithra, V., Bose, Buddhaditta., Nagarajaram, Hampapathalu A., Mita, K., Shimada, Toru., (2005) , SilkSatDb: a microsatellite database of the silkworm, Bombyx mori , Nucleic acids research, Oxford University Press,33,suppl_1,D403-D406. |
| 30 | Nagarajaram, HA., Iengar, Prathima., Ghosh, Indira., (2005) , In silico approach to antimalarial drug discovery: Design of selective inhibitor to Plasmodium falciparum aspartic proteases , Frontiers in Biophysics, ,6,,168-181. |
| 29 | Gundu, RK., Swamynathan, S., Sreenu, VB., Pavan, N., Acharya, S., Nagarajaram, HA., (2005) , Frontiers in bioinformatics research: the biodiversity issues , , Narosa Publishing House,,,. |
| 28 | Cheeran, A., Suganthan, R., Swapna, G., Bandey, I., Acharya, S., Nagarajaram, HA., Sen, R., (2005) , E. coli RNA polymerase mutations impaired for H19B N specific transcription antitermination are located close to the upstream edge of RNA: DNA hybrid and beginning of RNA exit channel of elongation complex , J. Mol. Biol., ,252,,28-43. |
| 27 | Kamal, Ahmed., Ramesh, G., Srinivas, O., Ramulu, P., Laxman, N., Rehana, Tasneem., Deepak, M., Achary, MS., Nagarajaram, HA., (2004) , Design, synthesis, and evaluation of mixed imine–amine pyrrolobenzodiazepine dimers with efficient DNA binding affinity and potent cytotoxicity , Bioorganic & medicinal chemistry, Elsevier,12,20,5427-5436. |
| 26 | Majeed, Ahmed A., Ahmed, Niyaz., Rao, K Rajender., Ghousunnissa, Sheikh., Kauser, Farhana., Bose, Buddhaditta., Nagarajaram, Hampapathalu A., Katoch, Vishwa Mohan., Cousins, Debby V., Sechi, Leonardo A., (2004) , AmpliBASE MT™: a Mycobacterium tuberculosis diversity knowledgebase , Bioinformatics, Oxford University Press,20,6,989-992. |
| 25 | Sreenu, Vattipally B., Alevoor, Vishwanath., Nagaraju, Javaregowda., Nagarajaram, Hampapathalu A., (2003) , MICdb: database of prokaryotic microsatellites , Nucleic Acids Research, Oxford University Press,31,1,106-108. |
| 24 | Sreenu, Vattipally B., Ranjitkumar, Gundu., Swaminathan, Sugavanam., Priya, Sasidharan., Bose, Buddhaditta., Pavan, Mogili N., Thanu, Geeta., Nagaraju, Javaregowda., Nagarajaram, Hampapathalu A., (2003) , AUTHOR PROOF COPY ONLY , Applied Bioinformatics, ,2,3,2. |
| 23 | Sreenu, Vattipally B., Ranjitkumar, Gundu., Swaminathan, Sugavanam., Priya, Sasidharan., Bose, Buddhaditta., Pavan, Mogili N., Thanu, Geeta., Nagaraju, Javaregowda., Nagarajaram, Hampapathalu A., (2003) , MICAS: a fully automated web server for microsatellite extraction and analysis from prokaryote and viral genomic sequences. , Applied bioinformatics, ,2,3,165-168. |
| 22 | Ranjitkumar, G., Pavan, M Narendar., Bose, B., Swaminathan, S., Geetha, T., Prashanthi, P., Prasad, B Phani., Sreenu, VB., Achary, M Sridhar., Nagarajaram, HA., (2003) , EMBnet India Node (EIN) at the Centre for DNA Fingerprinting and Diagnostics: serving the Indian sub-continent in bioinformatics , Bioinformatics India, ,1,2,67-77. |
| 21 | Nagarajaram, HA., Hasnain, SE., (2003) , Current Status of Post-Genomics Computational Biology , , Narosa Publihing House,,,. |
| 20 | Kamal, Ahmed., Ramesh, G., Laxman, N., Ramulu, P., Srinivas, O., Neelima, K., Kondapi, Anand K., Sreenu, VB., Nagarajaram, HA., (2002) , Design, synthesis, and evaluation of new noncross-linking pyrrolobenzodiazepine dimers with efficient DNA binding ability and potent antitumor activity , Journal of medicinal chemistry, ACS Publications,45,21,4679-4688. |
| 19 | Panicker, Shirly G., Reddy, Aramati BM., Mandal, Anil K., Ahmed, Niyaz., Nagarajaram, Hampapathalu A., Hasnain, Seyed E., Balasubramanian, Dorairajan., (2002) , Identification of novel mutations causing familial primary congenital glaucoma in Indian pedigrees , Investigative ophthalmology & visual science, The Association for Research in Vision and Ophthalmology,43,5,1358-1366. |
| 18 | Eswar, Narayanan., Nagarajaram, HA., Ramakrishnan, C., Srinivasan, N., (2002) , Influence of solvent molecules on the stereochemical code of glycyl residues in proteins , Proteins: Structure, Function, and Bioinformatics, Wiley Online Library,49,3,326-334. |
| 17 | Kamal, A., Ramesh, G., Laxman, N., Ramulu, P., Srinivas, O., Neelima, K Kondapi., (2002) , AK; Srinu, VB; Nagarajaram, H. M: design, synthesis, and evaluation of new noncross-linking pyrrolobenzodiazepine dimers with efficient DNA binding ability and potent antitumor activity , J. Med. Chem, ,45,,4679-88. |
| 16 | Campillo, Nuria., Nagarajaram, Hampapathalu A., Ghosh, Indira., (2001) , Phosphoribosyltransferase superfamily: A comparative structural analysis , Molecular modeling annual, Springer-Verlag,7,,80-89. |
| 15 | Mendes, Joaquim., Nagarajaram, Hampapathalu A., Soares, Cláudio M., Blundell, Tom L., Carrondo, Maria Arménia., (2001) , Incorporating knowledge‐based biases into an energy‐based side‐chain modeling method: Application to comparative modeling of protein structure , Biopolymers: Original Research on Biomolecules, Wiley Online Library,59,2,72-86. |
| 14 | Burke, David F., Deane, Charlotte M., Nagarajaram, Hampapathalu A., Campillo, Nuria., Martin‐Martinez, Mercedes., Mendes, Joaquim., Molina, Franck., Perry, Jeff., Reddy, BVB., Soares, Claudio M., (1999) , An iterative structure‐assisted approach to sequence alignment and comparative modeling , Proteins: Structure, Function, and Bioinformatics, Wiley Online Library,37,S3,55-60. |
| 13 | Burke, DF., Deane, CM., Nagarajaram, HA., Campillo, N., Martin-Martinez, M., Mendes, J., (1999) , Molina F, Perry J, Reddy BVB, Soares CM, Steward RE, Williams M, Carrondo MA , Blundell TL, Mizuguchi K: An iterative structure-assisted approach to sequence alignment and comparative modelling. Proteins, ,,,55-60. |
| 12 | Nagarajaram, Hampapathalu A., Reddy, Boojala VB., Blundell, Tom L., (1999) , Analysis and prediction of inter-strand packing distances between β-sheets of globular proteins , Protein engineering, Oxford University Press,12,12,1055-1062. |
| 11 | Reddy, Boojala VB., Nagarajaram, Hampapathalu A., Blundell, Tom L., (1999) , Analysis of interactive packing of secondary structural elements in α/β units in proteins , Protein Science, Cambridge University Press,8,3,573-586. |
| 10 | Gunasekaran, K., Nagarajaram, HA., Ramakrishnan, C., Balaram, P., (1998) , Stereochemical punctuation marks in protein structures: glycine and proline containing helix stop signals , Journal of molecular biology, Elsevier,275,5,917-932. |
| 9 | Sowdhamini, R., Burke, David F., Huang, Jing-fei., Mizuguchi, Kenji., Nagarajaram, Hampapathalu A., Srinivasan, N., Steward, Robert E., Blundell, Tom L., (1998) , CAMPASS: a database of structurally aligned protein superfamilies , Structure, Elsevier,6,9,1087-1094. |
| 8 | Sowdhamini, R., Burke, David F., Deane, Charlotte., Huang, Jing-fei., Mizuguchi, Kenji., Nagarajaram, Hampapathulu A., Overington, John P., Srinivasan, N., Steward, Robert E., Blundell, Tom L., (1998) , Protein three-dimensional structural databases: domains, structurally aligned homologues and superfamilies , Acta Crystallographica Section D: Biological Crystallography, International Union of Crystallography,54,6,1168-1177. |
| 7 | Sowhamini, R., Burke, DF., Deane, C., Huang, J., Mizuguchi, K., Nagarajaram, HA., Overington, JP., Srinivasan, N., Steward, RE., Blundell, TL., (1998) , Protein Three-Dimensional Structural Databases: Structurally Aligned Homologues, Structurally Aligned Homologues and Superfamilies , Acta Crystallographica Section D Biological Crystallography, ,54,6,1168-1177. |
| 6 | Varadarajan, Raghavan., Nagarajaram, HA., Ramakrishnan, C., (1996) , A procedure for the prediction of temperature-sensitive mutants of a globular protein based solely on the amino acid sequence , Proceedings of the National Academy of Sciences, The National Academy of Sciences of the USA,93,24,13908-13913. |
| 5 | Varadarajan, R., (1996) , Nagarajaram H a, Ramakrishnan C , A procedure for the prediction of temperature-sensitive mutants of a globular protein based solely on the amino acid sequence. Proc Natl Acad Sci USA, ,93,,13908-13913. |
| 4 | Nagarajaram, HA., Ramakrishnan, C., (1995) , Stereochemical studies on cyclic peptides: Detailed energy minimization studies on hydrogen bonded all-trans cyclic pentapeptide backbones , Journal of Biosciences, Springer India,20,,591-611. |
| 3 | Nagarajaram, HA., Sowdhamini, R., Ramakrishnan, C., Balaram, P., (1993) , Termination of right handed helices in proteins by residues in left handed helical conformations , FEBS letters, Wiley Online Library,321,1,79-83. |
| 2 | Nagarajaram, HA., Paul, PKC., Ramanarayanan, K., Soman, KV., Ramakrishnan, C., (1992) , Conformational studies on β‐bend containing a cis peptide unit , International Journal of Peptide and Protein Research, Blackwell Publishing Ltd Oxford, UK,40,5,383-394. |
| 1 | Nagarajaram, HA., Ramakrishnan, C., (1991) , Energy minimization studies on cyclic pentapeptide , Indian Journal of Physics, ,65,Part B,449-454. |
| Title | Year | Duration | Amount(In Lakhs) | PI/I |
|---|---|---|---|---|
| Developing and implementing the University of Hyderabad-IoE-ODA Centre for Translation Research -UNITE | 2023 | One year | 100 | H. A. Nagarajaram |
| Mitochondria-mediated metabolic crosstalk between host immune cells and Mycobacterium tuberculosis metabolic mutants during M1/M2 transition: a case study to understand the metabolic interlinking in the evolution of pathogenesis (SPR/2021/000137) | 2022 | 3 | 63.79 | Prof. Sharmistha Banerjee (PI); Prof. Nagarajaram (Co-I) |
| DBT-Centre for Microbial Informatics (DBT-CMI) | 2021 | 5 | 176 | Prof. H.A.Nagarajaram (PI), Prof. Appa Rao Podile (Co-PI), Prof. Dayananda Siddavattam (Co-PI), Prof. Ch Venkataramana (Co-PI), Dr. Pankaj Singh (Co-PI), Dr. Vivek (Co-PI), Dr. Manjari Kiran (Co-PI) |
The details of the courses that are and were offered by me:
Semester: July-November: Odd Semester
| Sl.no. | Course ID | Credits | |
|---|---|---|---|
| 1 | BI501/BT405 Basics of Maths and Stats | 2 |
| 2 | PhD Course | Biostatistics-Part 1- 1 Credit | 1 |
Semester: Jan-May: Even Semester
| Sl.no. | Course ID | Course Title | Credits |
|---|---|---|---|
| 1 | SB452/BT452 | Computational Systems Biology (Theory) Units 3 and 4 - (2 credits)
| 2 |
| 2 | PhD course work | Biostatistics - Part 1 - 1 Credit | 1 |
He has so far mentored ten students for their PhDs who are currently working as postdocs/independent researchers in some of the very prestigious institutes in India, US and UK.
He is currently mentoring 7 students for their PhD doctoral work. In addition he has also guided about 30 Masters/B.Tech. students for their project works.
Invited Lectures (only recent ones since 2017) :
| Sl.no. | Title | Programme | Date |
|---|---|---|---|
| 1 | Network analysis in identification of drug targets | National workshop on drug design and discovery, Institute of Life Sciences, Bhuvaneshwar, Orissa | 20 March 2017 |
| 2 | Network representation of protein-protein interactions: What do we learn from it? | UGC Refresher course: Gave a talk on “Protein-protein interaction networks” , University of Hyderabad, Hyderabad | 24 August 2017 |
| 3 | Protein structure prediction and modelling | Training Programme on Application of Bioinformatics in Agricultural Research and Education NAARM, Hyderabad | 16 September 2017 |
| 4 | Protein protein interaction network analysis and target selection toward drug design | GIAN workshop, School of Life Sciences, University of Hyderabad, Hyderabad | 1st September 2017 |
| 5 | The Dichotomy of Hubs in Protein-Protein Interaction Networks | Inbix'17: Indian Conference on Bioinformatics 2017 Birla Institute of Scientific Research Jaipur | November 7-9, 2017 |
| 6 | Analysis of Human-viral protein-protein interaction networks | 10th National Symposium cum Workshop on “Recent Trends in Structural Bioinformatics and Computer Aided Drug Design” [SBCADD’2018] and 1st Annual Meeting of Bioinformatics and Drug Discovery Society (BIDDS), Alagappa University, Karaikudi, Tamilnadu | 20th - 23rd February, 2018 |
| 7 | Intrinsically Disordered Regions Proteins Harbouring Disease Causing Missense Mutations | BSBE Annual Winter Workshop, IIT Kanpur (Practicals) | December 7-9, 2018 |
| 8 | Amino acid substitution scoring matrices appropriate for alignment of proteins enriched with intrinsically disordered regions | 10th Annual Meeting of the Proteomics Society, India (PSI) and International Conference on “Proteomics for Cell Biology and Molecular Medicine” National Centre for Cell Science (NCCS), Pune, India | December 12th to 14th, 2018 |
| 9 | Structural characteristics of disease molecular phenotypes | OpenTox Asia 2019 IICT Hyderabad2-3 March 2019, IICT, Hyderabad | 2-3 March 2019 |
| 10 | Bioinformatics: A Tool for Understanding Life Processes at Molecular Level | CBIT, Hyderabad | 15 March 2019 |
| 11 | Protein Interactions | GIAN workshop, SLS, UoH | 16 Feb 2019 |
| 12 | Intrinsically disordered proteins and the emerging disorder-function paradigm in proteins | National workshop on Recent trends in Bioinformatics for exploratory analysis and visualisation of biological data. St. Francis College, Hyderabad | 16-18 Feb, 2020 |
| 13 | Structural Analysis of Disease causing mutations | UGC Refresher Course | 18 Nov 2020 |
| 14 | Structural and network insights into protein-protein interactions | Proteomics Society of India Invited Talk | 23 April 2021 |
| 15 | Modern trends in Bioinformatics: The story of highly connected proteins in protein-protein interaction networks | Online faculty development program (FDP) on advances in bioinformatics DBT in association with E& ICT academy, NIT, Warangal | 11 May 2021 |
| 16 | Network insights into protein-protein interactions | Workshop organised by Bioinformatics Centre (DBT), Department of Pharmaceutical Sciences and Drug Research, Punjab University, Patiala | 28 July 2021 |
| 17 | Some interesting aspects of human protein-protein interaction network | UGC Refresher course, UoH | 22 Sep 2021 |
| 18 | Some interesting aspects of human protein-protein interaction network | Faculty Development Program on Genome Engineering: Innovations and Applications GITAM university | 16 Nov 2021 |
- Elected Member, National Academy of Sciences, Allahabad
- Elected Associate Fellow, A.P. Akademy of Sciences, India.
- Life Member: Society for Biological Chemists, India
- Life Member: International Society of Computational Biology
- Nominated Member, PG Board of Studies in Bioinformatics, Pondicherry University
- UGC-Nominated Member, Advisory committee of UGC-SAP program, Centre for Bioinformatics, Pondicherry University
- Has been a special invitee of Project Advisory Committee of DST-SERB BBMM Task Force
- Member, Departmental Board of studies, Department of Biotechnology and Bioinformatics, UoH
- Member, School board of studies, School of Life Sciences, UoH
- Member, Academic Council, UoH
- Member, PhD interview committee
- Member of National Advisory Committee, National Conference on Emerging trends in Disease model systems covering various translational aspects of disease biology from 25 March to 27 March, 2019 at NCCS, Pune.
- Founding Member, Asia Pacific Bioinformatics Interaction and Networking Society (APbians), JNU, New Delhi
- Bioinformatics and Drug Discovery Society (BiDDS), Life Member & Executive Member, Alagappa University, Tamilnadu.
- Editorial Member, Bioinformation
- Review Editor, Frontiers in Medical Biotechnology- Pharmaceutical Innovations
Data bases
1. Microsatellites Analysis Server (MICAS) http://www.mcr.org.in/micas/
2. Polymorphic Simple Sequence Repeats Database (PSSRdb) (under maintenance)
3. Human Volatilome Database (HVdb) (under maintenance)
Servers
1. Imperfect Microsatellites Extraction Web server (IMEx) (http://43.227.129.132:8008/IMEX/)
2. Hierarchical Protein Fold Prediction (HPFP) (http://hpfp.cdfd.org.in)
3. Server for Prediction of functional impact of missense mutations - HANSA (under maintenance)
His research mainly focuses general and fundamental features and design principles of structures and interactions of human proteins and their disease variants. His group works in the following research areas.
Computational Systems Biology:
- Construction and analyses of spatio-temporal and context dependent (for ex: viral infection) human protein-protein interaction networks and deciphering topological roles and properties of human proteins and their interacting partners in those networks
- Drug-protein interaction networks: Topological properties of targets of approved versus withdrawn drugs
- Topological roles of products of horizontally transferred genes HTGs in PPINs
Disease Informatics
- Analyses of functional impacts of human missense mutations on protein structure, function and interactions
- Analyses of loss/gain of function mutations
- Development of novel prediction tools
- Analyses of Human Volatilome toward cancer biomarker discovery
Protein structure prediction and modelling
- Development of novel protein structure prediction tools
- Analysis of structural variability and evolution of disordered regions and investigating into “Structure-Disorder-Function” paradigm
Prokaryotic Genome Analysis
- Distribution, polymorphism, enrichment of small repetitive sequences in prokaryotic genomes
Dr. Ramesh, V. Dr. Rakesh Trivedi Dr. Rachita Halehalli | --- |
| Dr. Anupam Sinha | Institute of Clinical Molecular Biology(IKMB) Kiel University University Hospital Schleswig-Holstein Schittenhelmstr. 12 24105 Kiel, Germany email : a.sinha@ikmb.uni-kiel.de |
| Dr. Manjari Kiran | Assistant Professor, Department of systems and computational Biology, School of Life Sciences, University of Hyderabad(500046) |
| Dr.Vishal Acharya | Scientist (Fellow) Department of Biotechnology CSIR-Institute of Himalayan Bioresource Technology, Post Box No. 6, Palampur -176061 (H.P), India |
| Dr.Pankaj Kumar | Dept of Biochemistry and Molecular Genetics, School of Medicine University of Virginia Charlottesville VA, USA |
Dr. Tabrez Ahmed Dr. Sridhar Achary | California, USA Nutrition & Health Sciences, University of Nebraska–Lincoln Lincoln, USA |
| Dr.V.B.Sreenu | Weatherall Institute of Molecular Medicine Oxford, U.K |
Test
| NAME | PRESENT ADDRESS |
| Dr.Syed Asad Rahman | Prof. Thorntona's group, European Bioinformatics Institute Cambridge, U.K |
| Dr. Arun Siddarth | Larkins Fellow, School of Information Technology, Faculty of IT, Monash University |
| Dr. Suresh Babu Mudunuri | Head, Centre for Bioinformatics R'esearch, SRKR Engineering College, AP |
| Mr. Mohammad Anwaruddin | Bioinformatics Analyst Ocimum Biosolutions,Hyderabad,India |
| Mr. Gyan Raj Kumar | Associate Manager, CSC (Computer Sciences Corporation)Bangalore, India |
| Mr. P.S.N.Suresh | |
| Mr.Buddhaditta Bose | |
| Mr.Viswanath Alevoor | Software Architect Computer Associates |
| Ms.Priya Viswanathan | |
| Mr. Rajkishore Mohapatra |