Faculty Details

Faculty Details

  • Name: Prof. H.A.Nagarajaram
  • Mail: hansluohyd.ac.in
  • Contact: 040-23134561
  • Area Of Research:Computational Biology, Bioinformatics

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 BiochemistryUniversity 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, 9 students have obtained their PhD degrees and currently pursuing their career as scientists in India and abroad. Currently he is mentoring 6 PhD students. In addition, he has mentored several Masters students as well. 

He has published little over 80 articles in international peer-reviewed journals that include 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 member/chairman/coordinator of several committees within and outside the university. 

CV : Download CV

No Records Available

Students/Projects Trainees

Name Joined As Mail Contact
S Suryanarayana PhD Student surya@cdfd.org.in ---
Vakkalagadda A Ramesh PhD varamesh@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 ---
80 Ravindra Taware, Khushman Taunk, T. V.Santosh Kumar, Jorge A. M. Pereira, José S. Câmara, H. A. Nagarajaram, Gopal Chandra Kundu, Srikanth Rapole (2020) , Extracellular volatilomic alterations induced by hypoxia in breast cancer cells , Metabolomics, ,,,.
79 Hari Parapatla, Ramurthy Gudla, Guruprasad Varma Konduru, Elsin Raju Devadasu,. Hampapathula Adimurthy Nagarajaram, Manjula Sritharan, Rajagopal Subramanyam and Dayananda Siddavattam (2020) , Organophosphate hydrolase interacts with ferric-enterobactin and promotes iron uptake in association with TonB dependent transport system , Biochemical Journal, ,477,,2821-2840 IF - 4.331.
78 R. Trivedi, H.A.Nagarajaram (2020) , Substitution Scoring Matrices for Proteins - An Overview. Protein Science https://doi.org/10.1002/pro.3954 (Invited Peer reviewed Review Article; Accepted) , Protein Science, Wiley,,, IF - 3.876.
77 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.
76 Ramurthy Gudla1, Guruprasad Varma Konduru2, Hampapathalu Adimurty Nagarajaram3, and Dayananda Siddavattam (2019) , Organophosphate hydrolase interacts with Ton components and targets membrane only in presence of ExbB/ExbD complex , FEBS Letters, ,593,,581-593.
75 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,410,18,4459-4468.
74 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.
73 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,8,1,17725.
72 Chaudhary, AK., Mohapatra, R., Nagarajaram, HA., Ranganath, P., Dalal, A., 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, ,31,1,e17-e20.
71 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.
70 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,13,10,111.
69 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.
68 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.
67 Bose, Buddhaditta., Rajkumar, Gyan., Pavan, M Narendar., Devi, A RadhaRama., Nagarajaram, Hampapathalu Adimurthy., (2016) , NBSdb: New Born Screening Database , Indian Journal of Medical Informatics, ,1,1,52-59.
66 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, Multidisciplinary Digital Publishing Institute,5,1,3-55.
65 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.
64 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.
63 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.
62 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.
61 Mudunuri, Suresh B., Patnana, Sujan., Nagarajaram, Hampapathalu A., (2014) , MICdb3. 0: a comprehensive resource of microsatellite repeats from prokaryotic genomes , Database, Oxford University Press,2014,,.
60 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.
59 Sinha, Anupam., Nagarajaram, Hampapathalu Adimurthy., (2014) , Nodes occupying central positions in human tissue specific PPI networks are enriched with many splice variants , Proteomics, ,14,20,2242-2248.
58 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, ,164,11,2857-2862.
57 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, ,164,11,2793-2801.
56 Halehalli, Rachita Ramachandra., Nagarajaram, Hampapathalu Adimurthy., (2014) , Molecular principles of human virus protein–protein interactions , Bioinformatics, Oxford University Press,31,7,1025-1033.
55 Halehalli, Rachita., Nagarajaram, Hampapathalu Adimurthy., (2014) , General principles underlying viral pathogenesis in humans , F1000Research, ,5,,.
54 Acharya, Vishal., Nagarajaram, Hampapathalu A., (2013) , Response to: Statistical analysis of missense mutation classifiers , Human mutation, ,34,2,407-407.
53 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.
52 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.
51 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, Wiley Online Library,,,.
50 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,,,1-13.
49 Acharya, Vishal., Nagarajaram, Hampapathalu A., (2012) , Hansa: An automated method for discriminating disease and neutral human nsSNPs , Human Mutation, Wiley Online Library,,,.
48 Bashyam, Murali D., Chaudhary, Ajay K., Sinha, Manjari., Nagarajaram, HA., Devi, A., 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 Online Library,113,10,3122-3132.
47 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,360,1,373-382.
46 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.
45 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.
44 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.
43 Mohammad, TA., Nagarajaram, Hampapathalu Adimurthy., (2011) , A hierarchical approach to protein fold prediction. , Journal of Integrative Bioinformatics, ,8,1,185.
42 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,.
41 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.
40 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.
39 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.
38 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, ACM,,,38.
37 Acharya, V., Nagarajaram, HA., (2010) , Prediction of disease-associated single nucleotide polymorphisms mapping on to human proteins , New Biotechnology, ,,27,S23.
36 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, American Society for Biochemistry and Molecular Biology,285,8,5888-5895.
35 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.
34 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.
33 Achary, Malkaram Sridhar., Nagarajaram, Hampapathalu Adimurthy., (2008) , Comparative docking studies of CYP1b1 and its PCG-associated mutant forms , Journal of biosciences, Springer,33,5,699-713.
32 Shamim, Mohammad Tabrez Anwar., Anwaruddin, Mohammad., Nagarajaram, HA., (2007) , Support Vector Machine-based classification of protein folds using the structural properties of amino acid residues and amino acid residue pairs , Bioinformatics, Oxford Univ Press,23,24,3320-3327.
31 Mudunuri, Suresh B., Nagarajaram, Hampapathalu A., (2007) , IMEx: imperfect microsatellite extractor , Bioinformatics, Oxford University Press,23,10,1181-1187.
30 Sreenu, Vattipally B., Kumar, Pankaj., Nagaraju, Javaregowda., Nagarajaram, Hampapathalu A., (2007) , Simple sequence repeats in mycobacterial genomes , Journal of biosciences, Springer,32,1,3-15.
29 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,7,1,78.
28 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, Cell Press,91,12,4329-4339.
27 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.
26 Prasad, MD., Muthulakshmi, M., Arunkumar, KP., Madhu, M., Sreenu, VB., Pavithra, V., Bose, B., Nagarajaram, HA., Mita, K., Shimada, T., (2005) , SilkSatDb: a microsatellite database of the silkworm, Bombyx mori , Nucleic acids research, Oxford Univ Press,33,suppl 1,D403-D406.
25 Cheeran, Anoop., Babu, Suganthan R., 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, ,352,1,28.
24 Gundu, RK., Swamynathan, S., Sreenu, VB., Pavan, N., Acharya, S., Nagarajaram, HA., (2005) , Frontiers in bioinformatics research: the biodiversity issues , , Narosa Publishing House,,,.
23 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.
22 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.
21 Sreenu, Vattipally B., Alevoor, Vishwanath., Nagaraju, Javaregowda., Nagarajaram, Hampapathalu A., (2003) , MICdb: database of prokaryotic microsatellites , Nucleic acids research, Oxford Univ Press,31,1,106-108.
20 Sreenu, VB., Ranjitkumar, G., Swaminathan, S., Priya, S., Bose, B., Pavan, MN., Thanu, G., Nagaraju, J., Nagarajaram, HA., (2003) , MICAS: a fully automated web server for microsatellite extraction and analysis from prokaryote and viral genomic sequences. , Applied bioinformatics, ,2,3,165-168.
19 Nagarajaram, Hampapathalu A., Hasnain, Seyed E., (2003) , Current Status of Post-Genomics Computational Biology , Computing and Information Sciences: Recent Trends, Alpha Science Int\'l Ltd.,,,295.
18 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.
17 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.
16 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.
15 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.
14 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, Wiley Online Library,59,2,72-86.
13 Campillo, Nuria., Nagarajaram, Hampapathalu A., Ghosh, Indira., (2001) , Phosphoribosyltransferase superfamily: A comparative structural analysis , Journal of Molecular Modeling, Springer,7,4,80-89.
12 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.
11 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 Univ Press,12,12,1055-1062.
10 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.
9 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 Science,275,5,917-932.
8 Sowdhamini, R., Burke, David F., Huang, JF., Mizuguchi, Kenji., Nagarajaram, Hampapathalu A., Srinivasan, N., Steward, Robert E., Blundell, Tom L., (1998) , CAMPASS: a database of structurally aligned protein superfamilies , STRUCTURE-LONDON-CURRENT BIOLOGY LIMITED-, CURRENT BIOLOGY LTD,6,,1087-1094.
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, National Academy of Sciences,93,24,13908-13913.
5 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, Indian Academy of Sciences,20,5,591-611.
4 Saxena, Akansha., Sangwan, Rajender Singh., Mishra, Sanjay., Altschul, SF., Boguski, MS., Gish, W., Wootton, JC., Barton, GJ., Holm, L., Sander, C., (1994) , Computational studies on Ribavirin binding to RNA-dependent RNA polymerase, inducing Crimean-Congo hemorrhagic fever. , Science International, orgz,1,7,119-129.
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, ,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
DBT-Centre for Microbial Informatics (DBT-CMI) (approved by the Taskforce, DBT; awaiting financial sanction) 2020 5 200 Prof. H.A.Nagarajaram (Coordinator and 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)
Chemical and genomic approaches to investigate possible link between development of antimicrobial resistance (AMR) and pharma industry effluents 2019 2 120 Prof. Dayananda Siddavatttam (PI), Prof. H.A.Nagarajaram (Co-PI), Prof. Ch Venkataramana (Co-PI)
Nucleolus in control of breast tumor heterogeneity 2019 3 94.97 Prof. Bramanandam Manavathi (PI); Prof. H.A.Nagarajaram (Co-PI)
Exploring the Volatome of NonCommunicable Diseases as a Promising Non-Invasive and Integrating Approach for its Rapid Diagnostics. The Case Study of Cancer and Neurodegenerative Diseases 2019 3 32.11 Prof. H.A. Nagarajaram (Co-PI)

The details of the courses offered by me are as follows:

Semester: July-November:

Sl.no.Course IDCourse TitleCredits
1FN108/BT406Basics in Mathematics and Statistics (Theory)
  • Foundation course
  • M.Sc. (Biotechnology)
3 (only in 2017) 2 (2018 onwards)
2BI501Basic Mathematics and Statistics for Bioinformatics3
3Ph.D. CourseModule IV: Protein dynamics and modeling
  • Ph.D. students
6 hrs (0.5 credit)

Semester: Jan-May:

Sl.no.Course IDCourse TitleCredits
1BI 712/BI552Computational Systems Biology (Theory)
  • M.Tech (Bioinformatics)
  • M.Sc.(Systems Biology)
3(1.5 since 2019)
2BI717/BI556Computational systems biology (Practicals)
  • M.Tech (Bioinformatics)
  • M.Sc.(Systems Biology)
2(1 since 2019)

He has so far mentored nine 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 six students for their PhD doctoral work. In addition he has also guided about 30 Masters/B.Tech. students for their project works.

One PhD position is available to explore structural, functional and evolutional aspects of intrinsically disordered proteins. 

Invited Lectures (only recent ones since 2017) :

1Network analysis in identification of drug targetsNational workshop on drug design and discovery, Institute of Life Sciences, Bhuvaneshwar, Orissa20 March 2017
2Network 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, Hyderabad24 August 2017
3Protein structure prediction and modellingTraining Programme on Application of Bioinformatics in Agricultural Research and Education NAARM, Hyderabad16 September 2017
4Protein protein interaction network analysis and target selection toward drug designGIAN workshop, School of Life Sciences, University of Hyderabad, Hyderabad1st September 2017
5The Dichotomy of Hubs in Protein-Protein Interaction NetworksInbix'17: Indian Conference on Bioinformatics 2017 Birla Institute of Scientific Research JaipurNovember 7-9, 2017
6Analysis of Human-viral protein-protein interaction networks10th 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, Tamilnadu20th - 23rd February, 2018
7Intrinsically Disordered Regions Proteins Harbouring Disease Causing Missense MutationsBSBE Annual Winter Workshop, IIT Kanpur (Practicals)December 7-9, 2018
8Amino acid substitution scoring matrices appropriate for alignment of proteins enriched with intrinsically disordered regions10th 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, IndiaDecember 12th to 14th, 2018

  • 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)


1. Imperfect Microsatellites Extraction Web server (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

One PhD position available-

Project Title: structural, functional and evolutional aspects of intrinsically disordered proteins

Dr. Rakesh TrivediCDFD, Uppal Campus, Hyderabad 

Dr. Rachita Halehalli

Dr. Anupam SinhaInstitute 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 KiranAssistant Professor, Department of systems and computational Biology, School of Life Sciences, University of Hyderabad(500046)
Dr.Vishal AcharyaScientist (Fellow) Department of Biotechnology CSIR-Institute of Himalayan Bioresource Technology, Post Box No. 6, Palampur -176061 (H.P), India
Dr.Pankaj KumarDept of Biochemistry and Molecular Genetics, School of Medicine University of Virginia Charlottesville VA, USA
Dr. Sridhar AcharyNutrition & Health Sciences, University of Nebraska–Lincoln Lincoln, USA
Dr.V.B.SreenuWeatherall Institute of Molecular Medicine Oxford, U.K
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 MudunuriHead, 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