Chittibabu (Babu) Guda, PhD

Professor & Chief Bioinformatics and Research Computing Officer


Department of Genetics, Cell Biology and Anatomy
985805 Nebraska Medical Center
Omaha, NE 68198-5805

Lab Website
Curriculum Vitae (PDF)


PhD, Molecular Biology, Auburn University, 1997
Post-doc, Computational Biology, University of California at San Diego, 2001

Academic Appointments:
Director, Bioinformatics and Systems Biology Core Facility, UNMC
Director, Bioinformatics and Systems Biology Doctoral Program, UNMC

Our laboratory nurtures a wide range of research projects related to Genomics, Bioinformatics, Systems Biology and Personal Medicine.  The major research projects in my laboratory can be grouped into three broad areas:  (i) Development of novel algorithms for analyzing different types of biomolecular data, followed by experimental validation and development of software and web application tools; (ii) Building data analysis pipelines for processing a variety of high-throughput ‘omics’ datasets (ExomeSeq, RNASeq, ChIPseq, methylation data, miRNA arrays and proteomics data); and (iii) cancer genomics projects that involve integrative data analysis of molecular data across large populations, identification of molecular subtypes of cancers and functional characterization of genes and gene products identified from these studies.  Some of the current research projects in my lab include analysis of breast, pancreatic and glioblastoma cancer genomics data obtained from The Cancer Genome Atlas (TCGA) project, development of novel tools for detecting fusion genes and tumor heterogeneity, and metagenomic profiling of human microbiomes.  For more details on specific research projects, please visit our laboratory webpage.

Our laboratory also manages the Bioinformatics and Systems Biology Core Facility at UNMC.  The Core provides services on a pay-per-use basis to over 60 independent investigators, most of whom are NIH funded.  Click here for more details on the type of services offered through the core.  The Core is also a part of several collaborative projects on campus that include supporting the Data Coordination Center for National NeuroAIDS Consortium and Bioinformatics Core for the INBRE network.

I serve on the advisory board for Worlds of Connections, an NIH-funded project which promotes understanding of network science among members of underrepresented minority communities to support diversity in bio-behavioral and biomedical careers.  To learn more, visit

Publications listed in PubMed


1.*Shakyawar S, *Mishra NK, *Vellichirammal NN, Cary L, Helikar T, Powers R, Oberley-Deegan RE, Berkowitz D, Bayles K, Singh VK, Guda C. A review of radiation-induced alterations of multi-omic profiles, radiation injury biomarkers, and countermeasures. Radiation Research, (2023) doi: 10.1667/RADE-21-00187.1. PMID: 36368026 
2.*Vellichirammal N, *Albahrani A, Guda C. Fusion gene recurrence in non-small cell lung cancers and its association with cigarette smoke exposure Translational Lung Cancer Research, 11:2022-2039. PMID: 36386463 
3.*Shakyawar S, *Siddesh S, Guda C. mintRULS: Prediction of miRNA-Targets interactions using regularized least square method. Genes 13:1528. PMID: 36140696. PMCID: PMC9498445. 
4.*Tan YD, Guda C. (2022) NBBt-test: a versatile method for differential analysis of multiple types of RNA-seq data. Scientific Reports. 12:12833. doi: 10.1038/s41598-022-15762-x. PMID: 35896555, PMCID: PMC9329447 
5.*Avuthu N, Guda C. (2022) Meta-analysis of Altered Gut Microbiota Reveals Microbial and Metabolic Biomarkers for Colorectal Cancer Microbiology Spectrum 2022:e0001322. PMID: 35766483; PMCID: PMC9431300. 
6.*Veerappa A, Pendyala G, Guda C. (2021) A systems omics-based approach to decode substance use disorders and neuroadaptations, Neuroscience and Biobehavioral Reviews, 130:61-80. PMID: 34411560. PMCID: PMC8511293. 
7.*Southekal S, *Mishra NK, Guda C. (2021) Pan-cancer analysis of human kinome gene expression and promoter DNA methylation identifies prognostic biomarkers in multiple cancers. Cancers 13:1189. PMID: 33801837; PMCID: PMC8001681. 
8.*Cornish A, Roychoudhury S, Sarma K, Pramanik S, Bhakat K, Dudley A, Guda C. (2020) Red Panda: a novel method for detecting variants in single-cell RNA sequencing, BMC Genomics 21(S11):830. PMID: 33372593; PMCID: PMC7771073. 
9.*Vellichirammal NN, *Albahrani A, *Banwait JK, *Mishra NK, Li Y, Roychoudhury S, King MJ, Mirza S, Bhakat KK, Band V, Joshi SS, Guda C. (2020) Pan-cancer analysis reveals the diverse landscape of novel sense and antisense fusion transcripts. Molecular Therapy Nucleic Acids, 19:1379-98. PMID: 32160708; PMCID: PMC7044684. 
10.*Mishra NK, *Siddesh S, Guda C. (2019) Survival analysis of multi-omics data identifies potential prognostic markers of pancreatic ductal adenocarcinoma. Frontiers in Genetics, 10:624.  PMID: 31379917; PMCID: PMC6659773. 
11.*Mishra N, Guda C. (2017) Integrative analysis of genome-wide methylation and expression in pancreatic adenocarcinoma, Oncotarget, 8:28990-29012. PMID: 28423671; PMCID: PMC5438707. 
12.*Li Y, Heavican TB, *Vellichirammal NN, Iqbal J, Guda C. (2017) ChimeRScope: a novel alignment-free algorithm for fusion gene prediction using paired-end RNA-Seq data, Nucleic Acids Res. 45:e120. PMID: 28472320; PMCID: PMC5737728. 
13.*Vural S, *Wang X, Guda C. (2016) Classification of breast cancer patients using somatic mutation profiles and machine learning approaches, BMC Systems Biology 10 Suppl 3:62. PMID: 27587275; PMCID: PMC5009820. 
14.*Srinivasan SM, Guda C. (2013) MetaID: A novel method for identification and quantification of metagenomic samples. BMC Genomics, 2013;14 Suppl 8(Suppl 8):S4. doi: 10.1186/1471-2164-14-S8-S4. Epub 2013 Dec 9. PMID: 24564518; PMCID: PMC4042266. 
15.*King B, Guda C. (2007) ngLOC: An n-gram based Bayesian method for estimating the subcellular proteomes of eukaryotes. Genome Biology, 2007;8(5):R68. doi: 10.1186/gb-2007-8-5-r68. PMID: 17472741; PMCID: PMC1929137.