Srinivas V. Koduru, PhD, AI/ML

Director of Transcriptomics
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Bioinformatics Biomarker Discovery Liquid Biopsies AI/ML Assay Development Transcriptomics Precision Diagnostics NGS

Professional Summary

Translational research leader with 19+ years of multidisciplinary expertise spanning molecular oncology, computational genomics, and precision diagnostics. Currently directing mRNA-based liquid biopsy development achieving 100% classification accuracy across 5 cancer types. h-index: 32, 4,284+ citations, 55+ peer-reviewed publications spanning Nature Medicine, Science Translational Medicine, Blood, and Hepatology. 5 patents (4 filed 2025), active FDA 510(k) submission program. Extensive experience in NGS bioinformatics (RNA-seq, scRNA-seq, WES), AI/ML model development, and clinical biomarker validation.

Education

Certificate
AI & Machine Learning
VIT, India
2026
PhD
Cancer Biology, Phytomedicine
University of Fort Hare, South Africa
2007
MSc
Biotechnology
SRTM University, India
2003
BSc
Microbiology, Genetics, Chemistry
Osmania University, India
2001

Professional Experience

Director, Transcriptomics
Oct 2022 — Present
Wren Laboratories  ·  Branford, CT
  • Directing mRNA-based diagnostic development in CLIA/CAP-certified, GMP (ISO 7) facility
  • Built multi-gene liquid biopsy panels achieving 100% diagnostic accuracy across 5 cancer types
  • Developed AI/ML classification models (SVM, XGBoost, Neural Networks) with AUC > 0.99
  • Filed 4 patents (2025) and led FDA 510(k) submission strategy
  • Managed international CRO collaborations and automated high-throughput workflows
Assistant Professor
Mar 2019 — Oct 2022
Penn State College of Medicine  ·  Hershey, PA
  • Led independent research lab focused on cancer biomarker discovery using NGS
  • Published 15+ peer-reviewed papers in high-impact journals
  • Identified novel non-coding RNAs and extracellular vesicle signatures for early cancer detection
  • Secured research funding and mentored graduate students
Research Scientist
Nov 2015 — Feb 2019
Penn State College of Medicine  ·  Hershey, PA
  • Developed computational biomarker pipelines mining TCGA, GEO, and EMBL databases
  • Published in high-impact journals (Nature Medicine co-author)
  • Pioneered exosome-based sRNA-seq protocols for liquid biopsy research
Associate Research Scientist
Jan 2013 — Dec 2014
Yale University  ·  New Haven, CT
  • Investigated AID enzyme mechanisms in multiple myeloma pathogenesis
  • Published in Blood (journal cover article, 2012)
Postdoctoral Associate
Dec 2009 — Dec 2012
Yale University  ·  New Haven, CT
  • Characterized molecular markers in multiple myeloma bone marrow microenvironment
  • Co-authored publications in Science Translational Medicine and Blood
Postdoctoral Scholar
Feb 2007 — Dec 2009
UCLA & University of Kentucky

Patents

  1. Early Diagnosis of Pancreatic Cancer in Liquid Biopsies
    Filed July 2025  ·  Koduru, Kidd, Halim
  2. Identification of Lu-PSMA Responders via Whole Blood
    Filed May 2025  ·  Koduru, Kidd, Halim
  3. Early Diagnosis of Endometriosis in Liquid Biopsies
    Filed March 2025  ·  Koduru, Kidd, Halim
  4. Identification of Colon Cancer Biomarkers in Whole Blood
    Filed July 2025  ·  Kidd, Koduru, Halim
  5. Bioprinting of Human Pancreas-on-a-Chip Platform
    Granted 2019  ·  Koduru, Ravnic, Hospodiuk, Ozbolat  ·  US20190331662A1

Technical Skills

AI/ML & Data Science
  • Python, R
  • TensorFlow, PyTorch
  • scikit-learn, XGBoost
  • Chart.js, D3.js
  • SHAP / LIME
  • SQL / MongoDB
Genomics & Bioinformatics
  • RNA-seq, scRNA-seq, WES/WGS
  • ChIP-seq, ATAC-seq, small RNA-seq
  • STAR / HISAT2, DESeq2
  • Seurat, CellRanger
  • BWA / GATK
  • Partek Flow, Nextflow / Snakemake
  • TCGA / GEO / dbGaP
Laboratory & Clinical
  • Liquid Biopsy Assays
  • Biomarker Panel Design
  • CLIA/CAP, FDA 510(k)
  • GMP (ISO 7)
  • qPCR / dPCR
  • Flow Cytometry
  • Illumina NextSeq / MiSeq
  • LIMS, Clinical Trial Design

Publications (55 peer-reviewed  |  h-index: 32  |  4,284+ citations)

2026
1
Koduru SV, Kidd M, Pieters A, Nagel SE, Millar RP, Halim AB. “Blood-based Prostate Cancer Transcriptomics: A Comparative Study Between South African and American Cohorts.” Journal of Cancer 17(2): 384-394, 2026. NEW
DOI: 10.7150/jca.126397
2025
2
Gulati A, Mashayekhi K, Koduru SV, Imagawa D. “Clinical Utility of Serial NETest 2.0 Measurement in Surveillance of NET Patients.” The Oncologist (In review), 2025. NEW
3
Rogers CG, Koduru SV, Gulati A, Halim AB. “PROSTest, A Novel Liquid Biopsy Molecular Assay, Accurately Guides Prostate Cancer Biopsy Decision-Making.” Cancers 17(24): 3908, 2025. NEW
DOI: 10.3390/cancers17243908
2024
4
Celik N, Koduru S, Ravnic DJ, Ozbolat IT, Hayes DJ. “Post-transcriptional Modification to Modulate Progenitor Differentiation on Heterotypic Spheroids.” Tissue Engineering Part A 30(17-18): 536-549, 2024.
DOI: 10.1089/ten.TEA.2023.0279
5
Modlin IM, Kidd M, Drozdov IA, ... Koduru SV, Rahbar K. “Development of a Multigenomic Liquid Biopsy (PROSTest) for Prostate Cancer in Whole Blood.” Prostate 84(9): 850-865, 2024.
DOI: 10.1002/pros.24704
6
Ataie Z, Horchler S, Jaberi A, Koduru SV, ... Sheikhi A. “Accelerating Patterned Vascularization Using Granular Hydrogel Scaffolds and Surgical Micropuncture.” Small 20(8): 2307928, 2024.
DOI: 10.1002/smll.202307928
7
Horchler SN, Hancock PC, Sun M, ... Koduru SV, Ravnic DJ. “Vascular Persistence Following Precision Micropuncture.” Microcirculation 31(1): e12835 (Cover Page), 2024.
DOI: 10.1111/micc.12835
2023
8
Suresh D, Srinivas AN, ... Koduru SV, Santhekadur PK, Kumar DP. “AATF Inhibition Exerts Antiangiogenic Effects Against HCC.” Frontiers in Oncology 13: 1130380, 2023.
DOI: 10.3389/fonc.2023.1130380
2022
9
McLaughlin C, Datta P, Lo A, Horchler S, Ozbolat IT, Ravnic DJ, Koduru SV*. “MSC Derived EVs for Therapeutic Use and Bioengineering Applications.” Cells 11(21): 3366, 2022.
DOI: 10.3390/cells11213366
2021
10
Goldenberg D, McLaughlin C, Koduru SV, Ravnic DJ. “Regenerative Engineering: Current Applications and Future Perspectives.” Frontiers in Surgery 8: 731031, 2021.
DOI: 10.3389/fsurg.2021.731031
11
Koduru SV*, Leberfinger A, Ozbolat T, Ravnic DJ. “Navigating Genomic Landscape of hASC Derived β-cells.” Stem Cells and Development 30(23): 1153-1170, 2021.
DOI: 10.1089/scd.2021.0160
12
Banini BA, Kumar DP, ... Koduru SV, ... Sanyal AJ. “Identification of Metabolic, Transcriptomic and Molecular Signature of PNPLA3-mediated Steatohepatitis.” Hepatology 73(4): 1290-1306, 2021.
DOI: 10.1002/hep.31609
13
Hancock P, Koduru SV, Sun M, Ravnic DJ. “Induction of Scaffold Angiogenesis by Recipient Vasculature Precision Micropuncture.” Microvascular Research 134: 104121, 2021.
DOI: 10.1016/j.mvr.2020.104121
14
Koduru SV*, Elcheva I, Leberfinger AN, Ravnic DJ. “Comprehensive In Silico Analysis of mRNA and Small RNA Sequencing Data from hBM-MSCs.” Engineered Regeneration 2: 19-30, 2021.
DOI: 10.1016/j.engreg.2020.12.002
2020
15
Wu Y, Ayan B, ... Koduru SV, Ravnic DJ, ... Ozbolat IT. “Hybrid Bioprinting of Zonally Stratified Human Articular Cartilage (Cover Page).” Advanced Healthcare Materials 9(22): 2001657, 2020.
DOI: 10.1002/adhm.202001657
16
Kumar DP, Caffrey R, ... Koduru SV, ... Sanyal AJ. “Saroglitazar Improves Insulin Resistance and Steatohepatitis.” Scientific Reports 10(1): 9330, 2020.
DOI: 10.1038/s41598-020-66458-z
17
Forghani A, Koduru SV, Chen C, Leberfinger AN, Ravnic DJ, Hayes DJ. “Differentiation of CD34+/CD31− Cells into Endothelial Cells.” RETM 6: 101-110, 2020.
DOI: 10.1007/s40883-019-00093-7
2019
18
Leberfinger A, Dinda S, Wu Y, Koduru SV, ... Ozbolat T. “Bioprinting Functional Tissues.” Acta Biomaterialia 95: 32-49, 2019.
DOI: 10.1016/j.actbio.2019.01.009
19
Koduru SV*, Leberfinger AN, Pasic D, ... Ravnic DJ. “Cellular Based Strategies for Microvascular Engineering.” Stem Cell Reviews and Reports 15(2): 218-240, 2019.
DOI: 10.1007/s12015-019-09877-4
20
Wu Y, Hospodiuk M, ... Koduru SV, Ravnic DJ, Ozbolat IT. “Porous Tissue Strands.” Biofabrication 11(1): 015009, 2019.
DOI: 10.1088/1758-5090/aaec22
2018
21
Koduru SV, Sun B, Walker JM, ... Insogna KL. “CD36 and CD47-TSP-1 in Osteoclast Formation.” JBC 293(39): 15055-15069, 2018.
DOI: 10.1074/jbc.RA117.000633
22
Leberfinger AN, Hospodiuk M, ... Koduru SV, ... Ravnic DJ. “Squid Ring Teeth-coated Mesh for Abdominal Wall Repair.” PRS-GO 6(8): e1881, 2018.
DOI: 10.1097/gox.0000000000001881
23
Koduru SV*, Leberfinger AN, Kawasawa YI, ... Ravnic DJ. “Non-coding RNAs in Various Stages of Liver Disease.” Scientific Reports 8(1): 7967, 2018.
DOI: 10.1038/s41598-018-26360-1
2017
24
Koduru SV*, Leberfinger AN, Ravnic DJ. “Small Non-coding RNA Abundance in Adrenocortical Carcinoma.” J Genomics 5: 99-118, 2017.
DOI: 10.7150/jgen.22060
25
Ravnic DJ, Leberfinger AN, Koduru SV, ... Ozbolat IT. “Transplantation of Bioprinted Tissues and Organs.” Annals of Surgery 266(1): 48-58, 2017.
DOI: 10.1097/sla.0000000000002141
26
Koduru SV*, Tiwari AK, Hazard SW, Mahajan M, Ravnic DJ. “Small RNAs in Colorectal Cancer.” J Genomics 5: 16-31, 2017.
DOI: 10.7150/jgen.18856
27
Koduru SV*, Tiwari AK, Leberfinger AN, ... Ravnic DJ. “Comprehensive NGS Data Analysis of ncRNAs in Triple Negative Breast Cancer.” J Cancer 8(4): 578-596, 2017.
DOI: 10.7150/jca.17633
28
Leberfinger AN, Ravnic DJ, Rayne R, Rizk E, Koduru SV, Hazard SW. “ASCs in Peripheral Nerve Regeneration.” Current Surgery Reports 5: 5, 2017.
DOI: 10.1007/s40137-017-0169-2
29
Hazard SW, Zwemer CF, Mackay DR, Koduru SV, Ravnic DJ, Ehrlich PH. “Topical Vanadate Enhances Wound Repair.” J Surgical Research 207: 102-107, 2017.
DOI: 10.1016/j.jss.2016.08.078
2016
30
Das R*, Strowig T*, Verma R*, Koduru S, ... Dhodapkar MV. “Pre-neoplastic Plasma Cell Growth in Humanized Mice.” Nature Medicine 22(11): 1351-1357, 2016.
DOI: 10.1038/nm.4202
31
Asgharpour A, Cazanave S, ... Koduru SV, ... Sanyal AJ. “Preclinical NASH Mouse Model.” J Hepatology 65(3): 579-588, 2016.
DOI: 10.1016/j.jhep.2016.05.005
2015
32
Sehgal K, Das R, Zhang L, ... Koduru S, ... Dhodapkar MV. “Pomalidomide in Lenalidomide-refractory Myeloma.” Blood 125(26): 4042-4051, 2015.
DOI: 10.1182/blood-2014-11-611426
33
Mittal R, Agrawal A, Tourne M, Koduru SV, ... Tiwari AK. “NP-Based Therapeutics for Cancer Chemoresistance.” NanoBioMedicine Vol 4, 2015.
2013
34
Sehgal K, Guo X, Koduru S, ... Dhodapkar KM. “pDCs, IFN Signaling in Childhood ITP.” Sci Transl Med 5: 193ra89, 2013.
DOI: 10.1126/scitranslmed.3006277
2012
35
Koduru S, Wong E, Strowig T, ... Dhodapkar MV. “DC-mediated AID-dependent Genomic Instability in Myeloma (Cover Page).” Blood 119(10): 2302-2309, 2012.
DOI: 10.1182/blood-2011-08-376236
2010
36
Koduru S, Kumar R, Srinivasan S, Damodaran C. “Notch-1 Inhibition by Withaferin-A in Colon Carcinogenesis.” Mol Cancer Ther 9(1): 202-210, 2010.
DOI: 10.1158/1535-7163.MCT-09-0771
37
Yerramreddy TR, Penthala NR, Koduru S, Damodaran C, Crooks PA. “Aplysinopsin Analogs: Synthesis and Anti-proliferative Activity.” Bioorganic Med Chem 18: 3570-3574, 2010.
DOI: 10.1016/j.bmc.2010.03.054
38
Srinivasan S, Kumar R, Koduru S, Chandramouli A, Damodaran C. “Inhibiting TNF-mediated Signaling in Prostate Cancer.” Apoptosis 15(2): 153-161, 2010.
DOI: 10.1007/s10495-009-0416-9
39
Jimoh FO, Adedapo AA, Aliero AA, Koduru S, Afolayan AJ. “Amaranthus asper Activities.” Open Complementary Med J 2: 7-14, 2010.
2009
40
Srinivasan S, Koduru S, Kumar R, ... Damodaran C. “Diosgenin Targets Akt in Breast Cancer.” Int J Cancer 125(4): 961-967, 2009.
DOI: 10.1002/ijc.24419
41
Koduru S, Srinivasan S, Kumar R, Rohr J, Damodaran C. “Potent Herbal Molecule for Breast Cancer.” BMC Cancer 9(1): 41, 2009.
DOI: 10.1186/1471-2407-9-41
42
Adedapo AA, Koduru S, Jimoh FO, Masika PJ, Afolayan AJ. “Medicinal Potentials of Buddleja saligna.” BMC Complementary Med 9: 21, 2009.
DOI: 10.1186/1472-6882-9-21
2008
43
Adedapo AA, Jimoh FO, Koduru S, Afolayan AJ, Masika PJ. “Antibacterial/Antioxidant Properties of Calpurnia aurea.” BMC Complementary Med 8: 53, 2008.
DOI: 10.1186/1472-6882-8-53
44
Adedapo AA, Jimoh FO, Koduru S, Masika PJ, Afolayan AJ. “Medicinal Potentials of Halleria lucida.” Bioresource Technology 99(10): 4158-4163, 2008.
DOI: 10.1016/j.biortech.2007.08.066
45
Adedapo AA, Koduru S, Jimoh FO, Masika PJ, Afolayan AJ. “Ethnoveterinary Survey — Antibacterial Activity.” Recent Progress in Medicinal Plants, 2008.
2007
46
Koduru S, Grierson DS, van de Venter M, Afolayan AJ. “Anticancer Activity of Solanum aculeastrum.” Pharm Biology 45(8): 613-618, 2007.
DOI: 10.1080/13880200701538690
47
Koduru S, Grierson DS, Afolayan AJ. “Ethnobotanical Information — Cancer Treatment.” Current Science 92(7): 906-908, 2007.
48
Koduru S, Jimoh FO, Afolayan AJ. “Antioxidant Activity of Steroid Alkaloids.” J Pharmacol Toxicol 2(2): 160-167, 2007.
49
Afolayan AJ, Jimoh FO, Sofidiya MO, Koduru S, Lewu FB. “Medicinal Potential of Arctotis arctotoides.” Pharm Biology 45(6): 486-493, 2007.
DOI: 10.1080/13880200701389383
2006
50
Koduru S, Grierson DS, Afolayan AJ. “Antimicrobial Activity of Solanum aculeastrum.” Pharm Biology 44(4): 283-286, 2006.
DOI: 10.1080/13880200600714145
51
Koduru S, Grierson DS, van de Venter M, Afolayan AJ. “In Vitro Antitumour Activity of Solanum aculeastrum.” Int J Cancer Research 2(4): 397-402, 2006.
52
Koduru S, Grierson DS, Aderogba MA, Eloff JN, Afolayan AJ. “Antioxidant Activity of Solanum aculeastrum Berries.” Int J Pharmacol 2(2): 262-264, 2006.
53
Koduru S, Asekun OT, Grierson DS, Afolayan AJ. “Volatile Compounds from Solanum aculeastrum.” J Essential Oils-Bearing Plants 9(1): 65-69, 2006.
DOI: 10.1080/0972060X.2006.10643472
54
Koduru S, Grierson DS, Afolayan AJ. “Foliar Micro-morphology of Solanum aculeastrum.” Pakistan J Biological Sciences 9(6): 1056-1060, 2006.
55
Koduru S, Grierson DS, Afolayan AJ. “Seed Germination of Solanum aculeastrum.” Asian J Plant Sciences 5(2): 353-356, 2006.

Conferences & Abstracts

2025
1
AACR Pancreatic Cancer 2025 — Novel Liquid Biopsy Gene Panel for PDAC.
DOI: 10.1158/1538-7445.PANCREATIC25-B068
2
AMP Annual 2025 — Familial Small Intestinal NETs via WB DNA Sequencing.
3
AMP Annual 2025 — Exploring the Saliva Metagenome for Infectious Disease.
4
AMP Annual 2025 — mRNA Biomarkers for PDAC via Data Mining.
5
AACR Annual 2025 — mRNA Expression in Paired Saliva and Blood.
DOI: 10.1158/1538-7445.AM2025-4575
6
AACR Annual 2025 — Gene Signature to Forecast Lu-PSMA Response.
DOI: 10.1158/1538-7445.AM2025-2354
7
AACR Annual 2025 — Comparative Gene Signature NEPC vs CRPC.
DOI: 10.1158/1538-7445.AM2025-693
2024
8
AACR Liquid Biopsy 2024 — Geographical Differences in Prostate Cancer Gene Expression.
DOI: 10.1158/1557-3265.LIQBIOP24-B062
9
AACR Liquid Biopsy 2024 — Saliva for Cancer Biomarker Discovery.
DOI: 10.1158/1557-3265.LIQBIOP24-B061
10
NGDx Summit 2024 — Saliva as Viable Liquid Biopsy Option.
11
EASL Liver Cancer Summit 2024 — Novel Circulating Exosomal miRNA-mRNA Network.
DOI: 10.1016/S0168-8278(24)01576-9
2023
12
AIChE 2023 — Patterning Neovascularization Using Hybrid Hydrogel Scaffolds.
13
AASLD 2023 — Circulating Exosomal miRNAs in Severe Alcohol Associated Hepatitis.
DOI: 10.1097/hep.0000000000000580
14
AAPS 2023 — Micropuncture Induced Scaffold Vascularization.
DOI: 10.1097/01.GOX.0000934496.23268.06
2022
15
IFATS 2022 — Transcriptomic Variations of Endothelial Progenitor Cells. (Oral)
16
AACR Annual 2022 — microRNA/mRNA Integrated Analysis of Multiple Myeloma.
2021
17
NESPS 2021 — Long-term Angiogenic Benefits of Precision Micropuncture.
18
Academic Surgical Congress 2021 — Microsurgical Modulation of Immune Response.
2020
19
ISSCR 2020 — Genetic Landscape of hBM-MSCs (2 abstracts).
20
PSRC 2020 — Microsurgical Induced Angiogenesis. (Oral)
DOI: 10.1097/01.GOX.0000667344.62145.fa
2018
21
IFATS 2018 — Molecular Evaluation of Purified Beta Cells from ASCs. (Oral)
22
AASLD 2018 — Multiple Liver Meeting Presentations (6 abstracts).
DOI: 10.1002/hep.30257
2017
23
AACR 2017 — Differentially Expressed Small ncRNAs in TNBC.
DOI: 10.1158/1538-7445.AM2017-3499
24
AACR 2017 — Small ncRNAs in CRC & Clear Cell RCC (3 abstracts).
DOI: 10.1158/1538-7445.AM2017-4447
2015
25
ASH 2015 — Humanized Mouse Model of Myeloma. (Oral)
DOI: 10.1182/blood.V126.23.22.22
2012
26
AACR 2012 — AID & Genomic Instability in Myeloma. (AACR-Aflac Award)
DOI: 10.1158/1538-7445.AM2012-309
2009
27
ISGIO 2009 — Notch and Akt/mTOR Signaling. (Educational Grant)
28
ECCO/ESMO 2009 — Withaferin-A in Prostate and Colon Cancer.
29
AACR/SBUR 2009 — Targeting Notch Signaling in Colon Cancer.
2008
30
SBUR/AACR 2008 — FOXO3a Regulates Par-4. (Travel Award)
2006
31
SAAB 2006 — Anticancer Property of Solanum aculeastrum. (Oral)

Professional Memberships

AACR American Association for Cancer Research
AMP Association for Molecular Pathology
ISSCR International Society for Stem Cell Research
ASH American Society of Hematology
IFATS International Federation for Adipose Therapeutics and Science