Foster JW, Wahlin K, Adams SM, Birk DE, Zack DJ, Chakravarti S. Cornea organoids from human induced pluripotent stem cells. Sci Re. 2017 Jan 27;7:41286. doi: 10.1038/srep41286. PubMed PMID: 28128337


Frikeche J, Maiti G, Chakravarti S. Small leucine-rich repeat proteoglycans in corneal inflammation and wound healing. Exp Eye Res. 2016 Oct;151:142-9. doi: 10.1016/j.exer.2016.08.015. Review. PubMed PMID: 27569372.

Dupuis LE, Doucette L, Rice AK, Lancaster AE, Berger MG, Chakravarti S, Kern CB. Development of myotendinous-like junctions that anchor cardiac valves requires fibromodulin and lumican. Dev Dyn. 2016 Oct;245(10):1029-42. doi:10.1002/dvdy.24435. PubMed PMID: 27503167; PubMed Central PMCID: PMC5026634.

Stasiak M, Boncela J, Perreau C, Karamanou K, Chatron-Colliet A, Proult I, Przygodzka P, Chakravarti S, Maquart FX, Kowalska MA, Wegrowski Y, Brézillon S. Lumican Inhibits SNAIL-Induced Melanoma Cell Migration Specifically by Blocking MMP-14 Activity. PLoS One. 2016 Mar 1;11(3):e0150226. doi:10.1371/journal.pone.0150226. eCollection 2016. PubMed PMID: 26930497.



Hultgårdh-Nilsson A, Borén J, Chakravarti S. The small leucine-rich repeat proteoglycans in tissue repair and atherosclerosis. J Intern Med. 2015 Nov;278(5):447-61. doi: 10.1111/joim.12400. Review. PubMed PMID: 26477596; PubMed Central PMCID: PMC4616156.

Gowda RN, Redfern R, Frikeche J, Pinglay S, Foster JW, Lema C, Cope L, Chakravarti S. Functions of Peptidoglycan Recognition Proteins (Pglyrps) at the Ocular Surface: Bacterial Keratitis in Gene-Targeted Mice Deficient in Pglyrp-2, -3 and -4. PLoS One. 2015 Sep 2;10(9):e0137129. PubMed PMID: 26332373; PubMed Central PMCID: PMC4558058.

Dupuis LE, Berger MG, Feldman S, Doucette L, Fowlkes V, Chakravarti S, Thibaudeau S, Alcala NE, Bradshaw AD, Kern CB. Lumican deficiency results in cardiomyocyte hypertrophy with altered collagen assembly. J Mol Cell Cardiol. 2015 Jul;84:70-80. doi: 10.1016/j.yjmcc.2015.04.007. Epub 2015 Apr 15. PubMed PMID: 25886697; PubMed Central PMCID: PMC4468017.

Murthy KR, Rajagopalan P, Pinto SM, Advani J, Murthy PR, Goel R, Subbannayya Y, Balakrishnan L, Dash M, Anil AK, Manda SS, Nirujogi RS, Kelkar DS, Sathe GJ, Dey G, Chatterjee A, Gowda H, Chakravarti S, Shankar S, Sahasrabuddhe NA, Nair B, Somani BL, Prasad TS, Pandey A. Proteomics of human aqueous humor. OMICS. 2015 May;19(5):283-93. doi: 10.1089/omi.2015.0029. PubMed PMID: 25933257.



Foster J, Wu WH, Scott SG, Bassi M, Mohan D, Daoud Y, Stark WJ, Jun AS, Chakravarti S. Transforming growth factor β and insulin signal changes in stromal fibroblasts of individual keratoconus patients. PLoS One. 2014 Sep 23;9(9):e106556. doi: 10.1371/journal.pone.0106556. eCollection 2014. PubMed PMID: 25247416; PubMed Central PMCID: PMC4172437.

Steinhart MR, Cone-Kimball E, Nguyen C, Nguyen TD, Pease ME, Chakravarti S, Oglesby EN, Quigley HA. Susceptibility to glaucoma damage related to age and connective tissue mutations in mice. Exp Eye Res. 2014 Feb;119:54-60. doi:10.1016/j.exer.2013.12.008. Epub 2013 Dec 22. PubMed PMID: 24368172.

Chen S, Young MF, Chakravarti S, Birk DE. Interclass small leucine-rich repeat proteoglycan interactions regulate collagen fibrillogenesis and corneal stromal assembly. Matrix Biol. 2014 Jan 18. pii: S0945-053X(14)00005-5. doi:10.1016/j.matbio.2014.01.004. PubMed PMID: 24447998.



Goel R, Murthy KR, Srikanth SM, Pinto SM, Bhattacharjee M, Kelkar DS, Madugundu AK, Dey G, Mohan SS, Krishna V, Prasad TsK, Chakravarti S, Harsha H, Pandey A. Characterizing the normal proteome of human ciliary body. Clin Proteomics. 2013 Aug 1;10(1):9. doi: 10.1186/1559-0275-10-9. PubMed PMID: 23914977; PubMed Central PMCID: PMC3750387.

Chaerkady, R., Shao, H., Scott, S-G., Pandey, A., Jun, A.S., Chakravarti, S. The keratoconus corneal proteome: loss of epithelial integrity and stromal degeneration. J. Proteomics., 2013 Jul 11;87:122-31. doi:10.1016/j.jprot.2013.05.023. Epub 2013 May 29. PubMed PMID: 23727491; PubMedCentral PMCID: PMC3721369.

Meng H, Matthaei M, Ramanan N, Grebe R, Chakravarti S, Speck CL, Kimos M, Vij  N, Eberhart CG, Jun AS. L450W and Q455K Col8a2 Knock-in Mouse Models of Fuchs Endothelial Corneal Dystrophy Show Distinct Phenotypes and Evidence for Altered Autophagy. Invest Ophthalmol Vis Sci. 2013 Feb 19. doi:pii: iovs.12-11021v1. 10.1167/iovs.12-11021. PubMed PMID: 23422828.

Shao H, Scott SG, Nakata C, Hamad AR, Chakravarti S. Extracellular matrix protein lumican promotes clearance and resolution of Pseudomonas aeruginosa keratitis in a mouse model. PLoS One. 2013;8(1):e54765. doi: 10.1371/journal.pone.0054765. Epub 2013 Jan 24. PubMed PMID: 23358433; PubMed Central PMCID: PMC3554612.

Shao H, Lee S, Gae-Scott S, Nakata C, Chen S, Hamad AR, Chakravarti S. Extracellular matrix lumican promotes bacterial phagocytosis and Lum-/- mice show increased Pseudomonas aeruginosa lung infection severity. J Biol Chem. 2012 Aug 3. PubMed PMID: 22865855  PMCID: 3476255.



Jun AS, Meng H, Ramanan N, Matthaei M, Chakravarti S, Bonshek R, Black GCM, Grebe R, Kimos M. An Alpha 2 Collagen VIII Transgenic Knock-in Model of Fuchs Endothelial Corneal Dystrophy Shows Early Endothelial Cell Unfolded Protein Response and Apoptosis. Hum. Mol. Gen., 2012 Jan 15;21(2):384-93. Epub 2011 Oct 14.PMID: 22002996 PMCID: 3276279.



Kelliher C, Chakravarti S, Vij N, Mazur S, Stahl PJ, Engler C, Matthaei M, Yu SM, Jun AS. A Cellular Model for the Investigation of Fuchs’ Endothelial Corneal Dystophy. Experimental Eye Research, 2011 Dec;93(6):880-8. Epub 2011 Oct 18. PMID:22020132 PMCID: 3225702.

Delalande A, Bouakaz A, Renault G, Tabareau F, Kotopoulis S, Midoux P, Arbeille B, Uzbekov R, Chakravarti S, Postema M, Pichon C. Ultrasound and microbubble-assisted gene delivery in Achilles tendons: Long lasting gene expression and restoration of fibromodulin KO phenotype. J Control Release. 2011 Aug 23. PMID: 21888933.

Zuoxiang Xiao Z, Mohamood AS, Sophia Uddin S, Hiroaki Kimura H, Caturegli P, Womer KL, Huang Y,  Jie C, Chakravarti S, Schneck JP, Yagita H and Hamad AR. Inhibition of Fas ligand unmasks a potent role for IL-10 in restricting the ability of diabetogenic T cells to cause insulitis. The American J. Patholology, 2011 Aug;179(2):725-32. PMID: 21718680 PMCID: 3157218.

Shao, H, Chaerkady, R, Chen, S, Sneha, Pintoc, M, Sharma, R, Delanghe,B, Birk, D, Pandey, A  and Chakravarti, S. Proteome profiling of wild type and lumican-deficient mouse corneas. J Proteomics. 2011 May 17.  PMID: 21616181 PMCID: 3163732.

Lohr, K, Sardana, H, Lee, S, Wu, F, Huso, DL, Hamad, AR, Chakravarti, S. Extracellular matrix protein lumican regulates inflammation in a mouse model of colitis. Inflamm Bowel Diseases, 2011 Apr 11. doi: 10.1002/ibd.21713.  PMID: 21484968; PubMed Central PMCID: 3135758.

Jun AS, Cope L, Speck S, Feng, X, Lee, S, Meng H, Hamad, AR, and Chakravarti S. Subnormal Cytokine Profile in the Tear Fluid of Keratoconus Patients. PLoS ONE, 2011 Jan 27;6(1):e16437. PMID: 21298010 PMCID: 3029330.

Engler, C, Chakravarti, S., Doyle  J, Eberhart CG, Meng H, Stark WJ, Kelliher C,  Jun, AS. TGF β Signaling Pathway Activation in Keratoconus. American J. Ophthal., 2011 Feb 8. PMID: 21310385 PMCID: 3079764.



Chen S, Oldberg A, Chakravarti S, Birk DE. Fibromodulin Regulates Collagen Fibrillogenesis During Peripheral Corneal Development. Dev Dyn. 2010 Mar; 239:844-54.PMID: 20108350 PMCID: 2965449.



Lee S, Bowrin K, Hamad AR, Chakravarti S. Extracellular matrix lumican deposited on the surface of neutrophils promotes migration by binding to beta 2 integrin. J Biol Chem. 2009 284:23662-9. PMID: 19531489 PMCID: 2749141.

Ghosh A, Lee S, Chakravarti S. A novel antimicrobial peptidoglycan recognition protein in the cornea. Invest Ophthalmol Vis Sci. 2009. 50:4185-91 PMID: 19387073 PMCID: 3052780.



Wu F, Zikusoka M, Trindade A, Dassopoulos T, Harris ML, Bayless TM, Brant SR, Chakravarti S, Kwon JH. MicroRNAs are Differentially Expressed and Alter Expression of Macrophage Inflammatory Peptide-2alpha. Gastroenterology. 2008 Nov; 135:1624-1635.  PMID: 18835392.

Mohamood AS, Bargatze D, Xiao Z, Jie C, Yagita H, Ruben D, Watson J, Chakravarti S, Schneck JP, Hamad AR. Fas-mediated apoptosis regulates the composition of peripheral alphabeta T cell repertoire by constitutively purging out double negative T cells. PLoS ONE. 2008; 3:e3465. PMID: 18941614 PMCID: 2565807.

Garagorri N, Fermanian S, Thibault R, Ambrose WM, Schein OD, Chakravarti S, Elisseeff J. Keratocyte behavior in three-dimensional photopolymerizable poly(ethylene glycol) hydrogels. Acta Biomater. 2008 Sep; 4:1139-47. PMID: 18567550.

Wu F, Lee S, Schumacher M, Jun A, Chakravarti S. Differential gene expression patterns of the developing and adult mouse cornea compared to the lens and tendon. Exp Eye Res. 2008 Sep; 87:214-25.PMID: 18582462 PMCID: 3043597.



Wu F, Vij N, Roberts L, Lopez-Briones S, Joyce S, Chakravarti S. A novel role of the lumican core protein in bacterial lipopolysaccharide-induced innate immune response. J Biol Chem. 2007; 282: 26409-26417. PubMed PMID:17616530.

Wu F, Chakravarti S. Differential Expression of Inflammatory and Fibrogenic Genes and Their Regulation by NF-κB Inhibition in a Mouse Model of Chronic Colitis. J Immunol. 2007; 179: 6988-7000. PMID:17982090.

Wu F, Dassopoulos T, Cope L, Brant SR, Harris M, Maitra M, Bayless TM, Parmigiani G, Chakravarti S. Genome-wide gene expression differences between Crohn’s and ulcerative colitis from endoscopic pinch biopsies: insights into distinctive pathogenesis. Inflamm Bowel Diseases, 2007; 13:807-821. PMID: 17262812.

Suh LH, Zhang C, Chuck RS, Stark WJ, Naylor S, Binley K, Chakravarti S, Jun AS. Cryopreservation and lentiviral-mediated genetic modification of human primary cultured corneal endothelial cells. Invest Ophthalmol Vis Sci. 2007. 48: 3056-3061. PMID: 17591873.



Chakravarti S, Zhang G, Chervoneva I, Roberts L, Birk D.  Collagen fibril assembly during postnatal development and dysfunctional regulation in the lumican-deficient murine cornea. Dev Dyn. 2006; 235:2493-2506. PubMed PMID: 16786597.

Jun AS, Chakravarti S, Edelhauser HF, Kimos M. Aging Changes of Mouse Corneal Endothelium and Descemet’s Membrane. Exp Eye Res. 2006:83:890-896. PubMed PMID: 16777092.

Beecher N, Chakravarti S, Joyce S, Meek KM, Quantock AJ. Neonatal development of the corneal stroma in wild-type and lumican-null mice. Invest Ophthalmol Vis Sci. 2006; 47:146-50. PubMed PMID: 16384956.



Vij N, Roberts L, Joyce S, Chakravarti S. Lumican regulates corneal inflammatory responses by modulating Fas-Fas ligand signaling. Invest Ophthalmol Vis Sciences.  2005; 46: 88- 95. PubMed PMID: 15623759.



Vij N, Roberts L, Joyce S, Chakravarti S. Lumican suppresses cell proliferation and aids Fas-Fas ligand mediated apoptosis: implications in the cornea. Exp Eye Res. 2004; 78:957-71. PubMed PMID: 15051477.

Chakravarti S, Wu F, Vij N, Roberts L, Joyce S. Microarray studies reveal macrophage-like function of stromal keratocytes in the cornea. Invest Ophthalmol Vis Sci. 2004; 45:3475-84. PubMed PMID: 15452052.



Lawrance IC, Wu F, Leite AZA, Willis J,West GA, Fiocchi C, Chakravarti S. A murine model of chronic inflammation-induced intestinal fibrosis down regulated by antisense NF-κB. Gastroenterology. 2003; 125: 1750-1761. PubMed PMID: 14724828.

Troup S, Njue C, Kliewer EV, Parisien M, Roskelley C, Chakravarti S, Roughley PJ, Murphy LC, Watson PH. Reduced expression of small leucine-rich proteoglycans, lumican and decorin, is associated with poor outcome in node negative invasive breast cancer. Clinical Cancer Research. 2003; 9:207-214.

Song J, Lee Y-G, Houston J, Petroll WM, Chakravarti S, Cavanagh HD, Jester JV. Neonatal Corneal Stromal Development in the Normal and Lumican Knockout Mouse. Invest Ophthalmol Vis Sci. 2003; 44:548-557.

Chakravarti S, Paul J, Roberts L, Oldberg A, Birk DE. Ocular and scleral alterations in gene-targeted lumican-fibromodulin double-null mice. Invest Ophthalmol Vis Sci. 2003; 44(6):2422-32.



Jepsen K, Wu F, Peragallo JH, Paul J, Roberts L, Ezura Y, Oldberg A, Birk DE, Chakravarti S.  A syndrome of joint laxity and impaired tendon integrity in lumican- and fibromodulin-deficient mice. J Biol Chem. 2002; 277:35532-35540. PubMed PMID: 12089156.



Quantock AJ, Meek KM, Chakravarti S. An X-ray diffraction investigation of corneal structure in lumican-deficient mice. Invest Ophthalmol Vis Sci. 2001;  42: 1750-1756.

Jester JV, Ghee Lee Y, Li J, Chakravarti S, Paul J, Petroll WM, Dwight Cavanagh H. Measurement of corneal sub layer thickness and transparency in transgenic mice with altered corneal clarity using in vivo confocal microscopy. Vision Res. 2001; 41: 1283-90.

Lawrance IC, Fiocchi C, Chakravarti S. Ulcerative colitis and Crohn’s disease: distinctive gene expression profiles and novel susceptibility candidate genes. Hum Mol Genet. 2001 Mar 1;10(5):445-56. PubMed PMID: 11181568.



Ezura Y, Chakravarti S, Oldberg A, Chervoneva I, Birk DE. Differential expression of lumican and fibromodulin regulate collagen fibrillogenesis in developing mouse tendons. J Cell Biol. 2000 ; 151: 779-787. PubMed Central PMCID: PMC2169450.

Chakravarti S, Petroll WM, Hassell JH, Jester J, Lass JH, Paul J, Birk DE. Corneal opacity in lumican-null mice: defects in collagen fibril structure and packing in the posterior stroma. Invest Ophthalmol. Vis. Sci. 2000; 41(11):3365-3373.

Chakravarti S, Petroll WM, Hassell JH, Jester J, Lass JH, Paul J, Birk DE. Corneal opacity in lumican-null mice: defects in collagen fibril structure and packing in the posterior stroma. Invest Ophthalmol. Vis. Sci. 2000; 41(11):3365-3373.



Chakravarti S, Magnuson T, Lass JH, LaMantia C, Jepsen KJ, Carroll H. Collagen fibril defects affecting skin and cornea in lumican-deficient mice. J Cell Biol. 1998; 141: 1277-1286. PubMed PMID: 9606218;PubMed Central PMCID: PMC2137175.

Dunlevy JR, Chakravarti S, Gyalzen P, Vergnes J-P, Hassell JR. Cloning and chromosomal localization of mouse keratocan, a corneal keratan sulfate proteoglycan. Mamm Genome. 1998 Apr;9(4):316-9. PubMed PMID: 9530631.

Chakravarti S, Stalling R, SunderRaj N, Cornuet PK, Hassell JR. Primary Structure of Human Lumican (Keratan Sulfate Proteoglycan) and Localization of the Gene (LUM) to Chromosome 12q21.3-q22. Genomics. 1995; 27:481-488. PubMed PMID: 7558030.



Chakravarti S, Stalling R, SunderRaj N, Cornuet PK, Hassell JR. Primary Structure of Human Lumican (Keratan Sulfate Proteoglycan) and Localization of the Gene (LUM) to Chromosome 12q21.3-q22. Genomics. 1995; 27:481-488. PubMed PMID: 7558030.

SunderRaj N, Fite D, Ledbetter S, Chakravarti S, and Hassell JR. Perlecan is a component of cartilage matrix and promotes chondrocyte attachment. J Cell Science. 1995;108: 2663-2672. PubMed PMID: 7593307.’’

Chakravarti S, Horchar T, Jefferson B, Laurie G, Hassell JR. Recombinant Domain III of Perlecan Promotes Cell Attachment through Its RGDS Sequence. J Biol Chem. 1995; 270: 404-409. PubMed PMID: 7814401.

Chakravarti S, Hassell JR, Phillips SL. Perlecan gene expression precedes laminin gene expression during differentiation of F9 embryonal carcinoma cells. Develop Dynamics. 1993; 197:107-114. PubMed PMID: 8219353.

Chakravarti S, Phillips S, Hassell JR. Assignment of the perlecan (heparan sulfate proteoglycan) gene to mouse chromosome 4. Mammalian Genome. 1991; 1: 270-272. PubMed PMID: 1686572.

Chakravarti S, Tam MF, Chung AE. The basement membrane glycoprotein entactin promotes cell attachment and binds calcium ions. J Biol Chem. 1990; 265:10597-10603. PubMed PMID: 2191952.