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Beatrice S. Knudsen

Beatrice S. Knudsen, MD, PhD

  • Over the last 10 years, I built a program that integrates histopathology, multiplex tissue staining, digital image analysis and computational pathology for biomarker development. Advances in machine learning and high-performance computing permit the extraction of quantitative data from images of cancer tissues form patients and mouse models and to use images as molecular datasets. I am applying this approach to close the gap between laboratory research and clinical care and to develop novel algorithms for diagnosis, prognostication and treatment of cancer patients.

    Specialties

    • Pathology, Anatomical

    Board Certification

    American Board of Anatomic Pathology

  • Over the last 10 years, I built a program that integrates histopathology, multiplex tissue staining, digital image analysis and computational pathology for biomarker development. Advances in machine learning and high-performance computing permit the extraction of quantitative data from images of cancer tissues form patients and mouse models and to use images as molecular datasets. I am applying this approach to close the gap between laboratory research and clinical care and to develop novel algorithms for diagnosis, prognostication and treatment of cancer patients.

    Board Certification and Academic Information

    Academic Departments Pathology -Primary
    Board Certification
    American Board of Anatomic Pathology

    Selected Publications

    Journal Article

    1. Marr KD, Gard JMC, Harryman WL, Keeswood EJ, Paxson AI, Wolgemuth C, Knudsen BS, Nagle RB, Hazlehurst L, Sorbellini M, Cress AE (2023). Biophysical phenotype mixtures reveal advantages for tumor muscle invasion in vivo. Biophys J, 122(21), 4194-4206. ()
    2. Ng AHC, Hu H, Wang K, Scherler K, Warren SE, Zollinger DR, McKay-Fleisch J, Sorg K, Beechem JM, Ragaglia E, Lacy JM, Smith KD, Marshall DA, Bundesmann MM, Lpez de Castilla D, Corwin D, Yarid N, Knudsen BS, Lu Y, Goldman JD, Heath JR (2023). Organ-specific immunity: A tissue analysis framework for investigating local immune responses to SARS-CoV-2. Cell Rep, 42(10), 113212. ()
    3. Qian C, Yang Q, Rotinen M, Huang R, Kim H, Gallent B, Yan Y, Cadaneanu RM, Zhang B, Kaochar S, Freedland SJ, Posadas EM, Ellis L, Vizio DD, Morrissey C, Nelson PS, Brady L, Murali R, Campbell MJ, Yang W, Knudsen BS, Mostaghel EA, Ye H, Garraway IP, You S, Freeman MR (2023). ONECUT2 Activates Diverse Resistance Drivers of Androgen Receptor-Independent Heterogeneity in Prostate Cancer. ()
    4. Kataria T, Rajamani S, Ayubi AB, Bronner M, Jedrzkiewicz J, Knudsen BS, Elhabian SY (2023). Automating Ground Truth Annotations for Gland Segmentation Through Immunohistochemistry. Mod Pathol, 36(12), 100331. ()
    5. Zhang W, Koh MY, Sirohi D, Ying J, Brintz BJ, Knudsen BS (2023). Predicting IHC staining classes of NF1 using features in the hematoxylin channel. J Pathol Inform, 14, 100196. ()
    6. Liu Y, Wang J, Horton C, Yu C, Knudsen B, Stefanson J, Hu K, Stefanson O, Green J, Guo C, Xie Q, Wang ZA (2021). Stromal AR inhibits prostate tumor progression by restraining secretory luminal epithelial cells. Cell Rep, 39(8), 110848. ()
    7. Kane N, Romero T, Diaz-Perez S, Rettig MB, Steinberg ML, Kishan AU, Schaue D, Reiter RE, Knudsen BS, Nickols NG (2022). Significant changes in macrophage and CD8 T cell densities in primary prostate tumors 2 weeks after SBRT. Prostate Cancer Prostatic Dis. ()
    8. Pollan SG, Teng PC, Jan YJ, Livingstone J, Huang C, Kim M, Mariscal J, Rodriguez M, Chen JF, You S, DiVizio D, Boutros PC, Chan KS, Rasorenova O, Cress A, Spassov D, Moasser M, Posadas EM, Freedland SJ, Freeman MR, Zheng JJ, Knudsen BS (2021). Loss of CDCP1 triggers FAK activation in detached prostate cancer cells. Am J Clin Exp Urol, 9(4), 350-366. ()
    9. Parikh NR, Kishan AU, Kane N, Diaz-Perez S, Ganapathy E, Nazarian R, Felix C, Mathis C, Bradley M, Sachdeva A, Wyatt B, Basehart V, Zomorodian N, Lin L, King CR, Kupelian PA, Rettig MB, Steinberg ML, Cao M, Knudsen BS, Elashoff D, Schaue D, Reiter RE, Nickols NG (2020). Phase 1 Trial of Stereotactic Body Radiation Therapy Neoadjuvant to Radical Prostatectomy for Patients With High-Risk Prostate Cancer. Int J Radiat Oncol Biol Phys, 108(4), 930-935. ()
    10. Zhang W, Rhodes JS, Moon KR, Knudsen BS, Nokolova L, Zhou A (2020). Imaging of PD-L1 in single cancer cells by SERS-based hyperspectral analysis. Biomed Opt Express, 11(11), 6197-6210. ()
    11. Kouspou MM, Fong JE, Brew N, Hsiao STF, Davidson SL, Choyke PL, Crispino T, Jain S, Jenster GW, Knudsen BS, Millar JL, Mittmann N, Ryan CJ, Tombal B, Buzza M (2020). The Movember Prostate Cancer Landscape Analysis: an assessment of unmet research needs. Nat Rev Urol, 17(9), 499-512. ()
    12. Huang F, Tanaka H, Knudsen BS, Rutgers JK (2020). Mutant POLQ and POLZ/REV3L DNA polymerases may contribute to the favorable survival of patients with tumors with POLE mutations outside the exonuclease domain. BMC Med Genet, 21(1), 167. ()
    13. Fassler DJ, Abousamra S, Gupta R, Chen C, Zhao M, Paredes D, Batool SA, Knudsen BS, Escobar-Hoyos L, Shroyer KR, Samaras D, Kurc T, Saltz J (2020). Deep learning-based image analysis methods for brightfield-acquired multiplex immunohistochemistry images. Diagn Pathol, 15(1), 100. ()
    14. Nickols NG, Ganapathy E, Nguyen C, Kane N, Lin L, Diaz-Perez S, Nazarian R, Mathis C, Felix C, Basehart V, Zomorodian N, Kwak J, Kishan AU, King CR, Kupelian PA, Rettig MB, Steinberg ML, Cao M, Knudsen BS, Chu FI, Romero T, Elashoff D, Reiter RE, Schaue D (2020). The intraprostatic immune environment after stereotactic body radiotherapy is dominated by myeloid cells. Prostate Cancer Prostatic Dis, 24, 135-139. ()
    15. Miller ET, You S, Cadaneanu RM, Kim M, Yoon J, Liu ST, Li X, Kwan L, Hodge J, Quist MJ, Grasso CS, Lewis MS, Knudsen BS, Freeman MR, Garraway IP (2020). Chromosomal instability in untreated primary prostate cancer as an indicator of metastatic potential. BMC Cancer, 20(1), 398. ()
    16. Wang M, Nagle RB, Knudsen BS, Cress AE, Rogers GC (2019). Centrosome loss results in an unstable genome and malignant prostate tumors. Oncogene, 39(2), 399-413. ()
    17. Gil J, Betancourt LH, Pla I, Sanchez A, Appelqvist R, Miliotis T, Kuras M, Oskolas H, Kim Y, Horvath Z, Eriksson J, Berge E, Burestedt E, Jnsson G, Baldetorp B, Ingvar C, Olsson H, Lundgren L, Horvatovich P, Murillo JR, Sugihara Y, Welinder C, Wieslander E, Lee B, Lindberg H, Pawowski K, Kwon HJ, Doma V, Timar J, Karpati S, Szasz AM, Nmeth IB, Nishimura T, Corthals G, Rezeli M, Knudsen B, Malm J, Marko-Varga G (2019). Clinical protein science in translational medicine targeting malignant melanoma. Cell Biol Toxicol, 35(4), 293-332. ()
    18. Jan YJ, Yoon J, Chen JF, Teng PC, Yao N, Cheng S, Lozano A, Chu GCY, Chung H, Lu YT, Chen PJ, Wang JJ, Lee YT, Kim M, Zhu Y, Knudsen BS, Feng FY, Garraway IP, Gao AC, Chung LWK, Freeman MR, You S, Tseng HR, Posadas EM (2019). A Circulating Tumor Cell-RNA Assay for Assessment of Androgen Receptor Signaling Inhibitor Sensitivity in Metastatic Castration-Resistant Prostate Cancer. Theranostics, 9(10), 2812-2826. ()
    19. Li W, Li J, Sarma KV, Ho KC, Shen S, Knudsen BS, Gertych A, Arnold CW (2018). Path R-CNN for Prostate Cancer Diagnosis and Gleason Grading of Histological Images. IEEE Trans Med Imaging, 38(4), 945-954. ()
    20. Wang M, Knudsen BS, Nagle RB, Rogers GC, Cress AE (2019). A method of quantifying centrosomes at the single-cell level in human normal and cancer tissue. Mol Biol Cell, 30(7), 811-819. ()
    21. Wang M, Hinton JP, Gard JMC, Garcia JGN, Knudsen BS, Nagle RB, Cress AE (2019). Integrin α6β4E variant is associated with actin and CD9 structures and modifies the biophysical properties of cell-cell and cell-extracellular matrix interactions. Mol Biol Cell, 30(7), 838-850. ()
    22. Guedes LB, Morais CL, Fedor H, Hicks J, Gurel B, Melamed J, Lee P, Gopalan A, Knudsen BS, True LD, Scher HI, Fine SW, Trock BJ, De Marzo AM, Lotan TL (2018). Effect of Preanalytic Variables on an Automated PTEN Immunohistochemistry Assay for Prostate Cancer. Arch Pathol Lab Med, 143(3), 338-348. ()
    23. Gertych A, Swiderska-Chadaj Z, Ma Z, Ing N, Markiewicz T, Cierniak S, Salemi H, Guzman S, Walts AE, Knudsen BS (2019). Convolutional neural networks can accurately distinguish four histologic growth patterns of lung adenocarcinoma in digital slides. Sci Rep, 9(1), 1483. ()
    24. Schiewer MJ, Mandigo AC, Gordon N, Huang F, Gaur S, de Leeuw R, Zhao SG, Evans J, Han S, Parsons T, Birbe R, McCue P, McNair C, Chand SN, Cendon-Florez Y, Gallagher P, McCann JJ, Poudel Neupane N, Shafi AA, Dylgjeri E, Brand LJ, Visakorpi T, Raj GV, Lallas CD, Trabulsi EJ, Gomella LG, Dicker AP, Kelly WK, Leiby BE, Knudsen B, Feng FY, Knudsen KE (2018). PARP-1 regulates DNA repair factor availability. EMBO Mol Med, 10(12). ()
    25. Rotinen M, You S, Yang J, Coetzee SG, Reis-Sobreiro M, Huang WC, Huang F, Pan X, Yez A, Hazelett DJ, Chu CY, Steadman K, Morrissey CM, Nelson PS, Corey E, Chung LWK, Freedland SJ, Di Vizio D, Garraway IP, Murali R, Knudsen BS, Freeman MR (2018). ONECUT2 is a targetable master regulator of lethal prostate cancer that suppresses the androgen axis. Nat Med, 24(12), 1887-1898. ()
    26. Reis-Sobreiro M, Chen JF, Novitskaya T, You S, Morley S, Steadman K, Gill NK, Eskaros A, Rotinen M, Chu CY, Chung LWK, Tanaka H, Yang W, Knudsen BS, Tseng HR, Rowat AC, Posadas EM, Zijlstra A, Di Vizio D, Freeman MR (2018). Emerin Deregulation Links Nuclear Shape Instability to Metastatic Potential. Cancer Res, 78(21), 6086-6097. ()
    27. Li J, Speier W, Ho KC, Sarma KV, Gertych A, Knudsen BS, Arnold CW (2018). An EM-based semi-supervised deep learning approach for semantic segmentation of histopathological images from radical prostatectomies. Comput Med Imaging Graph, 69, 125-133. ()
    28. Das L, Gard JMC, Prekeris R, Nagle RB, Morrissey C, Knudsen BS, Miranti CK, Cress AE (2018). Novel Regulation of Integrin Trafficking by Rab11-FIP5 in Aggressive Prostate Cancer. Mol Cancer Res, 16(8), 1319-1331. ()
    29. Padilla-Rodriguez M, Parker SS, Adams DG, Westerling T, Puleo JI, Watson AW, Hill SM, Noon M, Gaudin R, Aaron J, Tong D, Roe DJ, Knudsen B, Mouneimne G (2018). The actin cytoskeletal architecture of estrogen receptor positive breast cancer cells suppresses invasion. Nat Commun, 9(1), 2980. ()
    30. Alvarez MJ, Subramaniam PS, Tang LH, Grunn A, Aburi M, Rieckhof G, Komissarova EV, Hagan EA, Bodei L, Clemons PA, Dela Cruz FS, Dhall D, Diolaiti D, Fraker DA, Ghavami A, Kaemmerer D, Karan C, Kidd M, Kim KM, Kim HC, Kunju LP, Langel, Li Z, Lee J, Li H, LiVolsi V, Pfragner R, Rainey AR, Realubit RB, Remotti H, Regberg J, Roses R, Rustgi A, Sepulveda AR, Serra S, Shi C, Yuan X, Barberis M, Bergamaschi R, Chinnaiyan AM, Detre T, Ezzat S, Frilling A, Hommann M, Jaeger D, Kim MK, Knudsen BS, Kung AL, Leahy E, Metz DC, Milsom JW, Park YS, Reidy-Lagunes D, Schreiber S, Washington K, Wiedenmann B, Modlin I, Califano A (2018). A precision oncology approach to the pharmacological targeting of mechanistic dependencies in neuroendocrine tumors. Nat Genet, 50(7), 979-989. ()
    31. Pollan SG, Huang F, Sperger JM, Lang JM, Morrissey C, Cress AE, Chu CY, Bhowmick NA, You S, Freeman MR, Spassov DS, Moasser MM, Carter WG, Satapathy SR, Shah K, Knudsen BS (2018). Regulation of inside-out β1-integrin activation by CDCP1. Oncogene, 37(21), 2817-2836. ()
    32. Li J, Sarma KV, Chung Ho K, Gertych A, Knudsen BS, Arnold CW (2018). A Multi-scale U-Net for Semantic Segmentation of Histological Images from Radical Prostatectomies. AMIA Annu Symp Proc, 2017, 1140-1148. ()
    33. Hu J, Schokrpur S, Archang M, Hermann K, Sharrow AC, Khanna P, Novak J, Signoretti S, Bhatt RS, Knudsen BS, Xu H, Wu L (2018). A Non-integrating Lentiviral Approach Overcomes Cas9-Induced Immune Rejection to Establish an Immunocompetent Metastatic Renal Cancer Model. Mol Ther Methods Clin Dev, 9, 203-210. ()
    34. Ing N, Huang F, Conley A, You S, Ma Z, Klimov S, Ohe C, Yuan X, Amin MB, Figlin R, Gertych A, Knudsen BS (2017). A novel machine learning approach reveals latent vascular phenotypes predictive of renal cancer outcome. Sci Rep, 7(1), 13190. ()
    35. Ma Z, Shiao SL, Yoshida EJ, Swartwood S, Huang F, Doche ME, Chung AP, Knudsen BS, Gertych A (2017). Data integration from pathology slides for quantitative imaging of multiple cell types within the tumor immune cell infiltrate. Diagn Pathol, 12(1), 69. ()
    36. Allott EH, Macias E, Sanders S, Knudsen BS, Thomas GV, Hursting SD, Freedland SJ (2017). Impact of carbohydrate restriction in the context of obesity on prostate tumor growth in the Hi-Myc transgenic mouse model. Prostate Cancer Prostatic Dis, 20(2), 165-171. ()
    37. Das L, Anderson TA, Gard JM, Sroka IC, Strautman SR, Nagle RB, Morrissey C, Knudsen BS, Cress AE (2017). Characterization of Laminin Binding Integrin Internalization in Prostate Cancer Cells. J Cell Biochem, 118(5), 1038-1049. ()
    38. Conley A, Minciacchi VR, Lee DH, Knudsen BS, Karlan BY, Citrigno L, Viglietto G, Tewari M, Freeman MR, Demichelis F, Di Vizio D (2016). High-throughput sequencing of two populations of extracellular vesicles provides an mRNA signature that can be detected in the circulation of breast cancer patients. RNA Biol, 14(3), 305-316. ()
    39. Wang M, Nagle RB, Knudsen BS, Rogers GC, Cress AE (2016). A basal cell defect promotes budding of prostatic intraepithelial neoplasia. J Cell Sci, 130(1), 104-110. ()
    40. Miller ET, Chamie K, Kwan L, Lewis MS, Knudsen BS, Garraway IP (2016). Impact of treatment on progression to castration-resistance, metastases, and death in men with localized high-grade prostate cancer. Cancer Med, 6(1), 163-172. ()
    41. Harryman WL, Hinton JP, Rubenstein CP, Singh P, Nagle RB, Parker SJ, Knudsen BS, Cress AE (2016). The Cohesive Metastasis Phenotype in Human Prostate Cancer. Biochim Biophys Acta, 1866(2), 221-231. ()
    42. Liu S, Cadaneanu RM, Zhang B, Huo L, Lai K, Li X, Galet C, Grogan TR, Elashoff D, Freedland SJ, Rettig M, Aronson WJ, Knudsen BS, Lewis MS, Garraway IP (2016). Keratin 13 Is Enriched in Prostate Tubule-Initiating Cells and May Identify Primary Prostate Tumors that Metastasize to the Bone. PLoS One, 11(10), e0163232. ()
    43. You S, Knudsen BS, Erho N, Alshalalfa M, Takhar M, Al-Deen Ashab H, Davicioni E, Karnes RJ, Klein EA, Den RB, Ross AE, Schaeffer EM, Garraway IP, Kim J, Freeman MR (2016). Integrated Classification of Prostate Cancer Reveals a Novel Luminal Subtype with Poor Outcome. Cancer Res, 76(17), 4948-58. ()
    44. Vidal AC, Chen Z, Howard LE, Moreira DM, Castro-Santamaria R, Andriole GL, Taioli E, Fowke JH, Knudsen B, Drake CG, Nickel JC, Freedland SJ (2016). Racial differences in prostate inflammation: results from the REDUCE study. Oncotarget, 8(42), 71393-71399. ()
    45. Pham H, Hui H, Morvaridi S, Cai J, Zhang S, Tan J, Wu V, Levin N, Knudsen B, Goddard WA 3rd, Pandol SJ, Abrol R (2016). A bitter pill for type 2 diabetes? The activation of bitter taste receptor TAS2R38 can stimulate GLP-1 release from enteroendocrine L-cells. Biochem Biophys Res Commun, 475(3), 295-300. ()
    46. Huang F, Ma Z, Pollan S, Yuan X, Swartwood S, Gertych A, Rodriguez M, Mallick J, Bhele S, Guindi M, Dhall D, Walts AE, Bose S, de Peralta Venturina M, Marchevsky AM, Luthringer DJ, Feller SM, Berman B, Freeman MR, Alvord WG, Vande Woude G, Amin MB, Knudsen BS (2016). Quantitative imaging for development of companion diagnostics to drugs targeting HGF/MET. J Pathol Clin Res, 2(4), 210-222. ()
    47. Knudsen BS, Kim HL, Erho N, Shin H, Alshalalfa M, Lam LLC, Tenggara I, Chadwich K, Van Der Kwast T, Fleshner N, Davicioni E, Carroll PR, Cooperberg MR, Chan JM, Simko JP (2016). Application of a Clinical Whole-Transcriptome Assay for Staging and Prognosis of Prostate Cancer Diagnosed in Needle Core Biopsy Specimens. J Mol Diagn, 18(3), 395-406. ()
    48. Edderkaoui M, Xu S, Chheda C, Morvaridi S, Hu RW, Grippo PJ, Mascarias E, Principe DR, Knudsen B, Xue J, Habtezion A, Uyeminami D, Pinkerton KE, Pandol SJ (2015). HDAC3 mediates smoking-induced pancreatic cancer. Oncotarget, 7(7), 7747-60. ()
    49. Gertych A, Ma Z, Tajbakhsh J, Velsquez-Vacca A, Knudsen BS (2015). Rapid 3-D delineation of cell nuclei for high-content screening platforms. Comput Biol Med, 69, 328-38. ()
    50. Hahn NM, Knudsen BS, Daneshmand S, Koch MO, Bihrle R, Foster RS, Gardner TA, Cheng L, Liu Z, Breen T, Fleming MT, Lance R, Corless CL, Alva AS, Shen SS, Huang F, Gertych A, Gallick GE, Mallick J, Ryan C, Galsky MD, Lerner SP, Posadas EM, Sonpavde G (2015). Neoadjuvant dasatinib for muscle-invasive bladder cancer with tissue analysis of biologic activity. Urol Oncol, 34(1), 4.e11-7. ()
    51. Gertych A, Ing N, Ma Z, Fuchs TJ, Salman S, Mohanty S, Bhele S, Velsquez-Vacca A, Amin MB, Knudsen BS (2015). Machine learning approaches to analyze histological images of tissues from radical prostatectomies. Comput Med Imaging Graph, 46 Pt 2, 197-208. ()
    52. Ogden A, Rida PC, Knudsen BS, Kucuk O, Aneja R (2015). Docetaxel-induced polyploidization may underlie chemoresistance and disease relapse. Cancer Lett, 367(2), 89-92. ()
    53. Lai JP, Conley A, Knudsen BS, Guindi M (2015). Hypoxia after transarterial chemoembolization may trigger a progenitor cell phenotype in hepatocellular carcinoma. Histopathology, 67(4), 442-50. ()
    54. Morley S, You S, Pollan S, Choi J, Zhou B, Hager MH, Steadman K, Spinelli C, Rajendran K, Gertych A, Kim J, Adam RM, Yang W, Krishnan R, Knudsen BS, Di Vizio D, Freeman MR (2015). Regulation of microtubule dynamics by DIAPH3 influences amoeboid tumor cell mechanics and sensitivity to taxanes. Sci Rep, 5, 12136. ()
    55. Qin Y, Walts AE, Knudsen BS, Gertych A (2014). Computerized delineation of nuclei in liquid-based pap smears stained with immunohistochemical biomarkers. Cytometry B Clin Cytom, 88(2), 110-9. ()

    Editorial

    1. Delahunt B, Hammond E, Egevad L, Samaratunga H, Srigley JR, Humphrey PA, Rubin M, Epstein JI, Lin DW, Gore JL, Nacey JN, Klotz L, Sandler H, Zietman AL, Holden S, Montironi R, Evans AJ, McKenney JK, Berney D, Wheeler TM, Chinnaiyan AM, True L, Knudsen B, Amin MB (2014). Active surveillance for prostate cancer: the role of the pathologist. Pathology, 47(1), 1-3. ()

    Other

    1. Sirohi D, Chipman J, Barry M, Albertson D, Mahlow J, Liu T, Raps E, Haaland B, Sayegh N, Li H, Rathi N, Sharma P, Agarwal N, Knudsen B (2022). Histologic Growth Patterns in Clear Cell Renal Cell Carcinoma Stratify Patients into Survival Risk Groups. Clin Genitourin Cancer (20(3), pp. e233-e243). United States. ()
    2. Ouellet V, Erickson A, GAP1 UTMAs Contributing Investigators, Wiley K, Morrissey C, Berge V, Moreno CS, Tasken KA, Trudel D, True LD, Lewis MS, Svindland A, Ertunc O, Vidal ID, Osunkoya AO, Jones T, Bova GS, Lamminen T, Achtman AH, Buzza M, Kouspou MM, Bigler SA, Zhou X, Freedland SJ, Mes-Masson AM, Garraway IP, Trock BJ, Taimen P, Saad F, Mirtti T, Knudsen BS, De Marzo AM (2021). The Movember Global Action Plan 1 (GAP1): Unique Prostate Cancer Tissue Microarray Resource. Cancer Epidemiol Biomarkers Prev (31(4), pp. 715-727). United States. ()
    3. Yan Y, Zhou B, Qian C, Vasquez A, Kamra M, Chatterjee A, Lee YJ, Yuan X, Ellis L, Di Vizio D, Posadas EM, Kyprianou N, Knudsen BS, Shah K, Murali R, Gertych A, You S, Freeman MR, Yang W (2022). Receptor-interacting protein kinase 2 (RIPK2) stabilizes c-Myc and is a therapeutic target in prostate cancer metastasis. Nat Commun (13(1), p. 669). England. ()
    4. Betancourt LH, Gil J, Sanchez A, Doma V, Kuras M, Murillo JR, Velasquez E, akr U, Kim Y, Sugihara Y, Parada IP, Szeitz B, Appelqvist R, Wieslander E, Welinder C, de Almeida NP, Woldmar N, Marko-Varga M, Eriksson J, Pawowski K, Baldetorp B, Ingvar C, Olsson H, Lundgren L, Lindberg H, Oskolas H, Lee B, Berge E, Sjgren M, Eriksson C, Kim D, Kwon HJ, Knudsen B, Rezeli M, Malm J, Hong R, Horvath P, Szsz AM, Tmr J, Krpti S, Horvatovich P, Miliotis T, Nishimura T, Kato H, Steinfelder E, Oppermann M, Miller K, Florindi F, Zhou Q, Domont GB, Pizzatti L, Nogueira FCS, Szadai L, Nmeth IB, Ekedahl H, Feny D, Marko-Varga G (2021). The Human Melanoma Proteome Atlas-Complementing the melanoma transcriptome. Clin Transl Med (11(7), pp. e451). United States. ()
    5. Betancourt LH, Gil J, Kim Y, Doma V, akr U, Sanchez A, Murillo JR, Kuras M, Parada IP, Sugihara Y, Appelqvist R, Wieslander E, Welinder C, Velasquez E, de Almeida NP, Woldmar N, Marko-Varga M, Pawowski K, Eriksson J, Szeitz B, Baldetorp B, Ingvar C, Olsson H, Lundgren L, Lindberg H, Oskolas H, Lee B, Berge E, Sjgren M, Eriksson C, Kim D, Kwon HJ, Knudsen B, Rezeli M, Hong R, Horvatovich P, Miliotis T, Nishimura T, Kato H, Steinfelder E, Oppermann M, Miller K, Florindi F, Zhou Q, Domont GB, Pizzatti L, Nogueira FCS, Horvath P, Szadai L, Tmr J, Krpti S, Szsz AM, Malm J, Feny D, Ekedahl H, Nmeth IB, Marko-Varga G (2021). The human melanoma proteome atlas-Defining the molecular pathology. Clin Transl Med (11(7), pp. e473). United States. ()
    6. Fassler DJ, Abousamra S, Gupta R, Chen C, Zhao M, Paredes D, Batool SA, Knudsen BS, Escobar-Hoyos L, Shroyer KR, Samaras D, Kurc T, Saltz J (2020). Publisher Correction to: Deep learning-based image analysis methods for brightfield-acquired multiplex immunohistochemistry images. Diagn Pathol (15(1), p. 116). England. ()
    7. Saylor J, Ma Z, Goodridge HS, Huang F, Cress AE, Pandol SJ, Shiao SL, Vidal AC, Wu L, Nickols NG, Gertych A, Knudsen BS (2018). Spatial Mapping of Myeloid Cells and Macrophages by Multiplexed Tissue Staining. Front Immunol (9, p. 2925). Switzerland. ()

    Patent

    1. Cao B, Boliang, Vande Woude GF, Knudsen BS (2011). Monoclonal antibody which binds cMet (HGFR) in formalin-fixed and paraffin-embedded tissues and related methods. U.S. Patent No. 7,892,770. Washington, D.C.:U.S. Patent and Trademark Office.