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Rajarsi Gupta, Ph.D. - Publications

Affiliations: 
2006 University of Illinois, Urbana-Champaign, Urbana-Champaign, IL 
Area:
Medical Biophysics, Biochemistry
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30 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2024 Jahangir CA, Page DB, Broeckx G, Gonzalez CA, Burke C, Murphy C, Reis-Filho JS, Ly A, Harms PW, Gupta RR, Vieth M, Hida AI, Kahila M, Kos Z, van Diest PJ, et al. Image-based multiplex immune profiling of cancer tissues: translational implications. A report of the International Immuno-oncology Biomarker Working Group on Breast Cancer. The Journal of Pathology. PMID 38230434 DOI: 10.1002/path.6238  0.491
2024 Kaczmarzyk JR, O'Callaghan A, Inglis F, Gat S, Kurc T, Gupta R, Bremer E, Bankhead P, Saltz JH. Open and reusable deep learning for pathology with WSInfer and QuPath. Npj Precision Oncology. 8: 9. PMID 38200147 DOI: 10.1038/s41698-024-00499-9  0.432
2023 Kapse S, Das S, Zhang J, Gupta RR, Saltz J, Samaras D, Prasanna P. Attention De-sparsification Matters: Inducing diversity in digital pathology representation learning. Medical Image Analysis. 93: 103070. PMID 38176354 DOI: 10.1016/j.media.2023.103070  0.481
2023 Hart S, Garcia V, Dudgeon SN, Hanna MG, Li X, Blenman KR, Elfer K, Ly A, Salgado R, Saltz J, Gupta R, Hytopoulos E, Larsimont D, Lennerz J, Gallas BD. Initial interactions with the FDA on developing a validation dataset as a medical device development tool. The Journal of Pathology. PMID 37794720 DOI: 10.1002/path.6208  0.441
2023 Thagaard J, Broeckx G, Page DB, Jahangir CA, Verbandt S, Kos Z, Gupta R, Khiroya R, Abduljabbar K, Acosta Haab G, Acs B, Akturk G, Almeida JS, Alvarado-Cabrero I, Amgad M, et al. Pitfalls in machine learning-based assessment of tumor-infiltrating lymphocytes in breast cancer: a report of the international immuno-oncology biomarker working group. The Journal of Pathology. PMID 37608772 DOI: 10.1002/path.6155  0.494
2023 Page DB, Broeckx G, Jahangir CA, Verbandt S, Gupta RR, Thagaard J, Khiroya R, Kos Z, Abduljabbar K, Acosta Haab G, Acs B, Almeida JS, Alvarado-Cabrero I, Azmoudeh-Ardalan F, Badve S, et al. Spatial analyses of immune cell infiltration in cancer: current methods and future directions. A report of the International Immuno-Oncology Biomarker Working Group on Breast Cancer. The Journal of Pathology. PMID 37608771 DOI: 10.1002/path.6165  0.474
2023 Kaczmarzyk JR, Gupta R, Kurc TM, Abousamra S, Saltz JH, Koo PK. ChampKit: A framework for rapid evaluation of deep neural networks for patch-based histopathology classification. Computer Methods and Programs in Biomedicine. 239: 107631. PMID 37271050 DOI: 10.1016/j.cmpb.2023.107631  0.481
2022 Elfer K, Dudgeon S, Garcia V, Blenman K, Hytopoulos E, Wen S, Li X, Ly A, Werness B, Sheth MS, Amgad M, Gupta R, Saltz J, Hanna MG, Ehinger A, et al. Pilot study to evaluate tools to collect pathologist annotations for validating machine learning algorithms. Journal of Medical Imaging (Bellingham, Wash.). 9: 047501. PMID 35911208 DOI: 10.1117/1.JMI.9.4.047501  0.502
2022 Fassler DJ, Torre-Healy LA, Gupta R, Hamilton AM, Kobayashi S, Van Alsten SC, Zhang Y, Kurc T, Moffitt RA, Troester MA, Hoadley KA, Saltz J. Spatial Characterization of Tumor-Infiltrating Lymphocytes and Breast Cancer Progression. Cancers. 14. PMID 35565277 DOI: 10.3390/cancers14092148  0.564
2022 Abousamra S, Gupta R, Hou L, Batiste R, Zhao T, Shankar A, Rao A, Chen C, Samaras D, Kurc T, Saltz J. Deep Learning-Based Mapping of Tumor Infiltrating Lymphocytes in Whole Slide Images of 23 Types of Cancer. Frontiers in Oncology. 11: 806603. PMID 35251953 DOI: 10.3389/fonc.2021.806603  0.508
2022 Foran DJ, Durbin EB, Chen W, Sadimin E, Sharma A, Banerjee I, Kurc T, Li N, Stroup AM, Harris G, Gu A, Schymura M, Gupta R, Bremer E, Balsamo J, et al. An Expandable Informatics Framework for Enhancing Central Cancer Registries with Digital Pathology Specimens, Computational Imaging Tools, and Advanced Mining Capabilities. Journal of Pathology Informatics. 13: 5. PMID 35136672 DOI: 10.4103/jpi.jpi_31_21  0.499
2021 Dudgeon SN, Wen S, Hanna MG, Gupta R, Amgad M, Sheth M, Marble H, Huang R, Herrmann MD, Szu CH, Tong D, Werness B, Szu E, Larsimont D, Madabhushi A, et al. A Pathologist-Annotated Dataset for Validating Artificial Intelligence: A Project Description and Pilot Study. Journal of Pathology Informatics. 12: 45. PMID 34881099 DOI: 10.4103/jpi.jpi_83_20  0.475
2021 Moore MR, Friesner ID, Rizk EM, Fullerton BT, Mondal M, Trager MH, Mendelson K, Chikeka I, Kurc T, Gupta R, Rohr BR, Robinson EJ, Acs B, Chang R, Kluger H, et al. Automated digital TIL analysis (ADTA) adds prognostic value to standard assessment of depth and ulceration in primary melanoma. Scientific Reports. 11: 2809. PMID 33531581 DOI: 10.1038/s41598-021-82305-1  0.449
2020 Rashidian S, Abell-Hart K, Hajagos J, Moffitt R, Lingam V, Garcia V, Tsai CW, Wang F, Dong X, Sun S, Deng J, Gupta R, Miller J, Saltz J, Saltz M. Detecting Miscoded Diabetes Diagnosis Codes in Electronic Health Records for Quality Improvement: Temporal Deep Learning Approach. Jmir Medical Informatics. 8: e22649. PMID 33331828 DOI: 10.2196/22649  0.398
2020 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. Publisher Correction to: Deep learning-based image analysis methods for brightfield-acquired multiplex immunohistochemistry images. Diagnostic Pathology. 15: 116. PMID 32972449 DOI: 10.1186/s13000-020-01021-y  0.48
2020 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. Deep learning-based image analysis methods for brightfield-acquired multiplex immunohistochemistry images. Diagnostic Pathology. 15: 100. PMID 32723384 DOI: 10.1186/S13000-020-01003-0  0.504
2020 Hou L, Gupta R, Van Arnam JS, Zhang Y, Sivalenka K, Samaras D, Kurc TM, Saltz JH. Dataset of segmented nuclei in hematoxylin and eosin stained histopathology images of ten cancer types. Scientific Data. 7: 185. PMID 32561748 DOI: 10.1038/S41597-020-0528-1  0.582
2020 Le H, Gupta R, Hou L, Abousamra S, Fassler D, Torre-Healy L, Moffitt RA, Kurc T, Samaras D, Batiste R, Zhao T, Rao A, Van Dyke AL, Sharma A, Bremer E, et al. Utilizing Automated Breast Cancer Detection to Identify Spatial Distributions of Tumor Infiltrating Lymphocytes in Invasive Breast Cancer. The American Journal of Pathology. PMID 32277893 DOI: 10.1016/J.Ajpath.2020.03.012  0.48
2020 Kurc T, Bakas S, Ren X, Bagari A, Momeni A, Huang Y, Zhang L, Kumar A, Thibault M, Qi Q, Wang Q, Kori A, Gevaert O, Zhang Y, Shen D, ... ... Gupta R, et al. Segmentation and Classification in Digital Pathology for Glioma Research: Challenges and Deep Learning Approaches. Frontiers in Neuroscience. 14: 27. PMID 32153349 DOI: 10.3389/Fnins.2020.00027  0.525
2019 Hou L, Agarwal A, Samaras D, Kurc TM, Gupta RR, Saltz JH. Robust Histopathology Image Analysis: to Label or to Synthesize? Proceedings. Ieee Computer Society Conference On Computer Vision and Pattern Recognition. 2019: 8533-8542. PMID 34025103 DOI: 10.1109/CVPR.2019.00873  0.493
2019 Rashidian S, Hajagos J, Moffitt RA, Wang F, Noel KM, Gupta RR, Tharakan MA, Saltz JH, Saltz MM. Deep Learning on Electronic Health Records to Improve Disease Coding Accuracy. Amia Joint Summits On Translational Science Proceedings. Amia Joint Summits On Translational Science. 2019: 620-629. PMID 31259017  0.389
2019 Alvi E, Gupta R, Borok RZ, Escobar-Hoyos L, Shroyer KR. Overview of established and emerging immunohistochemical biomarkers and their role in correlative studies in MRI. Journal of Magnetic Resonance Imaging : Jmri. PMID 31041822 DOI: 10.1002/jmri.26763  0.313
2019 Vu QD, Graham S, Kurc T, To MNN, Shaban M, Qaiser T, Koohbanani NA, Khurram SA, Kalpathy-Cramer J, Zhao T, Gupta R, Kwak JT, Rajpoot N, Saltz J, Farahani K. Methods for Segmentation and Classification of Digital Microscopy Tissue Images. Frontiers in Bioengineering and Biotechnology. 7: 53. PMID 31001524 DOI: 10.3389/Fbioe.2019.00053  0.5
2019 Hou L, Nguyen V, Kanevsky AB, Samaras D, Kurc TM, Zhao T, Gupta RR, Gao Y, Chen W, Foran D, Saltz JH. Sparse Autoencoder for Unsupervised Nucleus Detection and Representation in Histopathology Images. Pattern Recognition. 86: 188-200. PMID 30631215 DOI: 10.1016/J.Patcog.2018.09.007  0.488
2019 Gupta R, Kurc T, Sharma A, Almeida JS, Saltz J. The Emergence of Pathomics Current Pathobiology Reports. 7: 73-84. DOI: 10.1007/S40139-019-00200-X  0.534
2018 Wen S, Kurc TM, Hou L, Saltz JH, Gupta RR, Batiste R, Zhao T, Nguyen V, Samaras D, Zhu W. Comparison of Different Classifiers with Active Learning to Support Quality Control in Nucleus Segmentation in Pathology Images. Amia Joint Summits On Translational Science Proceedings. Amia Joint Summits On Translational Science. 2017: 227-236. PMID 29888078  0.51
2018 Saltz J, Gupta R, Hou L, Kurc T, Singh P, Nguyen V, Samaras D, Shroyer KR, Zhao T, Batiste R, Van Arnam J, Shmulevich I, Rao AUK, Lazar AJ, et al. Spatial Organization and Molecular Correlation of Tumor-Infiltrating Lymphocytes Using Deep Learning on Pathology Images. Cell Reports. 23: 181-193.e7. PMID 29617659 DOI: 10.1016/J.Celrep.2018.03.086  0.462
2004 Safonova LP, Michalos A, Wolf U, Wolf M, Hueber DM, Choi JH, Gupta R, Polzonetti C, Mantulin WW, Gratton E. Age-correlated changes in cerebral hemodynamics assessed by near-infrared spectroscopy. Archives of Gerontology and Geriatrics. 39: 207-25. PMID 15381340 DOI: 10.1016/J.Archger.2004.03.007  0.565
2004 Choi J, Wolf M, Toronov V, Wolf U, Polzonetti C, Hueber D, Safonova LP, Gupta R, Michalos A, Mantulin W, Gratton E. Noninvasive determination of the optical properties of adult brain: near-infrared spectroscopy approach. Journal of Biomedical Optics. 9: 221-9. PMID 14715077 DOI: 10.1117/1.1628242  0.573
2002 Michalos A, Safonova LP, Wolf U, Wolf M, Choi JH, Gupta R, Polzonetti C, Mantulin WW, Gratton E. Reduced cerebral hemodynamic response in sleep disorders: A NIRS frequency-domain study Biosilico. DOI: 10.1364/Bio.2002.Ma1  0.556
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