The DOI matches its Crossref record; 31 of the 31 references it cites were found in a registry or an index.
Radiogenomic Analysis to Identify Imaging Phenotypes Associated with Drug Response Gene Expression Programs in Hepatocellular Carcinoma
Open accessAbstract
Purpose To determine whether conventional contrast-enhanced computed tomography (CT) could be used to identify imaging phenotypes associated with a doxorubicin drug response gene expression program in hepatocellular carcinoma (HCC) by using an integrated imaging-genomic approach.Materials and methods Thirty HCCs were analyzed and scored individually across six predefined imaging phenotypes. Unsupervised and supervised bioinformatics analyses were performed to correlate the imaging scores with the corresponding tumor microarray data (each microarray contained gene expression measurements across approximately 18,000 genes) to identify relationships between the imaging traits and underlying tumor gene expression. Enrichment for a predefined doxorubicin-response gene expression program was then performed against the imaging phenotype-associated genes and enrichment determined.Results An imaging phenotype related to tumor margins on arterial phase images demonstrated significant correlation with the doxorubicin-response transcriptional program (P < .05, q < 0.1). It was also significantly associated with HCC venous invasion and tumor stage (P < .05, q < 0.1). Tumors with higher tumor margin scores were more strongly associated with the doxorubicin resistance transcriptional program and had a greater prevalence of venous invasion and worse stage. Tumors with lower tumor margin scores, however, demonstrated a converse relationship.Conclusions It is possible to identify HCC imaging phenotypes at CT that correlate with a doxorubicin drug response gene expression program. Given the role of doxorubicin in regional therapies for HCC management, it is possible that such an approach could be used to guide HCC therapy on a tumor-by-tumor basis on the basis of underlying tumor gene expression patterns.
Overview
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Integrity signals
Registry
Cites
Statistics
Verification
Claims the paper makes
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Claims other papers make about this one
Each is checked against this paper’s own text: does it say what the citing paper says it does?
In the citing paper
“Seminal radiogenomic studies were the first to show a relationship between quantitative image features and gene expression patterns in patients with cancer (40,54,55).”
From Radiomics: Images Are More than Pictures, They Are Data (2016) · cites this paper as [55]
In the citing paper
“In a seminal study, Kuo et al identified hepatocellular carcinoma imaging phenotypes that correlated with a doxorubicin drug response gene expression program (55).”
From Radiomics: Images Are More than Pictures, They Are Data (2016) · cites this paper as [55]
Self-check
Percentages, sums and reported differences re-computed from the paper’s own numbers.
The self-check needs the paper’s full text.
Citations
Cites
R: A Language and Environment for Statistical Computing
R Core Team (2000) · doi:10.32614/r.manuals · Cited by 355,893
Molecular portraits of human breast tumours
Perou, C., Sørlie, T., Eisen, M., van de Rijn, M., Jeffrey, S., Rees, C. A., Pollack, J., Ross, D., Johnsen, H., Akslen, L., et al. (2000) · Nature · doi:10.1038/35021093 · Cited by 16,551
Cluster analysis and display of genome-wide expression patterns
Eisen, M. B., Spellman, P. T., Brown, P. O., & Botstein, D. (1998) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.95.25.14863 · Cited by 16,184
Golub, T. R., Slonim, D. K., Tamayo, P., Huard, C., Gaasenbeek, M., Mesirov, J. P., Coller, H., Loh, M. L., Downing, J. R., Caligiuri, M. A., et al. (1999) · Science · doi:10.1126/science.286.5439.531 · Cited by 11,516
In silico prediction of protein-protein interactions in human macrophages
Souiai, O., Guerfali, F. Z., Miled, S. B., Brun, C., & Benkahla, A. (2014) · BMC Research Notes · doi:10.1186/1756-0500-7-157 · Cited by 10,785
Significance analysis of microarrays applied to the ionizing radiation response
Tusher, V. G., Tibshirani, R., & Chu, G. (2001) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.091062498 · Cited by 10,568
Distinct types of diffuse large B-cell lymphoma identified by gene expression profiling
Alizadeh, A. A., Eisen, M. B., Davis, R. E., Ma, C., Lossos, I. S., Rosenwald, A., Boldrick, J. C., Sabet, H., Tran, T., Yu, X., et al. (2000) · Nature · doi:10.1038/35000501 · Cited by 9,925
Quantitative Monitoring of Gene Expression Patterns with a Complementary DNA Microarray
Schena, M., Shalon, D., Davis, R. W., & Brown, P. O. (1995) · Science · doi:10.1126/science.270.5235.467 · Cited by 9,609
EGFR Mutations in Lung Cancer: Correlation with Clinical Response to Gefitinib Therapy
Paez, J. G., Jänne, P. A., Lee, J. C., Tracy, S., Greulich, H., Gabriel, S., Herman, P., Kaye, F. J., Lindeman, N., Boggon, T. J., et al. (2004) · Science · doi:10.1126/science.1099314 · Cited by 9,368
Multidrug resistance in cancer: role of ATP–dependent transporters
Gottesman, M. M., Fojo, T., & Bates, S. E. (2002) · Nature Reviews Cancer · doi:10.1038/nrc706 · Cited by 5,536
Exploring the metabolic and genetic control of gene expression on a genomic scale.
Derisi, J., Iyer, V., & Brown, P. (1997) · Science · doi:10.1126/science.278.5338.680 · Cited by 4,832
Llovet, J. M., Real, M. I., Montañá, X., Planas, R., Coll, S., Aponte, J. Á. N., Ayuso, C., Sala, M., Muchart, J., Sola, R. L., et al. (2002) · The Lancet · doi:10.1016/s0140-6736(02)08649-x · Cited by 3,490
Lo, C., Ngan, H., Tso, W., Liu, C., Lam, C., Poon, R. T. P., Fan, S.-T., & Wong, J. (2002) · Hepatology · doi:10.1053/jhep.2002.33156 · Cited by 2,609
Prediction of central nervous system embryonal tumour outcome based on gene expression
Pomeroy, S. L., Tamayo, P., Gaasenbeek, M., Sturla, L. M., Angelo, M., McLaughlin, M. E., Kim, J. Y. H., Goumnerova, L. C., Black, P. M., Lau, C. C., et al. (2002) · Nature · doi:10.1038/415436a · Cited by 2,369
Molecular determinants of the response of glioblastomas to EGFR kinase inhibitors
Mellinghoff, I. K., Wang, M. Y., Vivanco, I., Haas-Kogan, D. A., Zhu, S., Dia, E. Q., Lu, K. V., Yoshimoto, K., Huang, J. H. Y., Chute, D. J., et al. (2005) · New England Journal of Medicine · doi:10.1056/nejmoa051918 · Cited by 1,442
Expression of Multidrug Resistance Gene in Human Cancers
Goldstein, L. J., Galski, H., Fojo, A. T., Willingham, M. C., Lai, S.-L., Gazdar, A. F., Pirker, R., Green, A., Crist, W., Brodeur, G. M., et al. (1989) · JNCI Journal of the National Cancer Institute · doi:10.1093/jnci/81.2.116 · Cited by 1,290
Gene expression profiling identifies clinically relevant subtypes of prostate cancer
Lapointe, J., Li, C., Higgins, J., van de Rijn, M., Bair, E., Montgomery, K. D., Ferrari, M. K., Egevad, L., Rayford, W., Bergerheim, U. S. R., et al. (2004) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0304146101 · Cited by 1,282
Edwards, B. K., Brown, M. L., Wingo, P. A., Howe, H. L., Ward, E., Ries, L. A. G., Schrag, D., Jamison, P. M., Jemal, A., Wu, X. C., et al. (2005) · JNCI Journal of the National Cancer Institute · doi:10.1093/jnci/dji289 · Cited by 955
Classification and prediction of survival in hepatocellular carcinoma by gene expression profiling
Lee, J., Chu, I., Heo, J., Calvisi, D. F., Sun, Z., Roskams, T., Durnez, A., Demetris, A. J., & Thorgeirsson, S. S. (2004) · Hepatology · doi:10.1002/hep.20375 · Cited by 942
Gene Expression Patterns in Human Liver Cancers
Chen, X., Cheung, S., So, S. K., Fan, S. T., Barry, C. T., Higgins, J., Lai, K.-M., Ji, J., Dudoit, S., Ng, I. O., et al. (2002) · Molecular Biology of the Cell · doi:10.1091/mbc.02-02-0023 · Cited by 879
Self-citationChang, J. C., Wooten, E. C., Tsimelzon, A. I., Hilsenbeck, S. G., Gutierrez, M. C., Elledge, R. M., Mohsin, S. K., Osborne, C. K., Chamness, G. C., Allred, D. C., et al. (2003) · The Lancet · doi:10.1016/s0140-6736(03)14023-8 · Cited by 872
Chemosensitivity prediction by transcriptional profiling
Staunton, J. E., Slonim, D. K., Coller, H. A., Tamayo, P., Angelo, M., Park, J., Scherf, U., Lee, J. K., Reinhold, W. C., Weinstein, J. N., et al. (2001) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.191368598 · Cited by 684
de Haar-Holleman, A., Cheok, M. H.-C., den Boer, M. L., Yang, W., Veerman, A. J. P., Kazemier, K. M., Pei, D., Cheng, C., Pui, C., Relling, M. V., et al. (2004) · New England Journal of Medicine · doi:10.1056/nejmoa033513 · Cited by 629
Kang, H. C., Kim, I.-J., Park, J., Shin, Y., Ku, J., Jung, M. S., Yoo, B. C., Kim, H. K., & Park, J. (2004) · Clinical Cancer Research · doi:10.1158/1078-0432.ccr-1025-3 · Cited by 190
Cell-Type-Specific Responses to Chemotherapeutics in Breast Cancer
Troester, M. A., Hoadley, K. A., Sørlie, T., Herbert, B., Børresen‐Dale, A., Lønning, P. E., Shay, J. W., Kaufmann, W. K., & Perou, C. M. (2004) · Cancer Research · doi:10.1158/0008-5472.can-04-0107 · Cited by 176
Győrffy, B., Surowiak, P., Kiesslich, O., Denkert, C., Schäfer, R., Dietel, M., & Lage, H. (2005) · International Journal of Cancer · doi:10.1002/ijc.21570 · Cited by 156
Iizuka, N., Oka, M., Yamada‐Okabe, H., Mori, N., Tamesa, T., Okada, T., Takemoto, N., 橋本, 毅., Tangoku, A., Hamada, K., et al. (2003) · Oncogene · doi:10.1038/sj.onc.1206401 · Cited by 85
Győrffy, B., Serra, V., Jürchott, K., Abdul‐Ghani, R., Garber, M., Stein, U., Petersen, I., Lage, H., Dietel, M., & Schäfer, R. (2005) · Oncogene · doi:10.1038/sj.onc.1208908 · Cited by 72
Overexpression of p53 in hepatocellular carcinomas: A clinicopathological and prognostic correlation
Ng, I. O., Lai, E. C. S., Chan, A. S. Y., & So, M. K. P. (1995) · Journal of Gastroenterology and Hepatology · doi:10.1111/j.1440-1746.1995.tb01089.x · Cited by 44
High-throughput Biology in the Postgenomic Era
Hsiao, A., & Kuo, M. D. (2006) · Journal of Vascular and Interventional Radiology · doi:10.1097/01.rvi.0000228840.12260.ff · Cited by 13
Self-citationExploring the Human Genome in Cancer with Genomic Approaches
Scheel, J. R., & Kuo, M. D. (2006) · Journal of Vascular and Interventional Radiology · doi:10.1097/01.rvi.0000232498.25928.a1 · Cited by 7
Self-citation
Flagged first, then by citations
Cited by
Sorted by citations
Radiomics: Images Are More than Pictures, They Are Data
Gillies, R. J., Kinahan, P. E., & Hricak, H. (2016) · Radiology · doi:10.1148/radiol.2015151169 · Cited by 8,421
Radiomics: extracting more information from medical images using advanced feature analysis
Lambin, P., Rios-Velazquez, E., Leijenaar, R., Carvalho, S., van Stiphout, R. G. P. M., Granton, P., Zegers, C. M. L., Gillies, R., Boellard, R., Dekker, A., et al. (2012) · European Journal of Cancer · doi:10.1016/j.ejca.2011.11.036 · Cited by 6,084
Huang, Y., Liang, C., He, L., Tian, J., Liang, C., Chen, X., Ma, Z., & Liu, Z. (2016) · Journal of Clinical Oncology · doi:10.1200/jco.2015.65.9128 · Cited by 1,753
Self-citationHuang, Y., Liu, Z., He, L., Chen, X., Pan, D., Ma, Z., Liang, C., Tian, J., & Liang, C. (2016) · Radiology · doi:10.1148/radiol.2016152234 · Cited by 753
Self-citationIntrinsic dependencies of CT radiomic features on voxel size and number of gray levels
Shafiq‐ul‐Hassan, M., Zhang, G. G., Latifi, K., Ullah, G., Hunt, D., Balagurunathan, Y., Abdalah, M. A., Schabath, M. B., Goldgof, D. B., Mackin, D., et al. (2017) · Medical Physics · doi:10.1002/mp.12123 · Cited by 587
Metadata
- Authors
- Kuo, M. D., Gollub, J., Sirlin, C. B., Ooi, C., & Chen, X.
- Affiliations
- University of California San Diego Medical Center (US)
- Stanford University (US)
- University of Hong Kong (HK)
- University of California, San Francisco (US)
- Corresponding author
- Kuo, Michael D.
- Venue
- Journal of Vascular and Interventional Radiology
- Publisher
- Elsevier BV
- Published
- 2007-07
- Volume
- 18
- Issue
- 7
- Pages
- 821-830
- ISSN
- 1051-0443 (ISSN-L)
- OpenAlex
- W2052040374
- Cited by
- 168
- References
- 31
- Citations by year
- 2026: 3 · 2025: 4 · 2024: 6 · 2023: 8 · 2022: 14 · 2021: 19 · 2020: 12 · 2019: 13 · 2018: 21 · 2017: 15 · 2016: 14 · 2015: 9 · 2014: 14 · 2013: 3 · 2012: 8
- FWCI
- 0.75
- Type
- journal article
- Language
- en
- Open access
- bronze
- doi.org
- Locations
- Journal of Vascular and Interventional Radiology (publishedVersion)
- PubMed (publishedVersion)
- Topics
- Health Sciences › Medicine › Radiology, Nuclear Medicine and Imaging › Radiomics and Machine Learning in Medical Imaging
- Health Sciences › Medicine › Hepatology › Hepatocellular Carcinoma Treatment and Prognosis
- Health Sciences › Medicine › Radiology, Nuclear Medicine and Imaging › Medical Imaging Techniques and Applications
- Keywords
- hepatocellular carcinoma, radiogenomics, imaging phenotypes, contrast-enhanced CT, tumor margin, venous invasion, tumor stage, doxorubicin resistance, personalized treatment
- MeSH terms
- Antibiotics, Antineoplastic, Contrast Media, Doxorubicin, Carcinoma, Hepatocellular, Humans, Iopamidol, Liver Neoplasms, Phenotype, Tomography, X-Ray Computed, Gene Expression Regulation, Neoplastic, Least-Squares Analysis, Drug Resistance, Neoplasm, Gene Expression Profiling, Microarray Analysis
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
Are you an author, or do you see a problem with this page? Request a review
