Mitesh J Borad

2019

Clinicopathological features and outcomes of fibrolamellar hepatocellular carcinoma

Chakrabarti, S., Tella, S. H., Kommalapati, A., Huffman, B. M., Yadav, S., Riaz, I. B., Goyal, G., Mody, K., Borad, M. J., Cleary, S., Smoot, R. & Mahipal, A., Jan 1 2019, In : Journal of Gastrointestinal Oncology. 10, 3, p. 554-561 8 p.

Research output: Contribution to journal › Article

Survival

Recurrence

Fibrolamellar hepatocellular carcinoma

Cell Death

Phosphotransferases

Decline in the seroprevalence of syphilis markers among first-time blood donors in Libreville (Gabon) between 2004 and 2016

Bisseye, C., Eko Mba, J. M., Ntsame Ndong, J. M., Kosiorek, H. E., Butterfield, R. J., Mombo, L. E., M'Batchi, B., Borad, M. J., Nagalo, B. & Allain, J. P., Feb 8 2019, In : BMC Public Health. 19, 1, 167.

Research output: Contribution to journal › Article

Gabon

Seroepidemiologic Studies

Syphilis

Blood Donors

Odds Ratio

Feasibility of circulating tumor DNA testing in hepatocellular carcinoma

Mody, K., Kasi, P. M., Yang, J. D., Surapaneni, P. K., Ritter, A., Roberts, A., Nagy, R. & Borad, M. J., Jan 1 2019, In : Journal of Gastrointestinal Oncology. 10, 4, p. 745-750 6 p.

Research output: Contribution to journal › Article

Hepatocellular Carcinoma

DNA

Neoplasms

Biliary Tract Neoplasms

Genes

9 Citations (Scopus)

Gemcitabine, Cisplatin, and nab-Paclitaxel for the Treatment of Advanced Biliary Tract Cancers: A Phase 2 Clinical Trial

Shroff, R. T., Javle, M. M., Xiao, L., Kaseb, A. O., Varadhachary, G. R., Wolff, R. A., Raghav, K. P. S., Iwasaki, M., Masci, P., Ramanathan, R. K., Ahn, D., Bekaii-Saab, T. & Borad, M. J., Jan 1 2019, In : JAMA Oncology.

Research output: Contribution to journal › Article

gemcitabine

Biliary Tract Neoplasms

Nanoparticles

Cisplatin

Clinical Trials

Integration of Comprehensive Genomic Analysis and Functional Screening of Affected Molecular Pathways to Inform Cancer Therapy

Vasmatzis, G., Liu, M. C., Reganti, S., Feathers, R. W., Smadbeck, J., Johnson, S. H., Schaefer Klein, J. L., Harris, F. R., Yang, L., Kosari, F., Murphy, S. J., Borad, M. J., Thompson, E. A., Cheville, J. C. & Anastasiadis, P. Z., Jan 1 2019, (Accepted/In press) In : Mayo Clinic proceedings.

Research output: Contribution to journal › Article

Open Access

Neoplasms

Mutation

Therapeutics

Precision Medicine

Preclinical Drug Evaluations

MetaMarker: A pipeline for de novo discovery of novel metagenomic biomarkers

Koohi-Moghadam, M., Borad, M. J., Tran, N. L., Swanson, K. R., Boardman, L. A., Sun, H. & Wang, J., Oct 1 2019, In : Bioinformatics. 35, 19, p. 3812-3814 3 p.

Research output: Contribution to journal › Article

Metagenomics

Biomarkers

Colorectal Cancer

Pipelines

Metagenome

3 Citations (Scopus)

Neoadjuvant vs. adjuvant chemotherapy for cholangiocarcinoma: A propensity score matched analysis

Yadav, S., Xie, H., Bin-Riaz, I., Sharma, P., Durani, U., Goyal, G., Borah, B. J., Borad, M. J., Smoot, R., Roberts, L. R., Go, R. S., Mc Williams, R. R. & Mahipal, A., Jan 1 2019, In : European Journal of Surgical Oncology.

Research output: Contribution to journal › Article

Propensity Score

Cholangiocarcinoma

Adjuvant Chemotherapy

Drug Therapy

Survival

4 Citations (Scopus)

Preclinical In Vitro and In Vivo Evidence of an Antitumor Effect of CX-4945, a Casein Kinase II Inhibitor, in Cholangiocarcinoma

Zakharia, K., Miyabe, K., Wang, Y., Wu, D., Moser, C. D., Borad, M. J. & Roberts, L. R., Jan 1 2019, In : Translational Oncology. 12, 1, p. 143-153 11 p.

Research output: Contribution to journal › Article

Casein Kinase II

Cholangiocarcinoma

gemcitabine

Cisplatin

Heterografts

Prognostic subclass of intrahepatic cholangiocarcinoma by integrative molecular–clinical analysis and potential targeted approach

Ahn, K. S., O’Brien, D., Kang, Y. N., Mounajjed, T., Kim, Y. H., Kim, T. S., Kocher, J-P., Allotey, L. K., Borad, M. J., Roberts, L. R. & Kang, K. J., Jan 1 2019, In : Hepatology International.

Research output: Contribution to journal › Article

Cholangiocarcinoma

RNA Sequence Analysis

gemcitabine

Pathology

Cholangitis

2018

60 Citations (Scopus)

A Comprehensive Pan-Cancer Molecular Study of Gynecologic and Breast Cancers

The Cancer Genome Atlas Research Network, Apr 9 2018, In : Cancer Cell. 33, 4, p. 690-705.e9

Research output: Contribution to journal › Article

Breast Neoplasms

Atlases

Long Noncoding RNA

Decision Trees

Genome

8 Citations (Scopus)

Adjuvant systemic therapy after resection of node positive gallbladder cancer: Time for a well-designed trial? (Results of a US-national retrospective cohort study)

Bergquist, J. R., Shah, H. N., Habermann, E. B., Hernandez, M. C., Ivanics, T., Kendrick, M. L., Smoot, R. L., Nagorney, D. M., Borad, M. J., Mc Williams, R. R. & Truty, M., Apr 1 2018, In : International Journal of Surgery. 52, p. 171-179 9 p.

Research output: Contribution to journal › Article

Gallbladder Neoplasms

Cohort Studies

Retrospective Studies

Adjuvant Chemotherapy

Gallbladder

117 Citations (Scopus)

An Integrated TCGA Pan-Cancer Clinical Data Resource to Drive High-Quality Survival Outcome Analytics

The Cancer Genome Atlas Research Network, Apr 5 2018, In : Cell. 173, 2, p. 400-416.e11

Research output: Contribution to journal › Article

Atlases

Genes

Genome

Survival

Neoplasms

30 Citations (Scopus)

A Pan-Cancer Analysis of Enhancer Expression in Nearly 9000 Patient Samples

The Cancer Genome Atlas Research Network, Apr 5 2018, In : Cell. 173, 2, p. 386-399.e12

Research output: Contribution to journal › Article

Genes

Tumors

Neoplasms

Computational methods

Chromatin

10 Citations (Scopus)

A Pan-Cancer Analysis Reveals High-Frequency Genetic Alterations in Mediators of Signaling by the TGF-β Superfamily

The Cancer Genome Atlas Research Network, Oct 24 2018, In : Cell Systems. 7, 4, p. 422-437.e7

Research output: Contribution to journal › Article

Transforming Growth Factors

Neoplasms

Sequence Deletion

Genes

Gastrointestinal Neoplasms

1 Citation (Scopus)

A phase I study of the safety and tolerability of VLX600, an Iron Chelator, in patients with refractory advanced solid tumors

Mody, K., Mansfield, A., Vemireddy, L., Nygren, P., Gulbo, J. & Borad, M. J., Jan 1 2018, (Accepted/In press) In : Investigational New Drugs.

Research output: Contribution to journal › Article

Chelating Agents

Iron

Safety

Maximum Tolerated Dose

Neoplasms

1 Citation (Scopus)

Association between treatment facility volume, therapy types and overall survival in patients with intrahepatic cholangiocarcinoma

Kommalapati, A., Tella, S. H., Goyal, G., Borad, M. J., Alberts, S. R., Roberts, L. R., Hubbard, J. M., Durgin, L., Cleary, S. & Mahipal, A., Jan 1 2018, (Accepted/In press) In : HPB.

Research output: Contribution to journal › Article

Cholangiocarcinoma

Survival

Liver

Therapeutics

Insurance

148 Citations (Scopus)

Cell-of-Origin Patterns Dominate the Molecular Classification of 10,000 Tumors from 33 Types of Cancer

The Cancer Genome Atlas Network, Apr 5 2018, In : Cell. 173, 2, p. 291-304.e6

Research output: Contribution to journal › Article

Tumors

Tissue

Histology

Methylation

Oncology

Chromoanasynthesis is a common mechanism that leads to ERBB2 amplifications in a cohort of early stage HER2⁺ breast cancer samples

Vasmatzis, G., Wang, X., Smadbeck, J., Murphy, S. J., Geiersbach, K. B., Johnson, S. H., Gaitatzes, A. G., Asmann, Y., Kosari, F., Borad, M. J., Serie, D. J., McLaughlin, S. A., Kachergus, J. M., Necela, B. M. & Thompson, E. A., Jul 13 2018, In : BMC Cancer. 18, 1, 738.

Research output: Contribution to journal › Article

Chromosomes, Human, Pair 8

Breast Neoplasms

Chromosomes, Human, Pair 17

Transcriptome

Genome

45 Citations (Scopus)

Comparative Molecular Analysis of Gastrointestinal Adenocarcinomas

The Cancer Genome Atlas Research Network, Apr 9 2018, In : Cancer Cell. 33, 4, p. 721-735.e8

Research output: Contribution to journal › Article

Adenocarcinoma

Neoplasms

Genome

Chromosomal Instability

Rectum

50 Citations (Scopus)

Comprehensive Analysis of Alternative Splicing Across Tumors from 8,705 Patients

The Cancer Genome Atlas Research Network, Aug 13 2018, In : Cancer Cell. 34, 2, p. 211-224.e6

Research output: Contribution to journal › Article

Alternative Splicing

Neoplasms

Exons

Exome

Peptides

177 Citations (Scopus)

Comprehensive Characterization of Cancer Driver Genes and Mutations

The MC3 Working Group & The Cancer Genome Atlas Research Network, Apr 5 2018, In : Cell. 173, 2, p. 371-385.e18

Research output: Contribution to journal › Article

Neoplasm Genes

Tumors

Genes

Mutation

Neoplasms

12 Citations (Scopus)

Comprehensive Molecular Characterization of the Hippo Signaling Pathway in Cancer

The Cancer Genome Atlas Research Network, Oct 30 2018, In : Cell Reports. 25, 5, p. 1304-1317.e5

Research output: Contribution to journal › Article

Genes

Neoplasms

Squamous Cell Neoplasms

Tumors

Atlases

51 Citations (Scopus)

Driver Fusions and Their Implications in the Development and Treatment of Human Cancers

The Fusion Analysis Working Group & The Cancer Genome Atlas Research Network, Apr 3 2018, In : Cell Reports. 23, 1, p. 227-238.e3

Research output: Contribution to journal › Article

Human Development

Phosphotransferases

Genes

Gene expression

Tumors

1 Citation (Scopus)

E6201, an intravenous MEK1 inhibitor, achieves an exceptional response in BRAF V600E-mutated metastatic malignant melanoma with brain metastases

Babiker, H. M., Byron, S. A., Hendricks, W. P. D., Elmquist, W. F., Gampa, G., Vondrak, J., Aldrich, J., Cuyugan, L., Adkins, J., De Luca, V., Tibes, R., Borad, M. J., Marceau, K., Myers, T. J., Paradiso, L. J., Liang, W. S., Korn, R. L., Cridebring, D., Von Hoff, D. D., Carpten, J. D. & 3 others, Craig, D. W., Trent, J. M. & Gordon, M. S., Jan 1 2018, (Accepted/In press) In : Investigational New Drugs.

Research output: Contribution to journal › Article

Melanoma

Neoplasm Metastasis

Brain

Blood-Brain Barrier

Exome

23 Citations (Scopus)

Evaluation of pre-analytical factors affecting plasma DNA analysis

Markus, H., Contente-Cuomo, T., Farooq, M., Liang, W. S., Borad, M. J., Sivakumar, S., Gollins, S., Tran, N., Dhruv, H. D., Berens, M. E., Bryce, A. H., Sekulic, A. D., Ribas, A., Trent, J. M., Lorusso, P. M. & Murtaza, M., Dec 1 2018, In : Scientific Reports. 8, 1, 7375.

Research output: Contribution to journal › Article

DNA

cells

sampling

droplets

blood

35 Citations (Scopus)

Genomic, Pathway Network, and Immunologic Features Distinguishing Squamous Carcinomas

The Cancer Genome Atlas Research Network, Apr 3 2018, In : Cell Reports. 23, 1, p. 194-212.e6

Research output: Contribution to journal › Article

Squamous Cell Carcinoma

MicroRNAs

Mutation

Epithelial Cells

Squamous Cell Neoplasms

55 Citations (Scopus)

Genomic and Functional Approaches to Understanding Cancer Aneuploidy

The Cancer Genome Atlas Research Network, Apr 9 2018, In : Cancer Cell. 33, 4, p. 676-689.e3

Research output: Contribution to journal › Article

Aneuploidy

Chromosomes

Neoplasms

Genome

Mutation Rate

83 Citations (Scopus)

Genomic and Molecular Landscape of DNA Damage Repair Deficiency across The Cancer Genome Atlas

The Cancer Genome Atlas Research Network, Apr 3 2018, In : Cell Reports. 23, 1, p. 239-254.e6

Research output: Contribution to journal › Article

DNA Repair-Deficiency Disorders

Atlases

DNA Damage

Repair

Genes

HSP90 Inhibition Drives Degradation of FGFR2 Fusion Proteins: Implications for Treatment of Cholangiocarcinoma

Lamberti, D., Cristinziano, G., Porru, M., Leonetti, C., Egan, J. B., Shi, C. X., Buglioni, S., Amoreo, C. A., Castellani, L., Borad, M. J., Alemà, S., Anastasi, S. & Segatto, O., Jan 1 2018, (Accepted/In press) In : Hepatology.

Research output: Contribution to journal › Article

Receptor, Fibroblast Growth Factor, Type 2

HSP90 Heat-Shock Proteins

Cholangiocarcinoma

Proteins

Protein-Tyrosine Kinases

13 Citations (Scopus)

Integrated Genomic Analysis of the Ubiquitin Pathway across Cancer Types

The Cancer Genome Atlas Research Network, Apr 3 2018, In : Cell Reports. 23, 1, p. 213-226.e3

Research output: Contribution to journal › Article

Ubiquitin

Genes

Neoplasms

Tumors

Amplification

90 Citations (Scopus)

lncRNA Epigenetic Landscape Analysis Identifies EPIC1 as an Oncogenic lncRNA that Interacts with MYC and Promotes Cell-Cycle Progression in Cancer

The Cancer Genome Atlas Research Network, Apr 9 2018, In : Cancer Cell. 33, 4, p. 706-720.e9

Research output: Contribution to journal › Article

Long Noncoding RNA

Epigenomics

Cell Cycle

Genes

Neoplasms

19 Citations (Scopus)

Machine Learning Detects Pan-cancer Ras Pathway Activation in The Cancer Genome Atlas

The Cancer Genome Atlas Research Network, Apr 3 2018, In : Cell Reports. 23, 1, p. 172-180.e3

Research output: Contribution to journal › Article

Atlases

Learning systems

Tumors

Genes

Chemical activation

85 Citations (Scopus)

Machine Learning Identifies Stemness Features Associated with Oncogenic Dedifferentiation

The Cancer Genome Atlas Research Network, Apr 5 2018, In : Cell. 173, 2, p. 338-354.e15

Research output: Contribution to journal › Article

Learning systems

Tumors

Neoplasms

Stem cells

Logistics

20 Citations (Scopus)

Molecular Characterization and Clinical Relevance of Metabolic Expression Subtypes in Human Cancers

The Cancer Genome Atlas Research Network, Apr 3 2018, In : Cell Reports. 23, 1, p. 255-269.e4

Research output: Contribution to journal › Article

Tumors

Carbohydrates

Oncology

Metabolism

Vitamins

189 Citations (Scopus)

Oncogenic Signaling Pathways in The Cancer Genome Atlas

The Cancer Genome Atlas Research Network, Apr 5 2018, In : Cell. 173, 2, p. 321-337.e10

Research output: Contribution to journal › Article

Atlases

Tumors

Genes

Genome

Neoplasms

33 Citations (Scopus)

Pan-cancer Alterations of the MYC Oncogene and Its Proximal Network across the Cancer Genome Atlas

The Cancer Genome Atlas Network, Mar 28 2018, In : Cell Systems. 6, 3, p. 282-300.e2

Research output: Contribution to journal › Article

Atlases

Oncogenes

Genome

Neoplasms

Neoplasm Genes

56 Citations (Scopus)

Pan-Cancer Analysis of lncRNA Regulation Supports Their Targeting of Cancer Genes in Each Tumor Context

The Cancer Genome Atlas Research Network, Apr 3 2018, In : Cell Reports. 23, 1, p. 297-312.e12

Research output: Contribution to journal › Article

Long Noncoding RNA

Neoplasm Genes

Tumors

Genes

Neoplasms

84 Citations (Scopus)

Pathogenic Germline Variants in 10,389 Adult Cancers

The Cancer Genome Atlas Research Network, Apr 5 2018, In : Cell. 173, 2, p. 355-370.e14

Research output: Contribution to journal › Article

Gene expression

Automatic teller machines

Tumors

Neoplasms

Genes

42 Citations (Scopus)

Perspective on Oncogenic Processes at the End of the Beginning of Cancer Genomics

The Cancer Genome Atlas Research Network, Apr 5 2018, In : Cell. 173, 2, p. 305-320.e10

Research output: Contribution to journal › Article

Genomics

Tumors

Genes

Neoplasms

Atlases

17 Citations (Scopus)

Phase 1 trials of PEGylated recombinant human hyaluronidase PH20 in patients with advanced solid tumours

Infante, J. R., Korn, R. L., Rosen, L. S., Lorusso, P., Dychter, S. S., Zhu, J., Maneval, D. C., Jiang, P., Shepard, H. M., Frost, G., Von Hoff, D. D., Borad, M. J. & Ramanathan, R. K., Jan 1 2018, In : British Journal of Cancer. 118, 2, p. 153-161 9 p.

Research output: Contribution to journal › Article

Hyaluronoglucosaminidase

Neoplasms

Hyaluronic Acid

Maximum Tolerated Dose

Myalgia

74 Citations (Scopus)

Phase II study of BGJ398 in patients with FGFR-Altered advanced cholangiocarcinoma

Javle, M., Lowery, M., Shroff, R. T., Weiss, K. H., Springfeld, C., Borad, M. J., Ramanathan, R. K., Goyal, L., Sadeghi, S., Macarulla, T., El-Khoueiry, A., Kelley, R. K., Borbath, I., Choo, S. P., Oh, D. Y., Philip, P. A., Chen, L. T., Reungwetwattana, T., Van Cutsem, E., Yeh, K. H. & 9 others, Ciombor, K., Finn, R. S., Patel, A., Sen, S., Porter, D., Isaacs, R., Zhu, A. X., Abou-Alfa, G. K. & Bekaii-Saab, T., Jan 20 2018, In : Journal of Clinical Oncology. 36, 3, p. 276-282 7 p.

Research output: Contribution to journal › Article

Receptor, Fibroblast Growth Factor, Type 2

Cholangiocarcinoma

Hyperphosphatemia

Stomatitis

gemcitabine

7 Citations (Scopus)

Pilot evaluation of PD-1 inhibition in metastatic cancer patients with a history of liver transplantation: The Mayo Clinic experience

DeLeon, T. T., Salomao, M. A., Aqel, B. A., Sonbol, M. B., Yokoda, R. T., Ali, A. H., Moss, A. A., Mathur, A., Chascsa, D. M., Rakela, J., Bryce, A. H. & Borad, M. J., Dec 1 2018, In : Journal of Gastrointestinal Oncology. 9, 6, p. 1054-1062 9 p.

Research output: Contribution to journal › Article

Liver Transplantation

Neoplasms

Proteins

Allografts

Ligands

3 Citations (Scopus)

Prevalent hepatitis B surface antigen among first-time blood donors in Gabon

Eko Mba, J. M., Bisseye, C., Ntsame Ndong, J. M., Mombo, L. E., Bengone, C., Migolet, G. M., Batchi, B. M., Kosiorek, H. E., Butterfield, R. J., Roberts, L. R., Borad, M. J. & Nagalo, B., Apr 1 2018, In : PLoS One. 13, 4, e0194285.

Research output: Contribution to journal › Article

Gabon

Seroepidemiologic Studies

Hepatitis B Surface Antigens

Blood Donors

seroprevalence

2 Citations (Scopus)

Safety, pharmacokinetics, and preliminary efficacy of E6201 in patients with advanced solid tumours, including melanoma: Results of a phase 1 study

Tibes, R., Borad, M. J., Dutcus, C. E., Reyderman, L., Feit, K., Eisen, A., Verbel, D. A. & Von Hoff, D. D., Jun 1 2018, In : British Journal of Cancer. 118, 12, p. 1580-1585 6 p.

Research output: Contribution to journal › Article

Melanoma

Pharmacokinetics

Maximum Tolerated Dose

Safety

Neoplasms

57 Citations (Scopus)

Scalable Open Science Approach for Mutation Calling of Tumor Exomes Using Multiple Genomic Pipelines

MC3 Working Group & The Cancer Genome Atlas Research Network, Mar 28 2018, In : Cell Systems. 6, 3, p. 271-281.e7

Research output: Contribution to journal › Article

Exome

Mutation

Atlases

Neoplasms

Genomics

41 Citations (Scopus)

Somatic Mutational Landscape of Splicing Factor Genes and Their Functional Consequences across 33 Cancer Types

The Cancer Genome Atlas Research Network, Apr 3 2018, In : Cell Reports. 23, 1, p. 282-296.e4

Research output: Contribution to journal › Article

Genes

Mutation

Neoplasms

Tumors

RNA

59 Citations (Scopus)

Spatial Organization and Molecular Correlation of Tumor-Infiltrating Lymphocytes Using Deep Learning on Pathology Images

The Cancer Genome Atlas Research Network, Apr 3 2018, In : Cell Reports. 23, 1, p. 181-193.e7

Research output: Contribution to journal › Article

Tumor-Infiltrating Lymphocytes

Lymphocytes

Pathology

Tumors

Learning

19 Citations (Scopus)

Surveillance for hepatobiliary cancers in patients with primary sclerosing cholangitis

Ali, A. H., Tabibian, J. H., Nasser-Ghodsi, N., Lennon, R. J., DeLeon, T., Borad, M. J., Hilscher, M., Silveira, M. G., Carey, E. J. & Lindor, K. D., Jun 1 2018, In : Hepatology. 67, 6, p. 2338-2351 14 p.

Research output: Contribution to journal › Article

Sclerosing Cholangitis

Cholangiocarcinoma

Neoplasms

Gallbladder

Survival

28 Citations (Scopus)

Systematic Analysis of Splice-Site-Creating Mutations in Cancer

The Cancer Genome Atlas Research Network, Apr 3 2018, In : Cell Reports. 23, 1, p. 270-281.e3

Research output: Contribution to journal › Article

Tumors

Mutation

Neoplasms

Bioelectric potentials

Bioinformatics

61 Citations (Scopus)

The Cancer Genome Atlas Comprehensive Molecular Characterization of Renal Cell Carcinoma

The Cancer Genome Atlas Research Network, Apr 3 2018, In : Cell Reports. 23, 1, p. 313-326.e5

Research output: Contribution to journal › Article

Atlases

Renal Cell Carcinoma

Genes

Cells

Genome

Mitesh J Borad, MD