Differential Gene Expression Patterns and Interaction Networks in <i>BCR-ABL</i>–Positive and –Negative Adult Acute Lymphoblastic Leukemias

Juric, Dejan; Lacayo, Norman J.; Ramsey, Meghan; Racevskis, Janis; Wiernik, Peter H.; Rowe, Jacob M.; Goldstone, Anthony H.; O’Dwyer, Peter J.; Paietta, Elisabeth; Šikić, Branimir I.

doi:10.1200/jco.2006.09.3534

Cited by 102 publications

(86 citation statements)

References 46 publications

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“…6 Genome-wide profiling, along with association studies and immunohistochemistry, demonstrated that XBP1 expression was induced in a variety of primary cancers or cancer cell lines including hematological malignancies such as multiple myeloma and acute lymphoblastic leukemias, [7][8][9] as well as breast cancers, 10,11 hepatocellular carcinoma, 12,13 pancreatic adenocarcinomas, 14,15 and colon cancer. 16,17 It has been demonstrated that XBP1 is activated in primary mammary tumors, and that its expression correlates with enhanced tumor growth.…”

Section: Introductionmentioning

confidence: 99%

Heteroclitic XBP1 peptides evoke tumor-specific memory cytotoxic T lymphocytes against breast cancer, colon cancer, and pancreatic cancer cells

et al. 2014

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Keywords: breast / colon / pancreatic cancer, cancer vaccine, heteroclitic peptides, XBP1XBP1 is a critical transcriptional activator of the unfolded protein response (UPR), which increases tumor cell survival under prolonged endoplasmic reticulum (ER) stress and hypoxic conditions.This study was designed to evaluate the immunogenicity of heteroclitic XBP1 unspliced (US) [184][185][186][187][188][189][190][191][192] (YISPWILAV) and heteroclictic XBP1 spliced (SP) [367][368][369][370][371][372][373][374][375] (YLFPQLISV) HLA-A2 peptides, and to characterize the specific activities of XBP1 peptides-specific cytotoxic T lymphocytes (XBP1-CTL) against breast cancer, colon cancer, and pancreatic cancer cells.The XBP1-CTL had upregulated expression of critical T cell markers and displayed HLA-A2-restricted and antigen-specific activities against breast cancer, colon cancer and pancreatic cancer cells. XBP1-CTL were enriched withCD45RO C memory CTL, which showed high expression of critical T cell markers (CD28, ICOS, CD69, CD40L), cell proliferation and antitumor activities as compared to CD45RO ¡ non-memory CTL. The effector memory (EM: CD45RO C CCR7 ¡ ) subset had the highest level of cell proliferation while the central memory (CM: CD45ROC CCR7 C ) subset demonstrated enhanced functional activities (CD107a degranulation, IFNg/IL-2 production) upon recognition of the respective tumor cells. Furthermore, both the EM and CM XBP1-CTL subsets expressed high levels of Th1 transcription regulators Tbet and Eomes. The highest frequencies of IFNg or granzyme B producing cells were detected within CM XBP1-CTL subset that were either Tbet C or Eomes C in responding to the tumor cells.These results demonstrate the immunotherapeutic potential of a cocktail of immunogenic HLA-A2 specific heteroclitic XBP1 US [184][185][186][187][188][189][190][191][192] and heteroclictic XBP1 SP 367-375 peptides to induce CD3 C CD8C CTL enriched for CM and EM cells with specific antitumor activities against a variety of solid tumors.

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Section: Introductionmentioning

confidence: 99%

Heteroclitic XBP1 peptides evoke tumor-specific memory cytotoxic T lymphocytes against breast cancer, colon cancer, and pancreatic cancer cells

et al. 2014

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“…They have been produced for the study of the gene expression profiles of 54 specimens of acute lymphoblastic leukemia. The specimens span 37 positive and 17 negative to BCR-ABL [10], which is a fusion gene product resulting from translocation between the 9th and the 22th chromosomes.…”

Section: Resultsmentioning

confidence: 99%

Automatic DNA microarray gridding based on Support Vector Machines

Bariamis

Maroulis

Iakovidis

2008

2008 8th IEEE International Conference on BioInformatics and BioEngineering

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Abstract-This paper presents a novel method for DNA microarray gridding based on Support Vector Machine (SVM) classifiers. It employs a set of soft-margin SVMs to estimate the lines of the DNA microarray grid by maximizing the margin between the lines and the spots. This process comprises an efficient and effective approach of separating the spots into distinct rows and columns. The classifiers are trained using the spot locations as training vectors. The results obtained from the application of the proposed method on reference microarray images illustrate its robustness in the presence of artifacts, noise and weakly expressed spots. The comparative evaluation presented reveals its advantageous performance over a state of the art gridding approach. The gridding quality achieved exceeds 95% in terms of the total number of perfectly gridded spots.

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“…64 Insulin receptor substrate 1 is a docking protein for the insulin-like growth factor type 1 receptor and the insulin receptor, which sends mitogenic and antiapoptotic signals as part of an oncogenic pathway, and is differentially expressed in B cells and myeloid leukemia cells. 65 Furthermore, miR-145 participates in p53-dependent regulation of the oncogene c-Myc, as expression of this miRNA is directly induced at the transcriptional level by p53 and directly repressed at the posttranscriptional level by c-Myc, consequently inhibiting tumor cell growth. 66 This specific function may explain why B cells in CLL can acquire additional growth advantages by loss of expression of this miRNA.…”

Section: Self-sufficiency In Growth Signalsmentioning

confidence: 99%

Chronic lymphocytic leukemia: interplay between noncoding RNAs and protein-coding genes

Calin

Croce

2009

Blood

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Differential Gene Expression Patterns and Interaction Networks in BCR-ABL–Positive and –Negative Adult Acute Lymphoblastic Leukemias

Abstract: We identified prominent molecular features of BCR-ABL-positive adult ALL, which may be useful for developing novel therapeutic targets and prognostic markers in this disease.

Cited by 102 publications

References 46 publications

Heteroclitic XBP1 peptides evoke tumor-specific memory cytotoxic T lymphocytes against breast cancer, colon cancer, and pancreatic cancer cells

Heteroclitic XBP1 peptides evoke tumor-specific memory cytotoxic T lymphocytes against breast cancer, colon cancer, and pancreatic cancer cells

Automatic DNA microarray gridding based on Support Vector Machines

Chronic lymphocytic leukemia: interplay between noncoding RNAs and protein-coding genes

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