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Open AccessAuthor Correction: Reversal of pre-existing NGFR-driven tumor and immune therapy resistance
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Open AccessUbiquitin ligase STUB1 destabilizes IFNγ-receptor complex to suppress tumor IFNγ signaling
The cytokine IFNγ differentially impacts on tumors upon immune checkpoint blockade (ICB). Despite our understanding of downstream signaling events, less is known about regulation of its receptor (IFNγ-R1). Wit...
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Open AccessNeoadjuvant immunotherapy with nivolumab and ipilimumab induces major pathological responses in patients with head and neck squamous cell carcinoma
Surgery for locoregionally advanced head and neck squamous cell carcinoma (HNSCC) results in 30‒50% five-year overall survival. In IMCISION (NCT03003637), a non-randomized phase Ib/IIa trial, 32 HNSCC patients...
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Open AccessReversal of pre-existing NGFR-driven tumor and immune therapy resistance
Melanomas can switch to a dedifferentiated cell state upon exposure to cytotoxic T cells. However, it is unclear whether such tumor cells pre-exist in patients and whether they can be resensitized to immunothe...
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B cells and tertiary lymphoid structures promote immunotherapy response
Treatment with immune checkpoint blockade (ICB) has revolutionized cancer therapy. Until now, predictive biomarkers1–10 and strategies to augment clinical response have largely focused on the T cell compartment. ...
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Map** phospho-catalytic dependencies of therapy-resistant tumours reveals actionable vulnerabilities
Phosphorylation networks intimately regulate mechanisms of response to therapies. Map** the phospho-catalytic profile of kinases in cells or tissues remains a challenge. Here, we introduce a practical high-t...
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Open AccessIntegrative epigenetic taxonomy of primary prostate cancer
The Androgen Receptor (AR) is the key-driving transcription factor in prostate cancer, tightly controlled by epigenetic regulation. To date, most epigenetic profiling has been performed in cell lines or limite...
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Neoadjuvant versus adjuvant ipilimumab plus nivolumab in macroscopic stage III melanoma
Adjuvant ipilimumab (anti-CTLA-4) and nivolumab (anti-PD-1) both improve relapse-free survival of stage III melanoma patients1,2. In stage IV disease, the combination of ipilimumab + nivolumab is superior to ipil...
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Open AccessXenofilteR: computational deconvolution of mouse and human reads in tumor xenograft sequence data
Mouse xenografts from (patient-derived) tumors (PDX) or tumor cell lines are widely used as models to study various biological and preclinical aspects of cancer. However, analyses of their RNA and DNA profiles...
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Cooperative targeting of melanoma heterogeneity with an AXL antibody-drug conjugate and BRAF/MEK inhibitors
Expression of AXL earmarks melanoma cells resistant to BRAF and MEK inhibitors that either pre-exist in treatment-naive tumors or emerge in response to therapy. The combination of an AXL-MMAE antibody-drug con...
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Open AccessCopywriteR: DNA copy number detection from off-target sequence data
Current methods for detection of copy number variants (CNV) and aberrations (CNA) from targeted sequencing data are based on the depth of coverage of captured exons. Accurate CNA determination is complicated b...
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Low MITF/AXL ratio predicts early resistance to multiple targeted drugs in melanoma
Increased expression of the Microphthalmia-associated transcription factor (MITF) contributes to melanoma progression and resistance to BRAF pathway inhibition. Here we show that the lack of MITF is associated...
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Detection limits of DNA copy number alterations in heterogeneous cell populations
Array Comparative Genomic Hybridization (aCGH) is a widely used technique to assess chromosomal copy number alterations. Chromosomal content, however, is often not uniform throughout cell populations. Here we ...
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Open AccessGenomic aberrations relate early and advanced stage ovarian cancer
Because of the distinct clinical presentation of early and advanced stage ovarian cancer, we aim to clarify whether these disease entities are solely separated by time of diagnosis or whether they arise from d...
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Open AccessMatching of array CGH and gene expression microarray features for the purpose of integrative genomic analyses
An increasing number of genomic studies interrogating more than one molecular level is published. Bioinformatics follows biological practice, and recent years have seen a surge in methodology for the integrati...
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A diagnostic gene profile for molecular subty** of breast cancer associated with treatment response
Classification of breast cancer into molecular subtypes maybe important for the proper selection of therapy, as tumors with seemingly similar histopathological features can have strikingly different clinical ...
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TSPYL5 suppresses p53 levels and function by physical interaction with USP7
The genetic locus encompassing TSPYL5 is frequently amplified in breast cancer. TSPYL5 is now shown to repress p53 accumulation by interacting with and inhibiting the p53 de-ubiquitylating enzyme USP7.
