THOR: a TMB heterogeneity-adaptive optimization model predicts immunotherapy response using clonal genomic features in group-structured data.

With the increasing number of indications for immune checkpoint inhibitors in early and advanced cancers, the prospect of a tumor-agnostic biomarker to prioritize patients is compelling. Tumor mutation burden (TMB) is a widely endorsed biomarker that quantifies nonsynonymous mutations within tumor DNA, essential for neoantigen production, which, in turn, correlates with the immune response and guides decision-making. However, the general clinical application of TMB-relying on simple mutational counts targeted at a single endpoint-does not adequately capture the complex clonal structure of tumors nor the multifaceted nature of prognostic indicators.

Carbon-Oxygen Radical Assisted Growth of Defect-Free Graphene Films Using Low-Temperature Chemical Vapor Deposition.

Low-temperature chemical vapor deposition growth of graphene films is a long-term pursuit in the graphene synthesis field because of the low energy consumption, short heating-cooling process and low wrinkle density of as-obtained films. However, insufficient energy supply at low temperature (below 850 °C) usually leads to the difficulty in carbon source dissociation, graphene growth, and defect healing. Herein, a Carbon-Oxygen (C─O) radical assisted strategy is proposed for low-temperature growth of defect-free, wrinkle-free, and single-crystalline graphene films by using methanol precursor.

Novel derivatives of capsaicin as a potent hypolipidemic and anti-obesity agent.

Capsaicin is a natural product with multiple biological activities, such as anti-inflammatory, analgesic, weight loss, anti-cancer and cardiovascular disease prevention. However, its further applications have been limited by its strong irritation, poor water solubility, and unsatisfied pharmacological effects. To ameliorate the problem, a series of derivatives of capsaicin and its analogues were designed and synthesized.

Effect of Bixie combined with perioperative multimodal analgesia management on postoperative pain and wound healing of mixed hemorrhoids.

We were to explore the effect of Bixie combined with perioperative multimodal analgesia management on postoperative pain and wound healing of mixed hemorrhoids. A total of 240 patients with mixed hemorrhoids in this hospital from June 2022 to September 2023 were chosen, with 120 in the control group receiving perioperative multimodal analgesia management and 120 in the observation group receiving Bixie combined with perioperative multimodal analgesia management. The results showed that compared with the control group, the observation group had lower visual analogue scale (VAS) scores at 1, 3, 5 and 7 days after the surgery; the 5-hydroxytryptamine (5-HT), prostaglandin E2 (PGE2), nitric oxide (NO), interleukin-2 (IL-2), interleukin-6 (IL-6) and tumor necrosis factor-α (TNF-α) of the observation group at 24 hours and 72 hours after the surgery were lower; the vascular endothelial growth factor (VEGF), basic fibroblast growth factor (bFGF), platelet-derived growth factor (PDGF) and wound healing rate of the observation group at 7 days after the surgery were higher; the total effective rate of the observation group was higher.

DeepIRES: a hybrid deep learning model for accurate identification of internal ribosome entry sites in cellular and viral mRNAs.

The internal ribosome entry site (IRES) is a cis-regulatory element that can initiate translation in a cap-independent manner. It is often related to cellular processes and many diseases. Thus, identifying the IRES is important for understanding its mechanism and finding potential therapeutic strategies for relevant diseases since identifying IRES elements by experimental method is time-consuming and laborious.

The improvement of flame retardancy and compatibility of PBAT/PLLA via a hybrid polyurethane.

Poly (butylene adipate-co-terephthalate)/poly (L-lactic acid) (PBAT/PLLA) is one of the most important biodegradable polymer combinations; however, they are flammable with heavy melt dripping and incompatible. To achieve the objective of flame retardation and compatibility, a hybrid polyurethane (PU) with multiple flame retardation elements is synthesized via a new ring-opening polymerization (ROP) method and integrated into PBAT/PLLA film. The PU not only dissolves in different organic solvents at mild temperature but also improves the compatibility of PBAT/PLLA.

High-density bin-based genetic map reveals a 530-kb chromosome segment derived from wild peanut contributing to late leaf spot resistance.

Twenty-eight QTLs for LLS disease resistance were identified using an amphidiploid constructed mapping population, a favorable 530-kb chromosome segment derived from wild species contributes to the LLS resistance. Late leaf spot (LLS) is one of the major foliar diseases of peanut, causing serious yield loss and affecting the quality of kernel and forage. Some wild Arachis species possess higher resistance to LLS as compared with cultivated peanut; however, ploidy level differences restrict utilization of wild species.

Case report: Safety and efficacy of synergistic treatment using selinexor and azacitidine in patients with atypical chronic myeloid leukemia with resistance to decitabine.

Background: Atypical chronic myeloid leukemia (aCML) is a negative myelodysplastic/myeloproliferative neoplasm with poor overall survival. Some patients can be treated by allogeneic hematopoietic stem cell transplantation (allo-HSCT) from suitable donors. The effectiveness of decitabine or azacitidine (AZA) has recently been reported; however, their combined efficacy with selinexor has not yet been reported.

Global characterization of RNA editing in genetic regulation of multiple ovarian cancer subtypes.

RNA editing plays an extensive role in the initiation and progression of cancer. However, the overall profile and molecular functions of RNA editing in different ovarian cancer subtypes have not been fully characterized and elucidated. Here, we conducted a study on RNA editing in four cohorts of ovarian cancer subtypes through large-scale parallel reporting and bioinformatics analysis.

The effect of Pluronic P123 on shape memory of cross-linked polyurethane/poly(l-lactide) biocomposite.

Polyurethane (PU) and poly(l-lactide) (PLLA) have attracted increasing attention in the development of shape memory polymers (SMPs) due to their good biocompatibility and degradability. Although Pluronic P123 can be used to tune polymeric surface hydrophilicity, its effect on SM performance is a mystery. In this study, a soluble cross-linked PU is synthesized as the switching phase and combined with PLLA and P123 to construct a hydrothermally responsive SM composite.

Integrated Transcriptomics-Proteomics Analysis Identifies Molecular Phenotypic Alterations Associated with Colorectal Cancer.

Understanding the pathogenesis and finding diagnostic markers for colorectal cancer (CRC) are the key to its diagnosis and treatment. Integrated transcriptomics and proteomics analysis can be used to characterize alterations of molecular phenotypes and reveal the hidden pathogenesis of CRC. This study employed a novel strategy integrating transcriptomics and proteomics to identify pathological molecular pathways and diagnostic biomarkers of CRC.

Genome-wide perturbations of A-to-I RNA editing dysregulated circular RNAs promoting the development of cervical cancer.

Cervical cancer, the second most common female malignant tumor, seriously threatens women's health and lives. Despite the availability of the HPV vaccine, effective treatment options for cervical cancer are still lacking. New research perspectives now clarify that RNA editing dysregulation and changes in circRNA expression are jointly involved in disease pathogenesis, so molecular changes associated with circRNA and RNA editing may provide clues for the development of new therapeutic strategies for cervical cancer.

Self-Healing of Poly(vinyl Alcohol)/Poly(acrylic Acid)-Polytetrahydrofuran-Poly(acrylic Acid) Blend Boosted via Shape Memory.

The self-healable polymers that can repair physical damage autonomously to extend their lifetime and reduce maintenance costs are promising intelligent materials. However, utilizing shape memory to facilitate self-repair is unusual at present. In this work, a series of poly(acrylic acid)-polytetrahydrofuran-poly(acrylic acid) polymers (PAA-PTMG-PAA, PAA-PTMG) are synthesized as a switching phase and healing accelerator to blend into poly(vinyl alcohol) (PVA).

Multidimensional Analysis of a Cell-Free DNA Whole Methylome Sequencing Assay for Early Detection of Gastric Cancer: Protocol for an Observational Case-Control Study.

Background: Commonly used noninvasive serological indicators serve as a step before endoscope diagnosis and help identify the high-risk gastric cancer (GC) population. However, they are associated with high false positives and high false negatives. Alternative noninvasive approaches, such as cancer-related features in cell-free DNA (cfDNA) fragments, have been gradually identified and play essential roles in early cancer detection.

The R2R3-MYB transcription factor CsMYB42 regulates theanine biosynthesis in albino tea leaves.

Theanine is a unique secondary metabolite in tea plants and contributes to the umami taste and health benefits of tea. However, theanine biosynthesis in tea plants is not fully understood, and its mechanism of transcriptional regulation remains poorly reported. Theanine content was significantly correlated with the expression of theanine biosynthesis-related gene CsGS1c and transcription factor CsMYB42 in different leaf positions and picking times, but there was no significant correlation in different tissues of albino tea plant 'Anjibaicha'.

A shape-memory poly(ε-caprolactone) hybridized TiO/poly(l-lactide) composite with antibacterial properties.

Organic-inorganic composites as an efficient strategy to upgrade the structural and functional properties of synthetic polymers are attracting extensive attentions. However, there are few studies on the shape memory (SM) behavior of organic-inorganic composites. In the work, poly(ε-caprolactone) hybridized TiO nanomaterial (PCL-TiO) is made as the switching phase and integrated into poly (l-lactide) (PLLA) to construct an SM composite.

Case report: a case report and literature analysis on intestinal tuberculosis intestinal perforation complicated by umbilical intestinal fistula and bladder ileal fistula.

Background: Intestinal tuberculosis is a chronic and specific infection caused by Mycobacterium tuberculosis invading the intestine. Due to the nonspecific clinical presentation, it is stressed that intestinal perforation complicates umbilical intestinal fistula and bladder ileal fistula is very rare and extremely difficult to be diagnosed. It is significant to identify the disease and take urgent intervene in the early stage.

Hydroxyapatite cross-linked in situ polyvinyl alcohol hydrogel for bionic calcified cartilage layer.

Many tissue engineering constructs have been investigated for repairing the calcified cartilage layer in the recent years, but engineering a consistent and stable interface to facilitate a graft-to-bone fixation remains a concern. In the work, hydroxyapatite (HA) is modified by diisocyanate (HDI) and integrated with polyvinyl alcohol (PVA) to prepare the hydrogel. The IR shows that HDI is grafted onto HA and helps HA to cross-link in situ in the PVA gel network.

In-depth characterization and identification of translatable lncRNAs.

Long non-coding RNAs (LncRNAs) are non-protein coding transcripts more than 200 nucleotides in length. Deep sequencing technologies have unveiled lncRNAs can harbor translatable short open reading frames (sORFs). Yet the regulatory mechanisms governing lncRNA translation events remain poorly understood.

Effects of -methyladenosine modification on the function of the female reproductive system.

In recent years, the rate of female infertility in China has been increasing, posing an urgent challenge to improve fertility. A healthy reproductive system is essential for successful reproduction, and -methyladenosine (mA) is the most abundant chemical modification in eukaryotes and plays a critical role in cellular processes. Recent studies have shown that mA modifications also have a keying effect in various physiological and pathological processes in the female reproductive system, although their regulatory mechanisms and biological functions remain unclear.

TMBserval: a statistical explainable learning model reveals weighted tumor mutation burden better categorizing therapeutic benefits.

A high tumor mutation burden (TMB) is known to drive the response to immune checkpoint inhibitors (ICI) and is associated with favorable prognoses. However, because it is a one-dimensional numerical representation of non-synonymous genetic alterations, TMB suffers from clinical challenges due to its equal quantification. Since not all mutations elicit the same antitumor rejection, the effect on immunity of neoantigens encoded by different types or locations of somatic mutations may vary.

Detection of multiple types of cancer driver mutations using targeted RNA sequencing in non-small cell lung cancer.

Background: DNA-based next-generation sequencing has been widely used in the selection of target therapies for patients with nonsmall cell lung cancer (NSCLC). RNA-based next-generation sequencing has been proven to be valuable in detecting fusion and exon-skipping mutations and is recommended by National Comprehensive Cancer Network guidelines for these mutation types.

Methods: The authors developed an RNA-based hybridization panel targeting actionable driver oncogenes in solid tumors.