NDLI: The mechanism of lncRNAs in the crosstalk between epithelial-mesenchymal transition and tumor microenvironment for early colon adenocarcinoma based on molecular subtyping

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Year: 2023 Month: August Volume: 14

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Editorial: Finding new epigenomics and epigenetics biomarkers for complex diseases and significant developmental events with machine learning methods, Volume II

Integrating cell interaction with transcription factors to obtain a robust gene panel for prognostic prediction and therapies in cholangiocarcinoma

Targeted screening of genetic associations with COVID-19 susceptibility and severity

Using loop-primer mediated PCR to enhance the detection of poorly preserved DNA

Cutting through the weeds: Evaluation of a novel adsorption with crossmatch cells and elution protocol to sharpen HLA antibody identification by the single antigen bead assay

An efficient five-lncRNA signature for lung adenocarcinoma prognosis, with AL606489.1 showing sexual dimorphism

No causal association between tea consumption and 7 cardiovascular disorders: A two-sample Mendelian randomization study

Establishing a model fish for the Neotropical region: The case of the yellowtail tetra Astyanax altiparanae in advanced biotechnology

Identification and verification of a novel epigenetic-related gene signature for predicting the prognosis of hepatocellular carcinoma

Data-driven analysis to identify prognostic immune-related biomarkers in BRAF mutated cutaneous melanoma microenvironment

Identification of human placenta-derived circular RNAs and autophagy related circRNA-miRNA-mRNA regulatory network in gestational diabetes mellitus

Epigenetics and genetics of hepatoblastoma: Linkage and treatment

piRNAs may regulate expression of candidate genes of esophageal adenocarcinoma

Host genetics impact on SARS-CoV-2 vaccine-induced immunoglobulin levels and dynamics: The role of TP53, ABO, APOE, ACE2, HLA-A, and CRP genes

A heterozygous mutation in NOTCH3 in a Chinese family with CADASIL

Screening prognostic genes related to leucovorin, fluorouracil, and irinotecan treatment sensitivity by performing co-expression network analysis for colon cancer

Recent advances and current challenges in population genomics of structural variation in animals and plants

Case Report: A novel KNCH2 variant-induced fetal heart block and the advantages of fetal genomic sequencing in prenatal long-term dexamethasone exposure

Editorial: Machine learning-based methods for RNA data analysis—Volume II

Prognostic analysis of m6A-related genes as potential biomarkers in idiopathic pulmonary fibrosis

Exploring the causal relationship between gastroesophageal reflux and oral lesions: A mendelian randomization study

The sweet potato B-box transcription factor gene IbBBX28 negatively regulates drought tolerance in transgenic Arabidopsis

Development and performance evaluation of an artificial intelligence algorithm using cell-free DNA fragment distance for non-invasive prenatal testing (aiD-NIPT)

Functional analysis of differently expressed ferroptosis-related genes in patients with mitral valve prolapse

miR-17-92 cluster in osteoarthritis: Regulatory roles and clinical utility

Editorial: COVID-19 pandemics: Ethical, legal and social issues

Heart failure and late-onset Alzheimer’s disease: A Mendelian randomization study

A high-efficiency differential expression method for cancer heterogeneity using large-scale single-cell RNA-sequencing data

Novel targets in renal fibrosis based on bioinformatic analysis

Educational attainment and endometrial cancer: A Mendelian randomization study

Insights on variant analysis in silico tools for pathogenicity prediction

TSSNote-CyaPromBERT: Development of an integrated platform for highly accurate promoter prediction and visualization of Synechococcus sp. and Synechocystis sp. through a state-of-the-art natural language processing model BERT

The role of angiotensin I converting enzyme insertion/deletion polymorphism in the severity and outcomes of COVID-19 patients

Transcriptome analysis reveals key drought-stress-responsive genes in soybean

Identification and characterization of novel elastin gene mutations in eleven families with supravalvular aortic stenosis

A signal recognition particle-related joint model of LASSO regression, SVM-RFE and artificial neural network for the diagnosis of systemic sclerosis-associated pulmonary hypertension

A network meta-analysis to evaluate the efficacy of traditional Chinese medicine on intestinal flora in patients with gastrointestinal cancer

Commentary: Case report: Optic atrophy and nephropathy with m.13513G>A/MT-ND5 mtDNA pathogenic variant

Transcriptional mapping of the macaque retina and RPE-choroid reveals conserved inter-tissue transcription drivers and signaling pathways

Comprehensive bioinformatics analysis reveals biomarkers of DNA methylation-related genes in varicose veins

Clinical genetics of spondylocostal dysostosis: A mini review

A machine learning framework for scRNA-seq UMI threshold optimization and accurate classification of cell types

Research advances in roles of microRNAs in nasal polyp

Network pharmacology- and molecular docking-based approaches to unveil the pharmacological mechanisms of dihydroartemisinin against esophageal carcinoma

Prognostic necroptosis-related gene signature aids immunotherapy in lung adenocarcinoma

Shared mechanisms of neural circuit disruption in tuberous sclerosis across lifespan: Bridging neurodevelopmental and neurodegenerative pathology

Cancer-associated fibroblast-related gene signatures predict survival and drug response in patients with colorectal cancer

SNP-based bulk segregant analysis revealed disease resistance QTLs associated with northern corn leaf blight in maize

Construction of the model for predicting prognosis by key genes regulating EGFR-TKI resistance

Integrating genome-wide association studies and population genomics analysis reveals the genetic architecture of growth and backfat traits in pigs

Positive regulators of T cell proliferation as biomarkers for predicting prognosis and characterizing the immune landscape in lung adenocarcinoma

Case report: Identification of a frameshift mutation in GC enrichment and the GCC repeat region of the androgen insensitivity receptor (AR) gene in a patient with complete androgen insensitivity syndrome by whole-exome sequencing (WES) combined with specific PCR and deep sequencing

Do the diverse phenotypes of Prader-Willi syndrome reflect extremes of covariation in typical populations?

The relationship between 896A/G (rs4986790) polymorphism of TLR4 and infectious diseases: A meta-analysis

DNA computing for gastric cancer analysis and functional classification

Exposure to endosulfan can cause long term effects on general biology, including the reproductive system of mice

Analyzing the Korean reference genome with meta-imputation increased the imputation accuracy and spectrum of rare variants in the Korean population

Editorial: Non-lethal approaches in environmental science

Clinical heterogeneity of hyperornithinemia-hyperammonemia-homocitrullinuria syndrome in thirteen palestinian patients and report of a novel variant in the SLC25A15 gene

Applications of machine learning in metabolomics: Disease modeling and classification

Editorial: Small ruminant breeding in the age of genomics

Construction of m7G subtype classification on heterogeneity of sepsis

Transcriptome analysis reveals potential marker genes for diagnosis of Alzheimer’s disease and vascular dementia

Expression patterns of platinum resistance-related genes in lung adenocarcinoma and related clinical value models

Genes in pediatric pulmonary arterial hypertension and the most promising BMPR2 gene therapy

Non-coding RNAs in ossification of the posterior longitudinal ligament

Epigenomic signatures associated with spontaneous and replication stress-induced DNA double strand breaks

Integrative analyses of potential biomarkers and pathways for non-obstructive azoospermia

A GHKNN model based on the physicochemical property extraction method to identify SNARE proteins

Editorial: Gene regulation mediated by competing RNA: From benchside to bedside

Construction of cuproptosis-related gene signature to predict the prognosis and immunotherapy efficacy of patients with bladder cancer through bioinformatics analysis and experimental validation

Case report: A novel heterozygous synonymous variant in deep exon region of NIPBL gene generating a non-canonical splice donor in a patient with cornelia de lange syndrome

Development and validation of a chromatin regulator prognostic signature in colon adenocarcinoma

Transcriptome analysis of pika heart tissue reveals mechanisms underlying the adaptation of a keystone species on the roof of the world

Identification of LTBP2 gene polymorphisms and their association with thoracolumbar vertebrae number, body size, and carcass traits in Dezhou donkeys

Whole-exome sequencing of selected bread wheat recombinant inbred lines as a useful resource for allele mining and bulked segregant analysis

Novel insight of N6-methyladenosine modified subtypes in abdominal aortic aneurysm

Comparison of detection methods and genome quality when quantifying nuclear mitochondrial insertions in vertebrate genomes

TLsub: A transfer learning based enhancement to accurately detect mutations with wide-spectrum sub-clonal proportion

Genome-wide and molecular characterization of the DNA replication helicase 2 (DNA2) gene family in rice under drought and salt stress

Impact of polymorphisms in genes orchestrating innate immune responses on replication kinetics of Torque teno virus after kidney transplantation

Responsive and intelligent service recommendation method based on deep learning in cloud service

Identifying key m6A-methylated lncRNAs and genes associated with neural tube defects via integrative MeRIP and RNA sequencing analyses

Forensic age estimation from human blood using age-related microRNAs and circular RNAs markers

Establishing a glutamine metabolism-based model for predicting the prognosis of low-grade glioma

Shared genetic mechanism between type 2 diabetes and COVID-19 using pathway-based association analysis

Causal effects of homocysteine levels on the components of sarcopenia: A two-sample mendelian randomization study

A novel heterozygous SIX1 missense mutation resulted in non-syndromic unilateral hearing loss

Genome editing for vegetable crop improvement: Challenges and future prospects

Coexpression network analysis of human candida infection reveals key modules and hub genes responsible for host-pathogen interactions

Transcript variants of long-chain acyl-CoA synthase 1 have distinct roles in sheep lipid metabolism

Integrated transcriptome and metabolome profiling of Camellia reticulata reveal mechanisms of flower color differentiation

Improving the prediction for the response to radiotherapy of clinical tumor samples by using combinatorial model of MicroRNA expression

Mutational analysis of ribosomal proteins in a cohort of pediatric patients with T-cell acute lymphoblastic leukemia reveals Q123R, a novel mutation in RPL10

Transcriptomic meta-analysis reveals unannotated long non-coding RNAs related to the immune response in sheep

Identification of subtypes of hepatocellular carcinoma and screening of prognostic molecular diagnostic markers based on cell adhesion molecule related genes

AnnotaPipeline: An integrated tool to annotate eukaryotic proteins using multi-omics data

Identification of a novel AIFM1 variant from a Chinese family with auditory neuropathy

Heterochromatin in the fungal plant pathogen, Zymoseptoria tritici: Control of transposable elements, genome plasticity and virulence

A comprehensive prognostic and immune infiltration analysis of EXOC3L1 in pan-cancer

Single-step genomic BLUP with many metafounders

A depth-first search algorithm for oligonucleotide design in gene assembly

Distinct clinical pattern of colorectal cancer patients with POLE mutations: A retrospective study on real-world data

Circulating tumour cell combined with DNA methylation for early detection of hepatocellular carcinoma

N6-methyladenosine-modified lncRNA and mRNA modification profiles in cerebral ischemia-reperfusion injury

LncRNAs-associated to genomic instability: A barrier to cancer therapy effectiveness

Construction of a mitochondrial dysfunction related signature of diagnosed model to obstructive sleep apnea

Candidate pigmentation genes related to feather color variation in an indigenous chicken breed revealed by whole genome data

Genomic profiling and network-level understanding uncover the potential genes and the pathways in hepatocellular carcinoma

Keeping the balance: Trade-offs between human brain evolution, autism, and schizophrenia

Case report and a brief review: Analysis and challenges of prenatal imaging phenotypes and genotypes in Joubert syndrome

Bioinformatics-based study reveals that AP2M1 is regulated by the circRNA-miRNA-mRNA interaction network and affects Alzheimer’s disease

Case Report: Precision genetic diagnosis in a case of Dyggve-Melchior-Clausen syndrome reveals paternal isodisomy and heterodisomy of chromosome 18 with imprinting clinical implications

Temporal transcriptome of tomato elucidates the signaling pathways of induced systemic resistance and systemic acquired resistance activated by Chaetomium globosum

Case report: Mild phenotype of a patient with vascular Ehlers–Danlos syndrome and COL3A1 duplication mutation without alteration in the [Gly-X-Y] repeat sequence

Identification of susceptibility modules and hub genes of osteoarthritis by WGCNA analysis

Challenges of genetic diagnosis of inborn errors of metabolism in a major tertiary care center in Lebanon

Multilevel view on chromatin architecture alterations in cancer

GOLM1 is related to the inflammatory/immune nature of uveal melanoma and acts as a promising indicator for prognosis and immunotherapy response

Paternal epigenetic influences on placental health and their impacts on offspring development and disease

Editorial: Computational tools in inferring cancer tissue-of-origin and molecular classification towards personalized cancer therapy, volume III

Editorial: Cancer systems biology

Immune mechanism of low bone mineral density caused by ankylosing spondylitis based on bioinformatics and machine learning

Abnormal expression of TSG-6 disturbs extracellular matrix homeostasis in chondrocytes from endemic osteoarthritis

Construction of an immune-related ceRNA network to screen for potential diagnostic markers for autism spectrum disorder

Benefit sharing in genomic and biobanking research in Uganda: Perceptions of researchers and research ethics committee members

Integration of small RNAs from plasma and cerebrospinal fluid for classification of multiple sclerosis

Genome-wide analysis of MADS-box gene family in kiwifruit (Actinidia chinensis var. chinensis) and their potential role in floral sex differentiation

Understanding the genetics of peripartum depression: Research challenges, strategies, and opportunities

Comprehensive analysis of cuproptosis-related lncRNAs to predict prognosis and immune infiltration characteristics in colorectal cancer

Identification of four novel variants in the CDH23 gene from four affected families with hearing loss

Genetically supported causality between benign prostate hyperplasia and urinary bladder neoplasms: A mendelian randomization study

Antimicrobial Peptides Prediction method based on sequence multidimensional feature embedding

RNA interference analysis of potential functions of cyclin A in the reproductive development of male oriental river prawns (Macrobrachium nipponense)

Identification of RNA N6-methyladenosine regulation in epilepsy: Significance of the cell death mode, glycometabolism, and drug reactivity

miRNA–mRNA–protein dysregulated network in COPD in women

Simultaneous detection of novel genes and SNPs by adaptive p-value combination

Fragile sites, chromosomal lesions, tandem repeats, and disease

Siglec10—An immunosuppressor and negative predictor of survival prognosis in gliomas

Genetic profile in genes associated with muscle injuries and injury etiology in professional soccer players

Clinical value of M1 macrophage-related genes identification in bladder urothelial carcinoma and in vitro validation

The mechanism of lncRNAs in the crosstalk between epithelial-mesenchymal transition and tumor microenvironment for early colon adenocarcinoma based on molecular subtyping

Causal association between inflammatory bowel disease and IgA nephropathy: A bidirectional two-sample Mendelian randomization study

Exploring the causality between ankylosing spondylitis and atrial fibrillation: A two-sample Mendelian randomization study

Potential value of the homologous recombination deficiency signature we developed in the prognosis and drug sensitivity of gastric cancer

Transcriptome profiling of abdominal aortic tissues reveals alterations in mRNAs of Takayasu arteritis

Histones and their chaperones: Adaptive remodelers of an ever-changing chromatinic landscape

A comparative mRNA- and miRNA transcriptomics reveals novel molecular signatures associated with metastatic prostate cancers

Systematic pan-cancer analysis showed that RAD51AP1 was associated with immune microenvironment, tumor stemness, and prognosis

M7G-related LncRNAs: A comprehensive analysis of the prognosis and immunity in glioma

Transcriptomic responses to thermal stress in hybrid abalone (Haliotis discus hannai ♀ × H. fulgens ♂)

Prognostic value of PNN in prostate cancer and its correlation with therapeutic significance

Diagnostic implication of a circulating serum-based three-microRNA signature in hepatocellular carcinoma

Chromosome-level genome assembly of Dongxiang wild rice (Oryza rufipogon) provides insights into resistance to disease and freezing

Construction of artificial neural network diagnostic model and analysis of immune infiltration for periodontitis

Age-associated global DNA hypermethylation augments the sensitivity of hearts towards ischemia-reperfusion injury

Differentially expressed tRNA-derived fragments in bovine fetuses with assisted reproduction induced congenital overgrowth syndrome

Haplotype breeding for unlocking and utilizing plant genomics data

Comprehensive analyses of the microRNA–messenger RNA–transcription factor regulatory network in mouse and human renal fibrosis

Towards an accurate and robust analysis pipeline for somatic mutation calling

Construction and validation of a novel and superior protein risk model for prognosis prediction in esophageal cancer

Identification of a ferroptosis-related long noncoding RNA signature with a prognostic value in adrenocortical carcinoma

Construction of a potentially functional lncRNA-miRNA-mRNA network in sepsis by bioinformatics analysis

Case report: An infant boy with X-linked sideroblastic anaemia successfully treated by umbilical cord blood haematopoietic stem cell transplantation

Identification and characterization of circRNAs related to meat quality during embryonic development of the longissimus dorsi muscle in two pig breeds

SPCMLMI: A structural perturbation-based matrix completion method to predict lncRNA–miRNA interactions

Case report: Autosomal recessive bestrophinopathy with macular cysts and MNV over 13-year follow-up

Diverse roles of the CIPK gene family in transcription regulation and various biotic and abiotic stresses: A literature review and bibliometric study

Identification of immune-related signature for the prognosis and benefit of immunotherapy in triple-negative breast cancer

Emerging roles of growth factors in osteonecrosis of the femoral head

Case report: Unilateral panuveitis as a manifestation of Alport syndrome in a Chinese pediatric patient

Progress and prospectus in genetics and genomics of Phytophthora root and stem rot resistance in soybean (Glycine max L.)

Editorial: Genetics applied to mammal conservation

From phenotypical investigation to RNA-sequencing for gene expression analysis: A workflow for single and pooled rare cells

Establishment of lung adenocarcinoma classification and risk model based on necroptosis-related genes

Establishment of transgenic pigs overexpressing human PKD2-D511V mutant

A high-quality chromosome-level genome assembly of Pelteobagrus vachelli provides insights into its environmental adaptation and population history

Landscape of sialylation patterns identify biomarkers for diagnosis and prediction of response to anti-TNF therapy in crohn’s disease

Comparative analysis and phylogeny of mitochondrial genomes of Pentatomidae (Hemiptera: Pentatomoidea)

Are museums the future of evolutionary medicine?

Polygenic risk scores: An overview from bench to bedside for personalised medicine

Candidate loci for leaf angle in maize revealed by a combination of genome-wide association study and meta-analysis

Role of ferroptosis-associated genes in ankylosing spondylitis and immune cell infiltration

Extending the CARE Principles from tribal research policies to benefit sharing in genomic research

LINC00958 may be a new prognostic biomarker in various cancers: A meta-analysis and bioinformatics analysis

The role of RNA modification in the generation of acquired drug resistance in glioma

Commentary: Conserved polymorphic sequences protect themselves for future challenges

A novel immune signature predicts immunotherapy responsiveness and reveals the landscape of the tumor immune microenvironment in head and neck squamous cell carcinoma

Case report: Molecular analysis of a 47,XY,+21/46,XX chimera using SNP microarray and review of literature

The grain yield regulator NOG1 plays a dual role in latitudinal adaptation and cold tolerance during rice domestication

Characterization of glycosylation regulator-mediated glycosylation modification patterns and tumor microenvironment infiltration in hepatocellular carcinoma

Genome-wide association studies reveal putative QTLs for physiological traits under contrasting phosphorous conditions in wheat (Triticum aestivum L.)

Editorial: Genomic imprinting and monoallelic gene expression mechanisms and applications

PAIP2 is a potential diagnostic and prognostic biomarker of breast cancer and is associated with immune infiltration

Probabilistic edge inference of gene networks with markov random field-based bayesian learning

Intelligence, education level, and risk of Parkinson’s disease in European populations: A Mendelian randomization study

Examining the effects of Salmonella phage on the caecal microbiota and metabolome features in Salmonella-free broilers

Genome-wide analysis of NBS-LRR genes in Rosaceae species reveals distinct evolutionary patterns

Comparisons of constitutive resistances to soybean cyst nematode between PI 88788- and Peking-type sources of resistance in soybean by transcriptomic and metabolomic profilings

Ovarian cancer stem cells: Critical roles in anti-tumor immunity

Editorial: Genetics and molecular breeding in aquaculture animals

From the reference human genome to human pangenome: Premise, promise and challenge

An altered transcriptome underlies cln5-deficiency phenotypes in Dictyostelium discoideum

Editorial: Non-coding RNAs in ophthalmic diseases

HOXA-AS2 may be a potential prognostic biomarker in human cancers: A meta-analysis and bioinformatics analysis

Clinical exome-based panel testing for medically actionable secondary findings in a cohort of 383 Italian participants

A pyroptosis expression pattern score predicts prognosis and immune microenvironment of lung squamous cell carcinoma

Identification and expression analysis of zebrafish gnaq in the hypothalamic–Pituitary–Gonadal axis

Integrative multiomics evaluation reveals the importance of pseudouridine synthases in hepatocellular carcinoma

Immunogenic cell death-related classifications in breast cancer identify precise immunotherapy biomarkers and enable prognostic stratification

Low expression of INMT is associated with poor prognosis but favorable immunotherapy response in lung adenocarcinoma

College students’ screening early warning factors in identification of suicide risk

Targeted metabolomics reveals fatty acid abundance adjustments as playing a crucial role in drought-stress response and post-drought recovery in wheat

The role of costimulatory molecules in glioma biology and immune microenvironment

Resolution of otitis media in a humanized mouse model

Transcriptomic analysis of isolated and pooled human postmortem cerebellar Purkinje cells in autism spectrum disorders

Population genetic structure analysis and identification of backfat thickness loci of Chinese synthetic Yunan pigs

Characterization of pregnancy outcome of women with an offspring with inborn errors of metabolism: A population-based study

Genomic survey of TCP transcription factors in plants: Phylogenomics, evolution and their biology

Association between OPG polymorphisms and osteoporosis risk: An updated meta-analysis

ERBB2 as a prognostic biomarker correlates with immune infiltrates in papillary thyroid cancer

Congenital absence of the vas deferens with hypospadias or without hypospadias: Phenotypic findings and genetic considerations

Causal associations between CD40/CD40L and aortic diseases: A mendelian randomization study

A pyroptosis-related gene model and its correlation with the microenvironment of lung adenocarcinoma: A bioinformatics analysis and experimental verification

Editorial: Decoding the genetics of milk fat traits

Genomic analysis and biochemical profiling of an unaxenic strain of Synechococcus sp. isolated from the Peruvian Amazon Basin region

Horticultural applications of natural hybrids as an accelerating way for breeding woody ornamental plants

Identification of COVID-19 severity biomarkers based on feature selection on single-cell RNA-Seq data of CD8+ T cells

Retinoids in cancer chemoprevention and therapy: Meta-analysis of randomized controlled trials

Case Report: Novel pathogenic variant in NFIX in two sisters with Malan syndrome due to germline mosaicism

The multidimensional legal nature of personal genomic sequence data: A South African perspective

The transcriptome pattern of liver, spleen and hypothalamus provides insights into genetic and biological changes in roosters in response to castration

Hsa_circ_0074158 regulates the endothelial barrier function in sepsis and its potential value as a biomarker

Immunogenic cell death-related gene landscape predicts the overall survival and immune infiltration status of ovarian cancer

The prevalence of germline pathogenic variants in Estonian colorectal cancer patients: results from routine clinical setting 2016–2021

Identification of polyunsaturated fatty acids related key modules and genes in metabolic dysfunction-associated fatty liver disease using WGCNA analysis

Case report: Familial glycogen storage disease type IV caused by novel compound heterozygous mutations in a glycogen branching enzyme 1 gene

The advanced lung cancer inflammation index predicts chemotherapy response and infection risk in multiple myeloma patients receiving induction chemotherapy

DOT1L inhibition does not modify the sensitivity of cutaneous T cell lymphoma to pan-HDAC inhibitors in vitro

Genomic approaches for improving grain zinc and iron content in wheat

Multifactor dimensionality reduction reveals the effect of interaction between ERAP1 and IFIH1 polymorphisms in psoriasis susceptibility genes

Structure and evolution of the squamate major histocompatibility complex as revealed by two Anolis lizard genomes

Molecular subtyping of esophageal squamous cell carcinoma by large-scale transcriptional profiling: Characterization, therapeutic targets, and prognostic value

Genome-wide identification and characterization profile of phosphatidy ethanolamine-binding protein family genes in carrot

Suppression of endogenous retroviral enhancers in mouse embryos derived from somatic cell nuclear transfer

Eastern king prawn Penaeus plebejus stock enhancement—Genetic evidence that hatchery bred prawns have survived in the wild after release

Clinical detection, diagnosis and treatment of morphological abnormalities of sperm flagella: A review of literature

Bioinformatic analysis of the RNA expression patterns in microgravity-induced bone loss

A neutrophil extracellular traps-associated lncRNA signature predicts the clinical outcomes in patients with lung adenocarcinoma

The effect of heteroscedasticity on the prediction efficiency of genome-wide polygenic score for body mass index

Identification of biomarkers in nonalcoholic fatty liver disease: A machine learning method and experimental study

Individual and combined effects of the GSTM1, GSTT1, and GSTP1 polymorphisms on type 2 diabetes mellitus risk: A systematic review and meta-analysis

Dissecting the multifaceted contribution of the mitochondrial genome to autism spectrum disorder

TLR3 serves as a novel diagnostic and prognostic biomarker and is closely correlated with immune microenvironment in three types of cancer

Integrated bioinformatics, network pharmacology, and artificial intelligence to predict the mechanism of celastrol against muscle atrophy caused by colorectal cancer

Adverse effect signature extraction and prediction for drugs treating COVID-19

A comparative analysis of telomere length maintenance circuits in fission and budding yeast

Identification and validation of neurotrophic factor-related genes signature in HNSCC to predict survival and immune landscapes

METTL16 regulates m6A methylation on chronic hepatitis B associated gene HLA-DPB1 involved in liver fibrosis

Construction of a ceRNA network in polycystic ovary syndrome (PCOS) driven by exosomal lncRNA

Establishing a database for sickle cell disease patient mapping and survival tracking: The sickle pan-african research consortium Nigeria example

Ferroptosis in lymphoma: Emerging mechanisms and a novel therapeutic approach

Evolutionary genetics of malaria

Mechanisms underlying the therapeutic effects of 4-octyl itaconate in treating sepsis based on network pharmacology and molecular docking

Age at menarche and ischemic heart disease: An update mendelian randomization study

Association mapping for important agronomic traits in wild and cultivated Vigna species using cross-species and cross-genera simple sequence repeat markers

Prognostic value and immunological characteristics of a novel cuproptosis-related long noncoding RNAs risk signature in kidney renal clear cell carcinoma

Lipid metabolism characterization in gastric cancer identifies signatures to predict prognostic and therapeutic responses

Non-invasive prenatal testing for autosomal recessive disorders: A new promising approach

LABAMPsGCN: A framework for identifying lactic acid bacteria antimicrobial peptides based on graph convolutional neural network

A novel senescence-related lncRNA signature that predicts prognosis and the tumor microenvironment in patients with lung adenocarcinoma

High expression of TTC21A predicts unfavorable prognosis and immune infiltrates in clear cell renal cell carcinoma

Phylogenomics as an effective approach to untangle cross-species hybridization event: A case study in the family Nymphaeaceae

Whole genome sequencing of the fast-swimming Southern bluefin tuna (Thunnus maccoyii)

MiRNA-190a-5p promotes primordial follicle hyperactivation by targeting PHLPP1 in premature ovarian failure

Physical, language, neurodevelopment and phenotype-genotype correlation of Chinese patients with Mowat-Wilson syndrome

A novel ten-gene prognostic signature for cervical cancer based on CD79B-related immunomodulators

Corrigendum: The heart of silk road “Xinjiang”, its genetic portray, and forensic parameters inferred from autosomal STRs

The barley DIR gene family: An expanded gene family that is involved in stress responses

A panel of seven immune-related genes can serve as a good predictive biomarker for cervical squamous cell carcinoma

Genetic and epigenetic regulation of growth, reproduction, disease resistance and stress responses in aquaculture

A novel signature to predict the neoadjuvant chemotherapy response of bladder carcinoma: Results from a territory multicenter real-world study

TRPV4 mRNA is elevated in the caudate nucleus with NPH but not in Alzheimer’s disease

Editorial: Role of epigenetic regulators in the initiation, progression, and metastasis of cancer

Impact of epistasis effects on the accuracy of predicting phenotypic values of residual feed intake in U. S Holstein cows

Integrated analyses of the methylome and transcriptome to unravel sex differences in the perirenal fat from suckling lambs

The expression of apoptosis related genes in HK-2 cells overexpressing PPM1K was determined by RNA-seq analysis

Novel peripheral blood diagnostic biomarkers screened by machine learning algorithms in ankylosing spondylitis

Discovering favorable genes, QTLs, and genotypes as a genetic resource for sesame (Sesamum indicum L.) improvement

Comprehensive analysis of lysine lactylation in Frankliniella occidentalis

Influence of single-cell RNA sequencing data integration on the performance of differential gene expression analysis

Rounding up the annual ryegrass genome: High-quality reference genome of Lolium rigidum

Case report: Five-year periodontal management of a patient with two novel mutation sites in ELANE-induced cyclic neutropenia

The role of SELENBP1 and its epigenetic regulation in carcinogenic progression

Comprehensive analysis of differentially expressed miRNAs in mice with kidney injury induced by chronic intermittent hypoxia

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The mechanism of lncRNAs in the crosstalk between epithelial-mesenchymal transition and tumor microenvironment for early colon adenocarcinoma based on molecular subtyping

Content Provider	frontiers
Author	Liang, Hanlin Zhao, Yi Liu, Kai Xiao, Yajie Chen, Kexu Li, Delan Zhong, Shupeng Zhao, Zhikun Wu, Dongfang Peng, Yu
Abstract	A large number of colon adenocarcinoma (COAD) patients are already advanced when diagnosed. In this study, we aimed to further understand the mechanism of tumor development in early COAD by focusing on epithelial-mesenchymal transition (EMT) and long non-coding RNAs (lncRNAs). Expression profiles of early COAD patients were obtained from public databases. EMT-related lncRNAs were used as a basis for constructing molecular subtypes through unsupervised consensus clustering. Genomic features, pathways and tumor microenvironment (TME) were compared between two subtypes. LncATLAS database was applied to analyze the relation between lncRNAs and transcription factors (TFs). First order partial correlation analysis was conducted to identify key EMT-related lncRNAs.C1 and C2 subtypes with distinct prognosis were constructed. Oncogenic pathways such as EMT, KRAS signaling, JAK-STAT signaling, and TGF-β signaling were significantly enriched in C2 subtype. Higher immune infiltration and expression of immune checkpoints were also observed in C2 subtype, suggesting the key EMT-related lncRNAs may play a critical role in the modulation of TME. In addition, JAK-STAT signaling pathway was obviously enriched in upregulated TFs in C2 subtype, which indicated a link between key lncRNAs and JAK-STAT signaling that may regulate TME. The study further expanded the research on the role of EMT-related lncRNAs in the early COAD. The six identified EMT-related lncRNAs could serve as biomarkers for early screening COAD.
ISSN	16648021
DOI	10.3389/fgene.2022.997739
Volume Number	13
Journal	Frontiers in Genetics
Language	English
Publisher Date	2022-11-16
Access Restriction	Open
Subject Keyword	Transcription Factors Colon adenocarcinoma Long non-coding RNAs Tumor Microenvironment Biomarkers Epithelial-Mesenchymal Transition Bioinformatics analysis
Content Type	Text
Resource Type	Article
Subject	Genetics Molecular Medicine Genetics (clinical)

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