Genomics

Article	Citations
Genomic insights into young stock survival in Danish Jersey cattle: A breed-specific QTL on chromosome 10 and its regulatory potential	207
Genome-wide identification of walnut (Juglans regia) PME gene family members and expression analysis during infection with Cryptosphaeria pullmanensis pathogens	173
Assessing the relationship between the in silico predicted consequences of 97 missense mutations mapping to 68 genes related to lipid metabolism and their association with porcine fatness traits	56
Screening of hair follicle telogen-associated circRNAs in sheep and construction of their ceRNA network	51
Multi-omics network analysis on samples from sequential biopsies reveals vital role of proliferation arrest for Macrosteatosis related graft failure in rats after liver transplantation	47
Comprehensive expression genome-wide association study of long non-coding RNAs in four porcine tissues	43
Transcriptomic responses of peripheral blood leukocytes to cardiac surgery after acute inflammation, and three months recovery	43
Identification and validation of CRLF1 and NRG1 as immune-related signatures in hypertrophic scar	41
Comparative genomics of Bacillus anthracis A and B-clades reveals genetic variation in genes responsible for spore germination	37
Elucidating the landscape of genome-wide chromatin interaction sites of the lncRNA TUG1 in bovine cell lines and liver tissue	37
Transcriptomic analysis of distinct mantle regions in yellow- and black-shelled Asian clam (Corbicula fluminea): Identification of genes associated with Shell biomineralization and pigment deposition	35
Transcriptional landscape of Brachypodium distachyon roots during interaction with Bacillus velezensis strain B26	31
Transcriptome-wide identification of development related genes and pathways in Tribolium castaneum	28
STAT5A modulates gastric cancer progression via upregulation of CD44	27
Mesenchymal stem cell-regulated miRNA-mRNA landscape in acute-on-chronic liver failure	27
Expression profiling, functional characterization, and potential functional variants of the COL7A1 gene in sheep horn development	26
Mechanisms of ferroptosis with immune infiltration and inflammatory response in rotator cuff injury	25
Dynamics of RNA m5C modification during brain development	25
Chromosome-level genome assembly of the Muscovy duck provides insight into fatty liver susceptibility	25
Comparative RNA-Seq analysis reveals insights in Salmonella disease resistance of chicken; and database development as resource for gene expression in poultry	24
Integrated analysis of lipid metabolism and differentially expressed genes reveal seed oil accumulation in field muskmelon	23
Single-cell RNA sequencing reveals a cellular atlas of the sheep testis	23
Melatonin promotes proliferation of Inner Mongolia cashmere goat hair follicle papilla cells through Wnt10b	22
Integrated analysis of transcriptomics and proteomics hinted that PI3k-Akt and TGF-beta signaling pathways may synergistically regulate calipash development of Chinese Soft-Shell turtle at embryonic s	22
DeepGEP: Deep learning for gene expression prediction from multi-omics in mammals	21

Inhibitor of Myom3 inhibits proliferation and promotes differentiation of sheep myoblasts	20
Comprehensive landscape of the T and B-cell repertoires of newly diagnosed gestational diabetes mellitus	19
Cost-effective genomic prediction of critical economic traits in sturgeons through low-coverage sequencing	19
Genetic analysis of blood traits and stress resistance in Kirghiz sheep	19
Ribosome profiling reveals dynamic translational landscape following X-ray irradiation	19
Comparative analysis of capture methods for genomic profiling of circulating tumor cells in colorectal cancer	18
Intestinal epithelial adaptations to vertical sleeve gastrectomy defined at single-cell resolution	18
Whole-transcriptome analysis of TCM effects on growth and immune regulation in Pelodiscus sinensis via coding and non-coding RNAs	18
Ovarian transcriptome and metabolic responses of RNAi-mediated farnesyl pyrophosphate synthase knockdown in Neocaridina denticulata sinensis	17
Transcriptome profile analysis of miRNA and mRNA in chicken embryo gonad sex differentiation	17
Chromatin accessibility in gill tissue identifies candidate genes and loci associated with aquaculture relevant traits in tilapia	17
Draft genome sequence of Kodamaea ohmeri, an emerging human pathogen	16
Mechanism of lead resistance in Wickerhamomyces anomalus: Insights from whole genome sequencing	16
Validation of reference-assisted assembly using existing and novel Heliothine genomes	16
Editorial Board	16
Epigenomic analysis of the myometrium during late implantation revealed regulatory elements in genes related to the cellular zinc homeostasis pathway in pigs	16
Identification of cross-talk pathways and PANoptosis-related genes in periodontitis and atherosclerosis by bioinformatics analysis and machine learning	16
Comprehensive analysis of transcriptome-wide N6-methyladenosine methylomes in the Barrett's esophagus in rats	16
Identification of heat stress-related genomic regions by genome-wide association study in Solanum tuberosum	16
miR-210 promotes immune- and suppresses oocyte meiosis-related genes in the zebrafish ovarian cells	16
Preliminary construction of non-coding RNAs and ceRNA regulatory networks mediated by exosomes in porcine follicular fluid	16
Benchmarking of structural variant detection in the tetraploid potato genome using linked-read sequencing	15
Exosomes derived from ovarian cancer cells regulate proliferation and migration of cancer-associated fibroblasts	15
QTL mapping and candidate gene identification for corn leaf aphid resistance (Rhopalosiphum maidis F.) in maize (Zea mays L.) using SLAF-seq	15
Retraction notice to “Relationship between common eNOS gene polymorphisms and predisposition to coronary artery disease: Evidence from a meta-analysis of 155 published association studies” [Genomics,	15
Hypoxic environment promotes angiogenesis and bone bridge formation by activating Notch/RBPJ signaling pathway in HUVECs	15
Hydrogen improves exercise endurance in rats by promoting mitochondrial biogenesis	15
Whole-genome resequencing and RNA-seq analysis implicates GPR75 as a potential genetic basis related to retarded growth in South China carp (Cyprinus carpio rubrofuscus)	15
Interaction-integrated linear mixed model reveals 3D-genetic basis underlying Autism	15
Genome wide association study of genes controlling resistance to Didymella rabiei Pathotype IV through genotyping by sequencing in chickpeas (Cicer arietinum)	15
A chromosome-level genome assembly of the potato grouper (Epinephelus tukula)	14
Differential m6A methylation landscapes in breast and leg muscles of Zhijin white geese: Epigenetic insights into muscle development	14
The impact of Piscirickettsia salmonis infection on genome-wide DNA methylation profile in Atlantic Salmon	14
The complex and dynamic mitochondrial genome of garlic (Allium sativum): Insights from structural and evolutionary analysis	14
Comprehensive assembly and comparative examination of the full mitochondrial genome in Castanea mollissima Blume	14
A comprehensive coding and microRNA transcriptome of vertebral bone in postlarvae and juveniles of Senegalese sole (Solea senegalensis)	14
INFO GRAB: An interactive shiny application for gene expression analysis and visualization	14
Molecular features of external Auditory Canal cholesteatoma by microbial metagenomic sequencing	14
Complete genome sequence analysis of a plant growth-promoting phylloplane Bacillus altitudinis FD48 offers mechanistic insights into priming drought stress tolerance in rice	14
Structural and functional dysbiosis of gut microbiota in Tibetan subjects with coronary heart disease	13
Structural analysis of the mitochondrial genome of Santalum album reveals a complex branched configuration	13
Duodenal–Jejunal bypass improves metabolism and re-models extra cellular matrix through modulating ceRNA network	13
Algicidal process and mechanisms of Enterobacter hormaechei F2 revealed by an integrated transcriptomic and metabolomic approach	13
Effectiveness of a novel rat model of off-target PLA2R1 knockout to renal impairment	13
High-quality genome and transcriptome analyses under temperature stress reveal heat shock protein-centric adaptive enhancement mechanisms in Taiwanese loach	13
Ferulic acid mediates Mongolian horse skeletal muscle fiber remodeling through PDK1	13
An improved, chromosome-level genome of the giant panda (Ailuropoda melanoleuca)	13
High-throughput characterization of 5886 HER2 variants identifies 112 new in cellulo gain-of-function mutations	13
Genomic insights into Paspalum vaginatum: Mitochondrial and chloroplast genome mapping, evolutionary insights, and organelle-nucleus communication	12
Genome-wide sequence divergence of satellite DNA could underlie meiotic failure in male hybrids of bighead catfish and North African catfish (Clarias, Clariidae)	12

Lineage-specific expansion and functional divergence of β-keratin genes underlying shell evolution in turtles	12
The completed genome sequence of Pestalotiopsis versicolor, a pathogenic ascomycete fungus with implications for bayberry production	12
Dynamic alterations of the transcriptome-wide m6A methylome in cytogenetically normal acute myeloid leukaemia during initial diagnosis and relapse	12
Dbert2_LR: A deep learning-based model for predicting cis-regulatory elements in crops	12
Epigenome-wide DNA methylation and transcriptome profiling of localized and locally advanced prostate cancer: Uncovering new molecular markers	12
Liver transcriptomic and proteomic analyses provide new insight into the pathogenesis of liver fibrosis in mice	11
Integrated RNA-seq and ATAC-seq analysis of miR-101 in bovine somatic cell reprogramming	11
Loss-of-function variant in the ovine TMCO6 gene in North Country Cheviot sheep with motor neuron disease	11
Single-cell transcriptomic analyses provide insights into TME related with tumor-promoting in AIDS-CNS-DLBCL	11
Cultivation regimes modulate flavonoid metabolism in rice: Integration of metabolomics and transcriptomics reveals NPK and density effects	11
Transcriptome and metabolome analysis of the developmental changes in Cynanchum thesioides anther	11
Assembly and comparative analysis of the complete mitochondrial genome of Vaccinium carlesii Dunn	11
Molecular mapping and development of SSR markers associated with Chilli leaf curl virus resistance in chilli (Capsicum annuum L.)	11
“Genome-based in silico assessment of biosynthetic gene clusters in Planctomycetota: Evidences of its wide divergent nature”	11
Advancements in long-read genome sequencing technologies and algorithms	11
Identification of prognostic biomarkers for cholangiocarcinoma by combined analysis of molecular characteristics of clinical MVI subtypes and molecular subtypes	11
The FDX1 methylation regulatory mechanism in the malignant phenotype of glioma	11
A genome-wide association scan reveals novel loci for facial traits of Koreans	11
Identification of rat Vstm1 with conservative anti-inflammatory effect between rat and human homologs	11
Deep sequencing reveals recurrent somatic mutations and distinct molecular subgroups in gastric cancer in Mizo population, North East India	11
Comparative transcriptome and physiological analyses of the Polygonatum odoratum (Mill.) Druce rhizome responses to continuous cropping	11
Spatial transcriptomics: Technologies, applications and experimental considerations	11
Expression profiles of lncRNAs, miRNAs, and mRNAs during the proliferative phase of liver regeneration in mice with liver fibrosis	11
Effects and mechanisms of substance P on the proliferation and angiogenic differentiation of bone marrow mesenchymal stem cells: Bioinformatics and in vitro experiments	11
Combined transcriptome and metabolome analysis reveal that the white and yellow mango pulp colors are associated with carotenoid and flavonoid accumulation, and phytohormone signaling	10
The mitochondria-mediated regulation network on cellular oxygen metabolism capacity revealed by bovine cybrids model	10
Identification of aberrant plasma vesicles containing AAK1 and CCDC18-AS1 in adolescents with major depressive disorder and preliminary exploration of treatment efficacy	10
Pan-genomic, transcriptomic, and miRNA analyses to decipher genetic diversity and anthocyanin pathway genes among the traditional rice landraces	10
Time-course with multi-omics reveals hyperlipidemia dysregulates diurnal rhythms in gut-liver axis	10
Exome analyses unravel the genetic architecture of Mendelian dominant nonsyndromic orofacial clefts	10
16S rDNA sequencing reveal synergistic effects of silkworm feces and earthworms on nutrient-poor soil microbial community structure and function in Guangxi	10
Identifying and characterizing a novel APC promoter 1B deletion in a Chinese family with familial adenomatous polyposis	10
Integrated analyses provide insights into the seed dormancy mechanisms of the endangered plant Sinojackia sarcocarpa	10
MicroRNA expression profiles reveal wool development and fineness regulation in Gansu alpine fine-wool sheep	10
Identification and validation of ferroptosis-related hub genes and immune infiltration in liver ischemia-reperfusion injury	10
GCN2-eIF2α signaling pathway negatively regulates the growth of triploid crucian carp	10
Pancancer analysis of SKA1 mutation and its association with the diagnosis and prognosis of human cancers	10
Identification and functional prediction of ceRNA networks regulating ATP levels in boar spermatozoa treated with non-thermal plasma	10
Metabolomic and transcriptomic profiles after immune stimulation in the zebrafish testes	10
Complex chromosomal 6q rearrangements revealed by combined long-molecule genomics technologies	10
Whole-genome sequencing of two captive black soldier fly populations: Implications for commercial production	10
Development of Nanopore sequencing-based full-length transcriptome database toward functional genome annotation of the Pacific oyster, Crassostrea gigas	10
Integrative analysis of genes provides insights into the molecular and immune characteristics of mitochondria-related genes in atherosclerosis	10
Single-cell transcriptomics identifies NF-κB/STAT3-associated neutrophil inflammatory reprogramming in rheumatoid arthritis synovium	10
Co-regulatory crosstalk between m5C, m7G, and o8G RNA modifications via QKI/YBX1 axis in myocardial ischemia-reperfusion injury	10
Genome sequencing and assembly of Indian golden silkmoth, Antheraea assamensis Helfer (Saturniidae, Lepidoptera)	10
Multiple omics analysis reveals the regulation of SIRT5 on mitochondrial function and lipid metabolism during the differentiation of bovine preadipocytes	10
PLOD1 promote proliferation and migration with glycolysis via the Wnt/β-catenin pathway in THCA	10
Transcriptome-wide profiling of mRNA N6-methyladenosine modification in rice panicles and flag leaves	9
Chromosome-level genome assembly and evolutionary analysis of the Nao-zhou stock of large yellow croaker (Larimichthys crocea)	9
A ∼ 4.1 kb deletion in IRX1 gene upstream is completely associated with rumplessness in Piao chicken	9
Dynamic expression pattern and regulatory network of circRNAs during chicken ovarian development	9
Targeted epigenome sequencing of eosinophils reveals CpG sites and regulatory variants associated with asthma	9
Comprehensive multi-omics analysis and experimental verification reveal PFDN5 is a novel prognostic and therapeutic biomarker for gastric cancer	9
METTL14 facilitates the process of sexual reversal via m6A RNA methylation in Pelodiscus sinensis	9
miR-10167-3p targets TCF7L1 to inhibit bovine adipocyte differentiation and promote bovine adipocyte proliferation	9
Phylogenomics and gene selection in Aspergillus welwitschiae: Possible implications in the pathogenicity in Agave sisalana	9
Comparative brain transcriptomics reveals neural regulatory networks underlying heterosis in crucian carp hybrids	9
The role of transforming growth factor alpha in mediating the malignant transformation of human lung epithelial cells induced by single-walled carbon nanotubes and its role in the progression of non-s	9
Compartmentalized co-cultivation and temporal transcriptomics reveal SexM-mediated crosstalk between pheromone signaling and metabolic reprogramming in the industrial carotenoid producer Blakeslea tri	9
Methylation microarray-based detection of clinical copy-number aberrations in CLL benchmarked to standard FISH analysis	9
Testing the generalizability of cfDNA fragmentomic features across different studies for cancer early detection	9
Integration of ATAC-seq and RNA-seq unravels chromatin accessibility associated with gonad development after sex reversal in GIFT tilapia	9
RNAseq analysis of mutants in coding and non-coding transcription of phosphate genes in the yeast Saccharomyces cerevisiae	9
Gap-free genome assembly and comparative analysis reveal the evolution and lignin degradation mechanisms of Cylindrobasidium torrendii	9
Evaluation of two SARS-CoV-2 whole genome amplification and sequencing workflows for genomic surveillance and outbreak analysis in the clinical microbiology laboratory	9
DeepPlnc: Bi-modal deep learning for highly accurate plant lncRNA discovery	9
Integrated genomic and transcriptomic analysis identifies novel candidate genes affecting carcass backfat thickness in pigs	9
De novo genome assembly of the bioluminescent mushroom Omphalotus guepiniiformis reveals an Omphalotus-specific lineage of the luciferase gene block	9
Regulation of DNA methylation during the testicular development of Shaziling pigs	9
Deciphering the optimal genomic selection (GS) strategy of alkalinity tolerance trait in spotted sea bass (Lateolabrax maculatus)	9
Distinct transcriptional profiles in rat thyroid glands after developmental exposure to three in vitro thyroperoxidase inhibiting chemicals	9
Deciphering the complete mitochondrial genome of Halogeton glomeratus structural features and RNA editing events	9
The SOC1 gene plays an important role in regulating litchi flowering time	9
Benchmarking of single nuclei RNA-seq methods on human post-mortem brain tissue	9
Decoding ferroptosis in alcoholic hepatitis: A bioinformatics approach to hub gene identification	9
Role of autophagy-related genes in liver cancer prognosis	9
Transcriptomic analysis of the longissimus thoracis muscle in pigs has identified molecular regulatory patterns associated with meat quality	8
Editorial Board	8
A chromosome-scale genome assembly of Malus domestica, a multi-stress resistant apple variety	8

Editorial Board	8
Study on differentially expressed genes and participating pathways of ectopic endometrium in adenomyosis patients with different data sets	8
Insights into identifying resistance genes for cold and disease stresses through chromosome-level reference genome analyses of Poncirus polyandra	8
Comprehensive analysis of differentially expressed mRNAs, circRNAs, and miRNAs and their ceRNA network in the testis of cattle–yak, yak, and cattle	8
A conjoint analysis of renal structure and omics characteristics reveal new insight to yak high-altitude hypoxia adaptation	8
Transcriptional and functional analysis of plasma exosomal microRNAs in acute viral myocarditis	8
Chromosome-level genome assembly and characterization of Kaixuan 016: A high-oleic peanut variety with improved agronomic traits developed through gamma-radiation-assisted breeding	8
Transcriptome-wide N6-methyladenosine (m6A) methylation profiling of long non-coding RNAs in ovarian endometriosis	8
Integrated gene co-expression network analysis and experimental validation revealed potential targets of human urine extract CDA-II in treating chronic myeloid leukemia	8
Whole genome sequencing of Tilletia laevis, the fungal pathogen causing common bunt	8
Comparative genomics reveals ample evidence to Ganoderma sinense cultivars for molecular identification and new FIP exploration	8
Integrating multi-omics analysis unveils the key mechanisms of PQS-enhanced Algicidal activity in Enterobacter hormaechei F2	8
Discovery of a novel miRNA involved in the regulation of male infertility in zebrafish	8
Pathogenic variants detected by RNA sequencing in Cornelia de Lange syndrome	8
Small non-coding RNAome changes during human chondrocyte senescence as potential epigenetic targets in age-related osteoarthritis	8
Mining 2 key candidate genes for pork tenderness in large White pigs based on GWAS, colocalization analysis, SMR and TWAS	8
Genome-wide association study identifies novel candidate genes linked to acute and chronic thermal stress resilience in olive flounder (Paralichthys olivaceus)	8
Genomics evolution of Jingmen viruses associated with ticks and vertebrates	8
RNA-seq analysis combined with insecticidal efficacy assays reveal the insecticidal molecular mechanism of benzaldehyde against Tribolium castaneum	8
Exploration of the mechanism of a novel enhancer on buffalo muscle development	8
WITHDRAWN: Chloroplast genome evolution of Berberis (Berberidaceae): Implications for phylogeny and metabarcoding	8
Mitophagy and mitochondrion-related expression profiles in response to physiological and pathological hypoxia in the corneal epithelium	8
Genome-wide identification of Tegillarca granosa ATP-binding cassette (ABC) transporter family related to arsenic toxicity	8
Small partial deletion of a highly GC-rich FOXF1 exon 1 in two deceased siblings with alveolar capillary dysplasia	8
Genome-wide identification and characterization of GST gene family associated with heat responses in Plectropomus leopardus	8
CircEML1 facilitates the steroid synthesis in follicular granulosa cells of chicken through sponging gga-miR-449a to release IGF2BP3 expression	8
Brain lncRNA-mRNA co-expression regulatory networks and alcohol use disorder	8
Development and validation of an integrated single-tube whole-genome amplification and library construction system for genomic selection in bovine preimplantation embryos	7
Identification of differentially expressed genes in the medial prefrontal cortex of rats subjected to chronic unpredictable mild stress and treated with electroacupuncture	7
Evolocumab protects mice from radiation-induced damage by affecting hematopoietic cell lineage	7
Genome-wide identification of the TIFY gene family in tobacco and expression analysis in response to Ralstonia solanacearum infection	7
Genomic diversity and signals of selection processes in wild and farm-reared red-legged partridges (Alectoris rufa)	7
Remodeling of Staphylococcus epidermidis genome over three decades of nosocomial exposure	7
PipeIT2: A tumor-only somatic variant calling workflow for molecular diagnostic Ion Torrent sequencing data	7
From genomes to phenomes: Multi-omics dissection of positive and balancing selection in Jinhua pig	7
The oral microbiome of newly diagnosed tuberculosis patients; a pilot study	7
SerpinB2 promotes the proliferation of glioma cells by regulating the cell cycle through the Wnt/β-catenin signaling pathway	7
Unmapped reads from whole-genome sequencing data reveal pathogen diversity in European and African cattle breeds	7
Chromosome-scale genome of Woonyoungia septentrionalis provides insights into sex differentiation and genomic evolution in Magnoliaceae	7
FOXCUT regulates the malignant phenotype of triple-negative breast Cancer via the miR-337-3p/ANP32E Axis	7
Integrated analysis of mRNA, circRNA, and miRNA reveals a ceRNA network underlying growth rate differences in the longissimus dorsi muscle of Saba pigs	7
Transcriptional changes in Tibetan pig ovaries and spleen during gestation	7
WITHDRAWN: WTAP contributes to the tumorigenesis of osteosarcoma via modulating ALB in an m6A-dependent manner	7
Whole transcriptome sequencing indicated the Anti-tumor immunity of NLRP3 in breast cancer	7
Identification of rare loss-of-function variants in FAM3B associated with non-syndromic orofacial clefts	7
Functional divergence of GLP genes between G. barbadense and G. hirsutum in response to Verticillium dahliae infection	7
Long intergenic non-protein coding RNA 00858 participates in the occurrence and development of esophageal squamous cell carcinoma through the activation of the FTO-m6A-MYC axis by recruiting ZNF184	7
Genomic and transcriptomic analyses reveal genetic adaptation to cold conditions in the chickens	7
Single-nucleus RNA sequencing reveals molecular determinants of functional and physiological differences between extraocular and quadriceps muscles in Macaca fascicularis	7
Whole genome sequencing of Crassostrea ariakensis (Mollusca: Ostreidae) and C. hongkongensis expands understandings of stress resistance in sessile oysters	7
Roxadustat protect mice from DSS-induced colitis in vivo by up-regulation of TLR4	7
Integrating phenotypic and ceRNA network analyses reveals potential hypoxia adaptation mechanisms in Tibetan sheep skeletal muscles	7
Transcriptional profiling of exosomes derived from plasma of canine with mammary tumor by RNA-seq analysis	7
Transcriptomics and virus-induced gene silencing identify defence-related genes during Ralstonia solanacearum infection in resistant and susceptible tobacco	7
The translation landscape revealed the novel micropeptides involved in myogenic differentiation of goat skeletal muscle satellite cells	7
Identification of CRKL as an oncogenic biomarker for prognosis and immunotherapy in melanoma, and its potential molecular mechanism	7
The structural variation landscape of the flat oyster genome	7
Guiding eQTL mapping and genomic prediction of gene expression in three pig breeds with tissue-specific epigenetic annotations from early development	7