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1.
Insect Mol Biol ; 33(1): 41-54, 2024 Feb.
Artigo em Inglês | MEDLINE | ID: mdl-37740676

RESUMO

Caddisworms (Trichoptera) spin adhesive silks to construct a variety of underwater composite structures. Many studies have focused on the fibroin heavy chain of caddisworm silk and found that it contains heavy phosphorylation to maintain a stable secondary structure. Besides fibroins, recent studies have also identified some new silk proteins within caddisworm silk. To better understand the silk composition and its secretion process, this study reports the silk gland proteome of a retreat-building caddisworm, Stenopsyche angustata Martynov (Trichoptera, Stenopsychidae). Using liquid chromatography tandem mass spectrometry (LC-MS/MS), 2389 proteins were identified in the silk gland of S. angustata, among which 192 were predicted as secreted silk proteins. Twenty-nine proteins were found to be enriched in the front silk gland, whereas 109 proteins were enriched in the caudal silk gland. The fibroin heavy chain and nine uncharacterized silk proteins were identified as phosphorylated proteins. By analysing the sequence of the fibroin heavy chain, we found that it contains 13 Gly/Thr/Pro-rich regions, 12 Val/Ser/Arg-rich regions and a Gly/Arg/Thr-rich region. Three uncharacterized proteins were identified as sericin-like proteins due to their larger molecular weights, signal peptides and repetitive motifs rich in serine. This study provides valuable information for further clarifying the secretion and adhesion of underwater caddisworm silk.


Assuntos
Bombyx , Fibroínas , Animais , Seda/química , Fibroínas/genética , Fibroínas/química , Insetos/metabolismo , Larva/metabolismo , Proteoma/metabolismo , Cromatografia Líquida , Espectrometria de Massas em Tandem , Bombyx/metabolismo , Proteínas de Insetos/metabolismo
2.
Yi Chuan ; 46(3): 219-231, 2024 Mar 20.
Artigo em Inglês | MEDLINE | ID: mdl-38632100

RESUMO

CRISPR/Cas9 gene editing technology, as a highly efficient genome editing method, has been extensively employed in the realm of animal husbandry for genetic improvement. With its remarkable efficiency and precision, this technology has revolutionized the field of animal husbandry. Currently, CRISPR/Cas9-based gene knockout, gene knock-in and gene modification techniques are widely employed to achieve precise enhancements in crucial production traits of livestock and poultry species. In this review, we summarize the operational principle and development history of CRISPR/Cas9 technology. Additionally, we highlight the research advancements utilizing this technology in muscle growth and development, fiber growth, milk quality composition, disease resistance breeding, and animal welfare within the livestock and poultry sectors. Our aim is to provide a more comprehensive understanding of the application of CRISPR/Cas9 technology in gene editing for livestock and poultry.


Assuntos
Sistemas CRISPR-Cas , Gado , Animais , Gado/genética , Aves Domésticas/genética , Edição de Genes/métodos , Técnicas de Introdução de Genes
3.
Mikrochim Acta ; 187(11): 600, 2020 10 09.
Artigo em Inglês | MEDLINE | ID: mdl-33034762

RESUMO

An electrochemical immunosensor based on ferrocene (Fc)-functionalized nanocomposites was fabricated as an efficient electroactive signal probe to amplify electrochemical signals for Salmonella typhimurium detection. The electrochemical signal amplification probe was constructed by encapsulating ferrocene into S. typhimurium-specific antimicrobial peptides Magainin I (MI)-Cu3(PO4)2 organic-inorganic nanocomposites (Fc@MI) through a one-step process. Magnetic beads (MBs) coupled with antibody were used as capture ingredient for target magnetic separation, and Fc@MI nanoparticles were used as signal labels in the immunoassays. The sandwich of MBs-target-Fc@MI assay was performed using a screen-printed carbon electrode as transducer surface. The immunosensor platform presents a low limit of detection (LOD) of 3 CFU·mL-1 and a linear range from 10 to 107 CFU·mL-1, with good specificity and precision, and was successfully applied for S. typhimurium detection in milk. Graphical abstract One-pot process antimicrobial peptides Magainin I-Cu3(PO4)2 organic-inorganic nanocomposites (Fc@MI) were used as ideal electrochemical signal label, integrating both essential functions of biological recognition and signal amplification. Screen-printed carbon electrode (SPCE) was used as the electrochemical system for Salmonella typhimurium detection.


Assuntos
Técnicas Eletroquímicas/instrumentação , Compostos Ferrosos/química , Imunoensaio/métodos , Metalocenos/química , Nanocompostos/química , Salmonella typhimurium/isolamento & purificação , Técnicas Eletroquímicas/métodos , Sensibilidade e Especificidade , Transdução de Sinais
4.
J Cell Biochem ; 120(11): 19107-19123, 2019 11.
Artigo em Inglês | MEDLINE | ID: mdl-31297870

RESUMO

Excessive plasma triglyceride (TG) and cholesterol levels promote the progression of several prevalent cardiovascular risk factors, including atherosclerosis, which is a leading death cause. Perilipin 5 (Plin5), an important perilipin protein, is abundant in tissues with very active lipid catabolism and is involved in the regulation of oxidative stress. Although inflammation and oxidative stress play a critical role in atherosclerosis development, the underlying mechanisms are complex and not completely understood. In the present study, we demonstrated the role of Plin5 in high-fat-diet-induced atherosclerosis in apolipoprotein E null (ApoE-/- ) mice. Our results suggested that Plin5 expressions increased in the artery tissues of ApoE-/- mice. ApoE/Plin5 double knockout (ApoE-/- Plin5-/- ) exacerbated severer atherogenesis, accompanied with significantly disturbed plasma metabolic profiles, such as elevated TG, total cholesterol, and low-density lipoprotein cholesterol levels and reduced high-density lipoprotein cholesterol contents. ApoE-/- Plin5-/- exhibited a higher number of inflammatory monocytes and neutrophils, as well as overexpression of cytokines and chemokines linked with an inflammatory response. Consistently, the IκBα/nuclear factor kappa B pathway was strongly activated in ApoE-/- Plin5-/- . Notably, apoptosis was dramatically induced by ApoE-/- Plin5-/- , as evidenced by increased cleavage of Caspase-3 and Poly (ADP-ribose) polymerase-2. In addition, ApoE-/- Plin5-/- contributed to oxidative stress generation in the aortic tissues, which was linked with the activation of phosphatidylinositol 3-kinase/protein kinase B and mitogen-activated protein kinases pathways. In vitro, oxidized low-density lipoprotein (ox-LDL) increased Plin5 expression in RAW264.7 cells. Its knockdown enhanced inflammation, apoptosis, oxidative stress, and lipid accumulation, while promotion of Plin5 markedly reduced all the effects induced by ox-LDL in cells. These studies strongly supported that Plin5 could be a new regulator against atherosclerosis, providing new insights on therapeutic solutions.


Assuntos
Apoptose , Aterosclerose/metabolismo , Peptídeos e Proteínas de Sinalização Intracelular/deficiência , Proteínas Musculares/deficiência , Estresse Oxidativo , Animais , Aterosclerose/genética , Aterosclerose/patologia , Caspase 3/genética , Caspase 3/metabolismo , Inflamação/genética , Inflamação/metabolismo , Inflamação/patologia , Peptídeos e Proteínas de Sinalização Intracelular/metabolismo , Camundongos , Camundongos Knockout para ApoE , Proteínas Musculares/metabolismo , Poli(ADP-Ribose) Polimerases/genética , Poli(ADP-Ribose) Polimerases/metabolismo , Células RAW 264.7
5.
J Cell Biochem ; 2017 Dec 07.
Artigo em Inglês | MEDLINE | ID: mdl-29215758

RESUMO

Excessive plasma triglyceride and cholesterol levels promote the progression of several prevalent cardiovascular risk factors, including atherosclerosis, which is a leading death cause. Perilipin 5 (Plin5), an important perilipin protein, is abundant in tissues with very active lipid catabolism, and is involved in the regulation of oxidative stress. Although, in?ammation and oxidative stress play a critical role in atherosclerosis development, the underlying mechanisms are complex and not completely understood. In the present study, we demonstrated the role of Plin5 in high-fat-diet-induced atherosclerosis in apolipoprotein E null (ApoE-/- ) mice. Our results suggested that Plin5 expressions increased in the artery tissues of ApoE-/- mice. ApoE/Plin5 double knockout (ApoE-/- Plin5-/- ) exacerbated severer atherogenesis, accompanied with significantly disturbed plasma metabolic profiles, such as elevated triglyceride (TG), total cholesterol (TC) and low-density lipoprotein cholesterol (LDLC) levels and reduced high-density lipoprotein cholesterol (HDLC) contents. ApoE-/- Plin5-/- exhibited higher number of inflammatory monocytes and neutrophils, as well as over-expression of cytokines and chemokines linked with inflammatory response. Consistently, IκBα/nuclear factor kappa B (NF-κB) pathway was strongly activated in ApoE-/- Plin5-/- . Notably, apoptosis was dramatically induced by ApoE-/- Plin5-/- , as evidenced by increased cleavage of Caspase-3 and Poly (ADP-ribose) polymerase-2 (PARP-2). In addition, ApoE-/- Plin5-/- contributed to oxidative stress generation in the aortic tissues, which was linked with the activation of phosphatidylinositol 3-kinase /protein kinase B (PI3K/AKT) and mitogen-activated protein kinases (MAPKs) pathways. In vitro, oxidized low-density lipoprotein (oxLDL) increased Plin5 expression in RAW264.7 cells. Its knockdown enhanced inflammation, apoptosis, oxidative stress and lipid accumulation, while promotion of Plin5 markedly reduced all the effects induced by ox-LDL in cells. These studies strongly supported that Plin5 could be a new regulator against atherosclerosis, providing new insights on therapeutic solutions. This article is protected by copyright. All rights reserved.

6.
Ann Vasc Surg ; 44: 419.e13-419.e17, 2017 Oct.
Artigo em Inglês | MEDLINE | ID: mdl-28483616

RESUMO

We describe the case of a patient with Budd-Chiari syndrome who presented with an unusual membranous obstruction of the inferior vena cava complicated by massive portal vein thrombosis (PVT). The patient underwent percutaneous transluminal balloon angioplasty through the right groin and was prescribed oral warfarin for 6 months. Treatment resulted in the complete disappearance of the PVT. This therapeutic strategy should be considered in the management of other cases of this rare, complex disease.


Assuntos
Angioplastia com Balão , Síndrome de Budd-Chiari/terapia , Veia Porta , Veia Cava Inferior , Trombose Venosa/terapia , Administração Oral , Anticoagulantes/administração & dosagem , Síndrome de Budd-Chiari/complicações , Síndrome de Budd-Chiari/diagnóstico por imagem , Angiografia por Tomografia Computadorizada , Humanos , Masculino , Pessoa de Meia-Idade , Tomografia Computadorizada Multidetectores , Flebografia/métodos , Veia Porta/diagnóstico por imagem , Resultado do Tratamento , Veia Cava Inferior/diagnóstico por imagem , Trombose Venosa/diagnóstico por imagem , Trombose Venosa/etiologia , Varfarina/administração & dosagem
7.
Vascular ; 25(6): 642-648, 2017 Dec.
Artigo em Inglês | MEDLINE | ID: mdl-28610476

RESUMO

Purpose To identify the characteristics and evaluate the long-term outcomes of endovascular treatment of Budd-Chiari syndrome with upper gastrointestinal hemorrhage. Methods Forty-seven consecutive Budd-Chiari syndrome patients with upper gastrointestinal hemorrhage were referred for the treatment with percutaneous transluminal balloon angioplasty, and subsequently underwent follow-up. Data were retrospectively collected and follow-up observations were performed at 1, 2, 2-5, and 5-8 years postoperatively. Results Cirrhosis was presented in 16 patients, and splenoportography reviewed obvious varices in 18 patients. Percutaneous transluminal balloon angioplasty was technically successful in all patients. Major procedure-related complications occurred in 3 of the 47 patients (6.38%). The cumulative 1, 2, 2-5, and 5-8 year primary patency rates were 100% (46/46), 93.2% (41/44), 90.9% (40/44), and 86.4% (19/22), respectively. The cumulative 1, 2, 2-5, and 5-8 year secondary patency rates were 100% (47/47), 100% (44/44), 100% (44/44), and 95.5% (21/22), respectively. Mean and median duration of primary patency was 65.17 ± 3.78 and 69.0 ± 5.69 months, respectively. No upper gastrointestinal hemorrhage recurred during follow-ups. The mean survival time was 66.97 ± 3.61 months and the median survival time was 69.0 ± 4.10 months. Conclusion PTBA was an effective treatment that can prevent recurrence of the life-threatening complications and ensured long-term satisfactory clinical outcomes for Budd-Chiari syndrome patients with upper gastrointestinal hemorrhage. Percutaneous transhepatic variceal embolization was not recommended for all Budd-Chiari syndrome patients with upper gastrointestinal hemorrhage.


Assuntos
Angioplastia com Balão , Síndrome de Budd-Chiari/terapia , Embolização Terapêutica , Hemorragia Gastrointestinal/terapia , Adulto , Idoso , Angioplastia com Balão/efeitos adversos , Síndrome de Budd-Chiari/complicações , Síndrome de Budd-Chiari/diagnóstico , Síndrome de Budd-Chiari/fisiopatologia , Embolização Terapêutica/efeitos adversos , Feminino , Hemorragia Gastrointestinal/diagnóstico , Hemorragia Gastrointestinal/etiologia , Hemorragia Gastrointestinal/fisiopatologia , Gastroscopia , Humanos , Masculino , Pessoa de Meia-Idade , Flebografia , Recidiva , Estudos Retrospectivos , Fatores de Risco , Fatores de Tempo , Resultado do Tratamento , Grau de Desobstrução Vascular , Adulto Jovem
8.
Radiol Med ; 122(6): 399-404, 2017 Jun.
Artigo em Inglês | MEDLINE | ID: mdl-28236047

RESUMO

PURPOSE: To prospectively determine the value of blood flow velocity in the inferior vena cava (IVC) on color Doppler ultrasonography for the optimization of the delay in scanning time after contrast injection during computed tomography (CT) venography in patients with Budd-Chiari syndrome (BCS) with IVC obstruction. METHODS: We enrolled 122 consecutive BCS patients with IVC obstruction. All patients underwent color Doppler ultrasonography, CT venography, and digital subtraction angiography (DSA) in that order prior to treatment. The delay in scanning time during CT venography was set at 120, 180, 240, and 300 s after contrast injection. The correlation between delay in CT scanning and IVC blood flow velocity on color Doppler ultrasonography was explored. Image quality was classified as good, moderate, or poor. Patients with good CT image quality were considered to have an optimal delay in scanning time. RESULTS: Delays in scanning time of 120, 180, 240, and 300 s yielded good-quality images in 2, 7, 49, and 64 patients, respectively. The corresponding IVC blood flow velocities in these patients were 16.10 ± 0.42 cm/s (range 15.8-16.4 cm/s), 12.90 ± 1.58 cm/s (range, 11-15 cm/s), 7.53 ± 1.35 cm/s (range 5-10 cm/s), and 1.95 ± 1.75 cm/s (range 0-5.5 cm/s). CONCLUSION: IVC blood flow velocity on color Doppler ultrasonography could serve as a useful tool for the optimization of the delay in scanning time during CT venography to ensure good-quality images for the diagnosis of BCS with IVC obstruction.


Assuntos
Síndrome de Budd-Chiari/fisiopatologia , Tomografia Computadorizada por Raios X , Ultrassonografia Doppler em Cores , Veia Cava Inferior/diagnóstico por imagem , Veia Cava Inferior/fisiopatologia , Adolescente , Adulto , Idoso , Velocidade do Fluxo Sanguíneo , Criança , Feminino , Humanos , Masculino , Pessoa de Meia-Idade , Flebografia/métodos , Estudos Prospectivos , Fatores de Tempo , Veia Cava Inferior/anormalidades , Adulto Jovem
9.
J Gastroenterol Hepatol ; 31(1): 222-8, 2016 Jan.
Artigo em Inglês | MEDLINE | ID: mdl-26102208

RESUMO

BACKGROUND AND AIMS: The restenosis following percutaneous transluminal balloon angioplasty (PTBA) is high for Budd-Chiari syndrome (BCS) patients with hepatic venous obstruction (HVO). We aim to evaluate the safety and long-term outcome of PTBA with a large balloon catheter in a large series of patients with HVO. METHODS: Between January 2005 and December 2013, 93 consecutive BCS patients with HVO were referred for PTBA and subsequently underwent color Doppler ultrasonography or angiography follow-up. Data were retrospectively collected, and follow-up observations were performed at 1-, 2-, 2- to 5-, and 5- to 8-years postoperatively. RESULTS: Percutaneous transluminal balloon angioplasty was technically successful in all patients. Ninety-one patients (97.85%) were treated with PTBA and two with PTBA and stent. Major procedure-related complications occurred in six of the 93 patients (6.45%). The cumulative 1-, 2-, 2- to 5-, and 5- to 8-year primary patency rates were 97.5%, 92.9%, 90%, and 86.5%, respectively. Cumulative 1-, 2-, 2- to 5-, and 5- to 8-year secondary patency rates were 100%, 100%, 98.6%, and 97.3%, respectively. Mean and median primary patency rates were 51.50 ± 3.01 months and 55.0 ± 3.63 months, respectively. Cumulative 1-, 2-, 2- to 5-, and 5- to 8-year survival rates were 98.75%, 98.6%, 100%, and 100%, respectively. Mean and median survival times were 53.10 ± 3.04 months and 55.0 ± 3.64 months, respectively. CONCLUSION: Percutaneous transluminal balloon angioplasty with a large balloon is a safe and effective treatment that could provide excellent rates of long-term patency and survival for the majority of Chinese patients with BCS and HVO.


Assuntos
Angioplastia com Balão/métodos , Síndrome de Budd-Chiari/terapia , Adolescente , Adulto , Idoso , Angioplastia com Balão/mortalidade , Povo Asiático , Síndrome de Budd-Chiari/complicações , Síndrome de Budd-Chiari/mortalidade , Feminino , Seguimentos , Veias Hepáticas , Hepatopatia Veno-Oclusiva/complicações , Hepatopatia Veno-Oclusiva/terapia , Humanos , Masculino , Pessoa de Meia-Idade , Estudos Retrospectivos , Segurança , Taxa de Sobrevida , Tempo , Fatores de Tempo , Resultado do Tratamento , Adulto Jovem
10.
Yi Chuan ; 37(6): 528-34, 2015 06.
Artigo em Zh | MEDLINE | ID: mdl-26351048

RESUMO

Recently, transcriptome sequencing technology has achieved significant progresses in gene network regulation of important economic traits in animals. As the derivative of mammalian skin, hair follicle is capable of self-renew. Its proliferation and differentiation result in hair formation. Researches have revealed that many growth factors and receptors coordinate genes and environment, as well as play an extremely important role during hair growth. In this review, we summarize the progresses that transcriptome sequencing technologies have achieved in researches of hair follicle development and renegeration in a variety of species, such as humans, mice, goats. We aim to provide theoretical mechanisms for the artificial interference of villus growth cycle, and new ideas for therapeutic treatment of skin hair follicle- related diseases.


Assuntos
Folículo Piloso/crescimento & desenvolvimento , Transcriptoma , Animais , Doenças do Cabelo/genética , Doenças do Cabelo/terapia , Humanos , MicroRNAs/fisiologia
11.
Ann Vasc Surg ; 28(5): 1322.e1-5, 2014 Jul.
Artigo em Inglês | MEDLINE | ID: mdl-24509367

RESUMO

We present an unusual case of portal, mesenteric, and splenic vein thromboses after endovascular embolization for gastrointestinal bleeding caused by a splenic arteriovenous fistula. The thromboses were successfully treated with anticoagulation therapy. The patient was a 37-year-old woman who presented with portal hypertension manifested by gastrointestinal bleeding with no evidence of liver disease. Splenic arteriography confirmed the presence of a high-flow arteriovenous fistulous communication from the splenic artery directly into the splenic vein. The arteriovenous fistula was successfully treated with percutaneous transarterial embolization by embolization coils and the patient achieved effective hemostasis. Low-molecular-weight heparin and warfarin were administrated to prevent thrombosis in the portal venous system after the procedure. Although anticoagulants were immediately administered, thromboses of the portal, mesenteric, and splenic veins were diagnosed by contrast-enhanced computed tomography after 10 days. Complete recanalization of the portal venous system confirmed by contrast-enhanced computed tomography was achieved by administering warfarin orally for 3 months.


Assuntos
Fístula Arteriovenosa/terapia , Embolização Terapêutica/efeitos adversos , Hemorragia Gastrointestinal/terapia , Veias Mesentéricas , Veia Porta , Veia Esplênica , Trombose/etiologia , Adulto , Fístula Arteriovenosa/diagnóstico , Embolização Terapêutica/métodos , Feminino , Hemorragia Gastrointestinal/diagnóstico , Humanos , Baço/irrigação sanguínea , Trombose/diagnóstico , Tomografia Computadorizada por Raios X
12.
Ann Vasc Surg ; 28(3): 742.e1-4, 2014 Apr.
Artigo em Inglês | MEDLINE | ID: mdl-24495329

RESUMO

Budd-Chiari syndrome (BCS) caused by hepatic venous outflow obstruction may result in portal hypertension and the development of intrahepatic collaterals that bypass the obstruction. Spontaneous intrahepatic portosystemic venous shunt (SIPSVS) is uncommon and may be associated with portal hypertension. SIPSVS is extremely rare in patients with BCS and has not been well documented. We report a case of SIPSVS in a 42-year-old woman with BCS caused by membranous obstruction and chronic thrombosis in the inferior vena cava (IVC). A direct vascular communication between the left portal vein and IVC was confirmed by sonography and a computed tomography angiography scan. The patient underwent successful percutaneous balloon angioplasty of the IVC. Surgical or endovascular treatment for SIPSVS was not carried out because the patient was asymptomatic and remained asymptomatic in terms of encephalopathy at a 1-year follow-up.


Assuntos
Síndrome de Budd-Chiari/fisiopatologia , Circulação Colateral , Circulação Hepática , Veia Porta/fisiopatologia , Veia Cava Inferior/fisiopatologia , Adulto , Angioplastia com Balão , Síndrome de Budd-Chiari/diagnóstico , Síndrome de Budd-Chiari/terapia , Ecocardiografia Doppler em Cores , Feminino , Humanos , Tomografia Computadorizada Multidetectores , Flebografia/métodos , Veia Porta/diagnóstico por imagem , Resultado do Tratamento , Veia Cava Inferior/diagnóstico por imagem
13.
Ann Vasc Surg ; 28(2): 491.e5-8, 2014 Feb.
Artigo em Inglês | MEDLINE | ID: mdl-24368181

RESUMO

We describe an elderly woman who presented with an unusual primary arterioportal fistula and cavernous transformation of the portal vein caused by portal thrombosis, which were subsequently managed with endovascular coil embolization and transjugular intrahepatic portosystemic shunt using 2 stents after balloon remodeling. This case shows a rarely seen condition in the elderly and a novel management strategy that should be considered in the management of this complex disease.


Assuntos
Angioplastia com Balão , Fístula Arteriovenosa/terapia , Embolização Terapêutica , Veia Porta , Derivação Portossistêmica Transjugular Intra-Hepática , Trombose Venosa/complicações , Idoso , Angioplastia com Balão/instrumentação , Fístula Arteriovenosa/diagnóstico , Fístula Arteriovenosa/etiologia , Feminino , Humanos , Veia Porta/diagnóstico por imagem , Portografia/métodos , Stents , Tomografia Computadorizada por Raios X , Resultado do Tratamento , Ultrassonografia Doppler em Cores , Trombose Venosa/diagnóstico
14.
Ann Vasc Surg ; 28(1): 264.e13-6, 2014 Jan.
Artigo em Inglês | MEDLINE | ID: mdl-24183598

RESUMO

A 57-year-old man presented with a rare extrahepatic portal vein bifurcation scar stenosis involving the proximal splenic vein and superior mesenteric vein after a Whipple procedure. He was treated with endovascular coil embolization for the gastroesophageal varices and kissing stents for the portal vein bifurcation stenosis. This case illustrates a rarely seen complication after the Whipple procedure and a novel management strategy that can be considered in the management of this complex disease.


Assuntos
Procedimentos Endovasculares/instrumentação , Pancreaticoduodenectomia/efeitos adversos , Veia Porta , Stents , Doenças Vasculares/terapia , Constrição Patológica , Embolização Terapêutica , Humanos , Masculino , Pessoa de Meia-Idade , Tomografia Computadorizada Multidetectores , Flebografia/métodos , Veia Porta/diagnóstico por imagem , Veia Porta/fisiopatologia , Resultado do Tratamento , Ultrassonografia Doppler em Cores , Doenças Vasculares/diagnóstico , Doenças Vasculares/etiologia , Doenças Vasculares/fisiopatologia , Grau de Desobstrução Vascular
15.
J Comput Biol ; 31(3): 241-256, 2024 03.
Artigo em Inglês | MEDLINE | ID: mdl-38377572

RESUMO

More and more studies have shown that microRNAs (miRNAs) play an indispensable role in the study of complex diseases in humans. Traditional biological experiments to detect miRNA-disease associations are expensive and time-consuming. Therefore, it is necessary to propose efficient and meaningful computational models to predict miRNA-disease associations. In this study, we aim to propose a miRNA-disease association prediction model based on sparse learning and multilayer random walks (SLMRWMDA). The miRNA-disease association matrix is decomposed and reconstructed by the sparse learning method to obtain richer association information, and at the same time, the initial probability matrix for the random walk with restart algorithm is obtained. The disease similarity network, miRNA similarity network, and miRNA-disease association network are used to construct heterogeneous networks, and the stable probability is obtained based on the topological structure features of diseases and miRNAs through a multilayer random walk algorithm to predict miRNA-disease potential association. The experimental results show that the prediction accuracy of this model is significantly improved compared with the previous related models. We evaluated the model using global leave-one-out cross-validation (global LOOCV) and fivefold cross-validation (5-fold CV). The area under the curve (AUC) value for the LOOCV is 0.9368. The mean AUC value for 5-fold CV is 0.9335 and the variance is 0.0004. In the case study, the results show that SLMRWMDA is effective in inferring the potential association of miRNA-disease.


Assuntos
MicroRNAs , Humanos , MicroRNAs/genética , Algoritmos , Área Sob a Curva , Biologia Computacional/métodos , Predisposição Genética para Doença
16.
J Comput Biol ; 2024 Aug 07.
Artigo em Inglês | MEDLINE | ID: mdl-39109562

RESUMO

Small molecules (SMs) play a pivotal role in regulating microRNAs (miRNAs). Existing prediction methods for associations between SM-miRNA have overlooked crucial aspects: the incorporation of local topological features between nodes, which represent either SMs or miRNAs, and the effective fusion of node features with topological features. This study introduces a novel approach, termed high-order topological features for SM-miRNA association prediction (HTFSMMA), which specifically addresses these limitations. Initially, an association graph is formed by integrating SM-miRNA association data, SM similarity, and miRNA similarity. Subsequently, we focus on the local information of links and propose target neighborhood graph convolutional network for extracting local topological features. Then, HTFSMMA employs graph attention networks to amalgamate these local features, thereby establishing a platform for the acquisition of high-order features through random walks. Finally, the extracted features are integrated into the multilayer perceptron to derive the association prediction scores. To demonstrate the performance of HTFSMMA, we conducted comprehensive evaluations including five-fold cross-validation, leave-one-out cross-validation (LOOCV), SM-fixed local LOOCV, and miRNA-fixed local LOOCV. The area under receiver operating characteristic curve values were 0.9958 ± 0.0024 (0.8722 ± 0.0021), 0.9986 (0.9504), 0.9974 (0.9111), and 0.9977 (0.9074), respectively. Our findings demonstrate the superior performance of HTFSMMA over existing approaches. In addition, three case studies and the DeLong test have confirmed the effectiveness of the proposed method. These results collectively underscore the significance of HTFSMMA in facilitating the inference of associations between SMs and miRNAs.

17.
Comput Biol Chem ; 104: 107857, 2023 Jun.
Artigo em Inglês | MEDLINE | ID: mdl-37018909

RESUMO

Microbes in the human body are closely linked to many complex human diseases and are emerging as new drug targets. These microbes play a crucial role in drug development and disease treatment. Traditional methods of biological experiments are not only time-consuming but also costly. Using computational methods to predict microbe-drug associations can effectively complement biological experiments. In this experiment, we constructed heterogeneity networks for drugs, microbes, and diseases using multiple biomedical data sources. Then, we developed a model with matrix factorization and a three-layer heterogeneous network (MFTLHNMDA) to predict potential drug-microbe associations. The probability of microbe-drug association was obtained by a global network-based update algorithm. Finally, the performance of MFTLHNMDA was evaluated in the framework of leave-one-out cross-validation (LOOCV) and 5-fold cross-validation (5-fold CV). The results showed that our model performed better than six state-of-the-art methods that had AUC of 0.9396 and 0.9385 + /- 0.0000, respectively. This case study further confirms the effectiveness of MFTLHNMDA in identifying potential drug-microbe associations and new drug-microbe associations.


Assuntos
Algoritmos , Biologia Computacional , Humanos , Biologia Computacional/métodos
18.
Zool Res ; 44(2): 303-314, 2023 Mar 18.
Artigo em Inglês | MEDLINE | ID: mdl-36785897

RESUMO

The Boer goat is one of the top meat breeds in modern animal husbandry and has attracted widespread attention for its unique growth performance. However, the genetic basis of muscle development in the Boer goat remains obscure. In this study, we identified specific structural variants in the Boer goat based on genome-wide selection signals and analyzed the basis of the molecular heredity of related candidate genes in muscle development. A total of 9 959 autosomal copy number variations (CNVs) were identified through selection signal analysis in 127 goat genomes. Specifically, we confirmed that the highest signal CNV (HSV) was a chromosomal arrangement containing an approximately 1.11 Mb (CHIR17: 60062304-61171840 bp) duplicated fragment inserted in reverse orientation and a 5 362 bp deleted region (CHIR17:60145940-60151302 bp) with overlapping genes (e.g., ARHGAP10, NR3C2, EDNRA, PRMT9, and TMEM184C). The homozygous duplicated HSV genotype (+/+) was found in 96% of Boer goats but was not detected in Eurasian goats and was only detected in 4% of indigenous African goats. The expression network of three candidate genes ( ARHGAP10, NR3C2, and EDNRA) regulating dose transcription was constructed by RNA sequencing. Results indicated that these genes were involved in the proliferation and differentiation of skeletal muscle satellite cells (SMSCs) and their overexpression significantly increased the expression of SAA3. The HSV of the Boer goat contributed to superior skeletal muscle growth via the dose effects of overlapping genes.


Assuntos
Cromossomos Humanos Par 17 , Cabras , Animais , Humanos , Cabras/genética , Variações do Número de Cópias de DNA , Genoma , Desenvolvimento Muscular
19.
Yi Chuan ; 34(7): 919-26, 2012 Jul.
Artigo em Zh | MEDLINE | ID: mdl-22805219

RESUMO

The purpose of the present study was to establish a new microRNA seed mediated controllable genetic operation, namely MicroRNA Targets Finger Print (MTFP), for screening microRNA targets and detecting target gene expression profiles. Based on combining the complementary sequence of seed sequence, upstream and downstream anchor sequence including special adaptor, microRNA targets were amplified by means of the reverse transcription and special two step PCR. The polyacrylamide gel electrophoresis was used to analyze the sizes of amplified microRNA targets and their abundance of expression, which were used to screen specifically expressed genes in different physiological or experimental conditions. Specific target genes were obtained through isolation of DNA fragments and sequencing methods. As an example, by screening the targets of miR-203 in goat skin, five genes were amplified and sequenced with the sizes of 718 bp (JN709494), 349 bp (JN709495), 243 bp (JN709496), 159 bp (JN709497), and 97 bp (JN709498) from goat skin collections. The novel universal MTFP method could be applied for finding microRNA regulation targets or assessing target gene expression profile.


Assuntos
Cabras/genética , MicroRNAs/genética , Pele/metabolismo , Transcriptoma , Animais , Feminino , Reação em Cadeia da Polimerase , Análise de Sequência de DNA
20.
Yi Chuan ; 34(5): 584-90, 2012 May.
Artigo em Zh | MEDLINE | ID: mdl-22659430

RESUMO

The maternal genetic effects on estimating genetic parameters for growth traits and wool traits of Qinghai fine-wool sheep were investigated.The genetic parameters for production traits of Qinghai fine-wool sheep were estimated by average information restricted maximum likelihood (AIREML) with different animal models, and the differences between different animal models were tested by likelihood ratio test. Fixed effects, direct genetic effects, and residual effects were included all models; and random effects were individual permanence environmental effects, maternal genetic effects, and maternal permanence environmental effects. The six models differ in the way of considering random effects: in model 1 individual permanence environmental effects, maternal genetic effects, and maternal permanence environmental effects were not contained; in model 2 maternal permanence environmental effects were included; in model 3 maternal genetic effects were included; in model 4 both maternal genetic effects and maternal permanence environmental effects were include; in model 5 both individual permanence environmental effects and maternal genetic effects were contained;in model 6 all random effects were contained. The direct heritabilities were 0.1896~0.3781, 0.2537~0.2890, 0.2244~0.3225, 0.2205~0.3983, 0.1218~0.1490, 0.0983~0.4802, and 0.1170~0.1311 for birth weight, weaning weight, yearling weight, hogget weight,greasy fleece weight, fiber diameter, and staple length,respectively. Compared with model 1, model 3 was-significant(P<0.01) for birth weight and weaning weight, other models were not significant (P>0.05)for Yearling weight, Hogget weight; and paralleled with model 6, both model 4 and model 5 were significant(P<0.01) for fiber diameter,model 4 was significant(P<0.05) for staple length, and other models were not significant(P>0.05) for greasy fleece weight by likelihood ratio test.The maternal effects were important determinants of estimated the genetic parameters for birth weight, weaning weigh, fiber diameter, and staple length, but were not significant for yearling weight, and hogget weight, and was slightly significant for greasy fleece weight.


Assuntos
Ovinos/genética , , Animais , Modelos Animais , Ovinos/crescimento & desenvolvimento
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