Alireza Heravi-Moussavi

Alireza Heravi-Moussavi
BC Cancer Agency · molecular oncology

PhD

About

87
Publications
22,554
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Introduction
Skills and Expertise

Publications

Publications (87)
Article
Full-text available
Background Lifelong production of the many types of mature blood cells from less differentiated progenitors is a hierarchically ordered process that spans multiple cell divisions. The nature and timing of the molecular events required to integrate the environmental signals, transcription factor activity, epigenetic modifications, and changes in gen...
Article
Full-text available
The normal adult human mammary gland is a continuous bilayered epithelial system. Bipotent and myoepithelial progenitors are prominent and unique components of the outer (basal) layer. The inner (luminal) layer includes both luminal-restricted progenitors and a phenotypically separable fraction that lacks progenitor activity. We now report an epige...
Article
Full-text available
Nucleosome position, density, and post-translational modification are widely accepted components of mechanisms regulating DNA transcription but still incompletely understood. We present a modified native ChIP-seq method combined with an analytical framework that allows MNase accessibility to be integrated with histone modification profiles. Applica...
Article
The International Human Epigenome Consortium (IHEC) coordinates the generation of a catalog of high-resolution reference epigenomes of major primary human cell types. The studies now presented (see the Cell Press IHEC web portal at http://www.cell.com/consortium/IHEC) highlight the coordinated achievements of IHEC teams to gather and interpret comp...
Article
Reversible and dynamic transitions between epithelial and mesenchymal cellular states (EMT/MET) contribute to cancer progression and dissemination. Whereas EMT facilitates initial steps of tumour cell detachment, MET is likely required for colonization at distant sites. Although MET is generally perceived as mirroring EMT, we hypothesize that MET e...
Article
Full-text available
The use of genetically engineered probiotics to express specific enzymes has been the subject of considerable attention in poultry industry because of increased nutrient availability and reduced cost of enzyme supplementation. Phytase enzyme is commonly added to poultry feed to improve digestibility and availability of phosphorus from plant sources...
Article
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Gastric adenocarcinoma and proximal polyposis of the stomach (GAPPS) is an autosomal-dominant cancer-predisposition syndrome with a significant risk of gastric, but not colorectal, adenocarcinoma. We mapped the gene to 5q22 and found loss of the wild-type allele on 5q in fundic gland polyps from affected individuals. Whole-exome and -genome sequenc...
Article
Full-text available
Malignant rhabdoid tumors (MRTs) are rare lethal tumors of childhood that most commonly occur in the kidney and brain. MRTs are driven by SMARCB1 loss, but the molecular consequences of SMARCB1 loss in extra-cranial tumors have not been comprehensively described and genomic resources for analyses of extra-cranial MRT are limited. To provide such da...
Conference Paper
Full-text available
Esophageal squamous cell carcinoma (ESCC) is one of the deadliest cancers in the world. It is the eighth most common cancer, with more than 480,000 new cases and 400,000 deaths each year world wide. Nowadays, whole exom sequencing (WES) has become a preferable method to identify new molecular biomarkers for diseases. It is predicted that this metho...
Article
Cancer is fundamentally a disease of disordered gene expression. In fact, reversal or neutralization of the changes in gene expression has been shown to be attractive targets for the development of new anti-cancer drugs and therapeutic strategies. New approaches such as antibody drug conjugates (ADCs) also target differentially expressed genes as a...
Article
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The reference human genome sequence set the stage for studies of genetic variation and its association with human disease, but epigenomic studies lack a similar reference. To address this need, the NIH Roadmap Epigenomics Consortium generated the largest collection so far of human epigenomes for primary cells and tissues. Here we describe the integ...
Article
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While significant effort has been dedicated to the characterization of epigenetic changes associated with prenatal differentiation, relatively little is known about the epigenetic changes that accompany post-natal differentiation where fully functional differentiated cell types with limited lifespans arise. Here we sought to address this gap by gen...
Article
Full-text available
High-throughput transcriptome sequencing allows identification of cancer-related changes that occur at the stages of transcription, pre-messenger RNA (mRNA), and splicing. In the current study, we devised a pipeline to predict novel alternative splicing (AS) variants from high-throughput transcriptome sequencing data and applied it to large sets of...
Data
Supplementary_Method.doc. Includes additional details of RNA-seq transcript quantification and qRT-PCR experiment. Supplementary_Figures.doc. Includes supporting RNA-seq and qRT-PCR expression plots as well as survival analysis. Supplementary_Tables.doc. Includes data from qRT-PCR, RBP, and correlation with clinicopathological data analysis. Supple...
Article
Milk is considered as the richest nutrition, being used by people. When drinking milk or water the radon gas will transfer from air to them rapidly. Since milk is majorly composed of water, probably radon existence in livestock consumable water could be the main cause of its presence in milk. Different portion of milk changed by radon gamma ray and...
Article
Full-text available
The assessment of expression and epigenomic status using sequencing based methods provides an unprecedented opportunity to identify and correlate allelic differences with epigenomic status. We present ALEA, a computational toolbox for allele-specific (AS) epigenomics analysis, which incorporates allelic variation data within existing resources, all...
Article
Full-text available
Objective: To determine the effects of 2 conjugated linoleic acid (CLA) isomers (cis-9, trans-11 and trans-10, cis-12) on synthesis of prostaglandin (PG) E(2) and F(2α) and expression of prostaglandin H synthase-2 (PGHS-2) of adult and fetal bovine endometrial epithelial cells in vitro. Sample: Primary cultures of endometrial epithelial cells ob...
Article
Our group recently described recurrent somatic mutations of the miRNA processing gene DICER1 in non-epithelial ovarian cancer. Mutations appeared to be clustered around each of four critical metal binding residues in the RNase IIIB domain of DICER1. This domain is responsible for cleavage of the 3' end of the 5p-miRNA strand of a pre-mRNA hairpin....
Article
Full-text available
Primary triple-negative breast cancers (TNBCs), a tumour type defined by lack of oestrogen receptor, progesterone receptor and ERBB2 gene amplification, represent approximately 16% of all breast cancers. Here we show in 104 TNBC cases that at the time of diagnosis these cancers exhibit a wide and continuous spectrum of genomic evolution, with some...
Article
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The aim of this study was to evaluate the effect of postpartum mastitis between first calving and subsequent conception on production and reproduction performance as well as culling of Holstein cows. A data set of 9,183 first lactation cows was used. Results showed that the first cumulative 100 days' milk production and the milk yield standardized...
Article
Full-text available
The method of quantitative competitive polymerase chain reaction (QC-PCR) was conducted to compare the number of rumen anaerobic fungi in pure culture of fungi containing high fat sunflower meal (165 g fat/kg DM) processed with formaldehyde and NaOH. Twenty one multiparous early lactating Holstein cows (30±5 days of lactation) selected and fed expe...
Article
Full-text available
Germline truncating mutations in DICER1, an endoribonuclease in the RNase III family that is essential for processing microRNAs, have been observed in families with the pleuropulmonary blastoma-family tumor and dysplasia syndrome. Mutation carriers are at risk for nonepithelial ovarian tumors, notably sex cord-stromal tumors. We sequenced the whole...
Article
Linkage analysis with subsequent candidate gene sequencing is typically used to diagnose novel inherited syndromes. It is now possible to expedite diagnosis through the sequencing of all coding regions of the genome (the exome) or full genomes. We sequenced the exomes of four members of a family presenting with spondylo-epiphyseal dysplasia and ret...
Article
Full-text available
A study was conducted to isolate lactobacilli from the gastrointestinal (GI) tract of broiler chickens and to evaluate their application as a probiotic supplement. The GI contents of 12 broiler chickens from three different ages were collected and cultured on Man Rogosa and Sharp (MRS) agar. In order to determine bacterial species, different grown...
Data
Table of all gene fusion predictions. (1.97 MB TXT)
Data
FISH probe selection table. (0.00 MB TXT)
Data
Sarcoma gene expression table. (0.00 MB TXT)
Data
Table of positive and negative controls. (0.10 MB TXT)
Data
Table of predicted interrupted genes. (0.01 MB TXT)
Data
Table of Validation Sets and RT-PCR primers. (0.06 MB TXT)
Data
Ovarian gene expression table. (0.25 MB TXT)
Data
Gene names and their ensembl ids. (0.51 MB TXT)
Data
Full-text available
Supplementary methods and analysis. (0.58 MB PDF)
Data
UMOD aligned read counts. (0.00 MB TXT)
Article
Full-text available
Gene fusions created by somatic genomic rearrangements are known to play an important role in the onset and development of some cancers, such as lymphomas and sarcomas. RNA-Seq (whole transcriptome shotgun sequencing) is proving to be a useful tool for the discovery of novel gene fusions in cancer transcriptomes. However, algorithmic methods for th...
Article
PPP2R1A mutations have recently been described in 3/42 (7%) of clear cell carcinomas of the ovary. PPP2R1A encodes the α-isoform of the scaffolding subunit of the serine/threonine protein phosphatase 2A (PP2A) holoenzyme. This putative tumour suppressor complex is involved in growth and survival pathways. Through targeted sequencing of PPP2R1A, we...
Article
An in vitro experiment was conducted to study the effect of non-fiber carbohydrates (NFC) on ruminal disappearance kinetics of dry matter (DM) and neutral detergent fiber (NDF) of alfalfa hay, wheat bran and unmolassed sugar beet pulp. Non-supplemented or NFC supplemented samples [70 mg/g DM of each feed sample as sucrose (SU) or starch (ST) or SU...
Article
To evaluate the association between Milk Urea Nitrogen (MUN) and fertility of early lactation dairy cows, reproductive and productive data and MUN measurements from 10 dairy herds in northeast of Iran between 2005 and 2008 were analyzed by survival analysis and the Cox proportional hazards model. Days from calving to conception or to the end of the...
Article
Full-text available
Ovarian clear-cell and endometrioid carcinomas may arise from endometriosis, but the molecular events involved in this transformation have not been described. We sequenced the whole transcriptomes of 18 ovarian clear-cell carcinomas and 1 ovarian clear-cell carcinoma cell line and found somatic mutations in ARID1A (the AT-rich interactive domain 1A...
Article
Full-text available
Use of real-time polymerase chain reaction assay for monitoring in vitro ruminal cellulolytic bacteria population as affected by non-structural carbohydrates - Volume 1 Issue 1 - F Rezaii, M Danesh Mesgaran, A Heravi Moussavi, A Vakili, M Nassiri, S Ghovvati
Article
Twenty -nine Holstein cows were used to evaluate the effects of different dry period (DP) lengths on milk yield and composition, some blood metabolites, and complete blood count (CBC). Cows were assigned to one of 2 treatments: 1) 60-d dry period, 2) 35-d DP. Milk yield, from calving to 60 days, was not different for cows on the treatments (p =0.13...
Article
Vitamin A needs based onRoss manuals is 9500 IU/kg more than NRC (1994) recommendation, thus the effect of vitamin A on mucin2 gene expression, histological characteristics and performance were evaluated in Ross male broilers fed diets containing no vitamin A supplement, 1500 IU/kg vitamin A supplement (NRC requirement), 6250 IU/kg vitamin A supple...
Data
Cell lines screened by TaqMan real-time PCR-based allelic discrimination assay for the FOXL2 c. 402 C>G mutation. Ovarian cancer cell lines are italicized and ovarian granulosa-cell-derived lines are underlined. (0.02 MB XLS)
Article
Full-text available
A somatic mutation in the FOXL2 gene is reported to be present in almost all (97%; 86/89) morphologically defined, adult-type, granulosa-cell tumors (A-GCTs). This FOXL2 c.402C>G mutation changes a highly conserved cysteine residue to a tryptophan (p.C134W). It was also found in a minority of other ovarian malignant stromal tumors, but not in benig...
Article
Full-text available
The identification of animal species used in industrial meat products is very important in respect to economic considerations because European Union, which has implemented a set of very strict procedures to correctly label food. In this paper we present conserved region from mitochondrial 12S rRNA and 16S rRNA genes are powerful region for evaluate...
Article
Full-text available
In situ degradable parameters and ruminal and post ruminal disappearances of Dry Matter (DM) and Crude Protein (CP) of a variety of Iranian rapeseed meal (SLM sp.) were determined. Then, 14 early lactating Holstein cows for 8 weeks were fed diets containing 10.95% Soybean Meal (SBM) or 10.85% Rapeseed Meal (RSM) in a completely randomized design wi...
Article
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The insulin-like growth factor 1 (IGF-I) gene has been described in several studies as a candidate gene for growth traits in farm animals. The present preliminary study attempts to establish associations between growth traits and genetic polymorphisms at the 5' flanking region s IGF-I in the Baluchi sheep. The DNA of 102 sheep of the indigenous Ira...
Conference Paper
Full-text available
Different genotypes for IGF-I were determined by Polymerase Chain Reaction-Single Strand Conformation Polymorphism (PCR-SSCP) method in Baluchi sheep. Blood samples were taken from 100 pure bred Baluchi sheep, in Abasabad Breeding Station near to Mashhad, the capital of Khorasan province, Iran. IGF-I genotypes were analyzed by SSCP method following...
Article
In order to determine the effects of different levels of urea and molasses on chemical composition and in vitro Dry Matter Digestibility (IVDMD) of canola silage one experiment in a 3׳ factorial arrangement in a complete-randomized design with three replications was conducted. Experimental treatments of this study were 0, 0.5 and 1% of Urea and 0,...
Article
Full-text available
The objective of this study was to consider the genetic variations in the exonII region of the leptin gene for the Iranian Holstein cows. Association between leptin genotype with milk production and reproductive traits were analyzed by a univariate linear model. Result is shown that the T allele had significant effect on milk yield versus C allele....
Article
The objectives of this study were to evaluate the influences of milk yield and fertility traits in the first lactation on the Length of Productive Life (LPL) of Holstein dairy cows in Iran. Records of Holstein-Friesian cows born from 1993-2006 on 7 large-scale farms were analyzed. The length of productive life was defined as the number of days from...
Article
Full-text available
This study presents the overall culling reasons and also the days in milk at culling in Holstein dairy cows. Data regarding to all exits of cows from the herd were collected during 1996 until 2006 in 7 large commercial Holstein farms. Each exiting cow has been characterized by demographic data, production data and culling reason. The reasons for cu...
Article
Full-text available
The objective of this study, was to evaluate the effect of Age at First Calving (AFC) on cumulative first 60 and 200 days milk production and also reproductive performance in first-parity Iranian Holstein dairy cows. Data regarding to all calving of cows were collected during 1996 until 2006 in seven large commercial Holstein farms. Each cow has be...
Article
Full-text available
The study was designed to test the effect of supplemental Fish Meal (FM) on first 60 days cumulative milk production, interval to postpartum inseminations, number of days open, follicular dynamic and complete blood counts in early lactating Holstein cows. From 21 days before predicted calving time to 35 day in milk (DIM), cows were fed diets contai...
Article
The objective of the present investigation was to study genetic variations in the exon II of leptin gene in Iranian Golpayegani and Taleshi cows. Blood samples were collected from 76 Golpayegani and 64 Taleshi cows randomly selected from Delijan city (Esfahan province) and Talesh city (Guilan province) in Iran, respectively. Genomic DNA was extract...
Article
Prolactin (PRL) is a polypeptide hormones produced by cells of the anterior pituitary. The bovine PRL gene consists of 4 introns and 5 exons, located on chromosome 23. Different biological functions of PRL were subdivided into five broad categories: reproduction, osmoregulation, growth, integument, and synergism with steroids. Also, It has been sho...