Project description:We genotyped 45 new samples from 4 populations of Northwest India and combined it with previously published data to characterize the population structure of modern Northwest Indian populations in the context of their geographic neighbors across South Asia and West Eurasia.
Project description:High throughput sequencing is performed on mRNA isolated from whole blood of adult Covid-19 patients, bacterial coinfection with Covid-19 and healthy controls in a South Indian cohort. Samples were collected from individuals at the time of hospitalization or visit to clinic. The Covid-19 samples are categorized by severeity.
Project description:To predict differentially expressed miRNAs between monosomy 3 and disomy 3, and to associate these miRNAs with the clinico-pathological parameters in South Asian Indian population with uveal melanoma (UM). The study consists of six uveal melanoma primary tumour tissues of South Asian-Indian population. These six tumours have been screened for chromosome 3 aberration using Chromogenic in-situ hybridisation (CISH). Thus, sample under the study includes, three each of monosomy 3 and disomy 3. The miRNA profiling was carried out from the tumor sections of formalin-fixed paraffin embedded eyeball samples. miRNA expression profile was obtained in monosomy 3 and disomy 3 samples, analysed by unsupervised analysis (Principal Component Analysis) and supervised analysis (Significance analysis of microarray). The select up-regulated and candidate miRNAs associated with monosomy 3 uveal melanoma tumors were validated further with qRT-PCR (n=86). Thus, this study indicates the role of miRNAs in UM tumor progression and their implication in predetermining the liver metastasis.
Project description:Cotton (Gossypium hirsutum) is the major contributor of feedstock for the fabric industry and thus building genomic resources in cotton such as this study are a way to understand the cotton plant's biology. Cotton cultivars that suppress PHYA1D (PhyA1 homeolog on the D genome of a tetraploid) exhibit early-flowering, increased fiber length and increased seed yield. In our proposed study, flower buds (also called squares) samples were collected from control (Croker 312 wildtype line) and RNAi lines carrying the PhyA1D suppression. RNA samples from the two lines including three biological replicates were subjected to RNA-seq sequencing to elucidate the transcriptome profile.
Project description:Through genome-wide comparative transcriptome analysis of 63 samples, the current study identified nine key genes and pathways associated with biological process of yield heterosis in upland cotton. Our results and data resources provide novel insights and will be useful for dissecting the molecular mechanism of yield heterosis in cotton.
Project description:We report the accuracy of various existing blood transcriptional signatures in distinguishing TB and LTBI individuals in a South Indian cohort
