A5053888462- SARS-CoV-2 and COVID-19 Research
- RNA modifications and cancer
- Genomics and Phylogenetic Studies
- Genomics and Chromatin Dynamics
- RNA Research and Splicing
- Molecular Biology Techniques and Applications
- vaccines and immunoinformatics approaches
- Gene expression and cancer classification
- COVID-19 Clinical Research Studies
- Scientific Computing and Data Management
- Animal Virus Infections Studies
- Cancer-related molecular mechanisms research
- Virology and Viral Diseases
- Advanced Proteomics Techniques and Applications
- SARS-CoV-2 detection and testing
- Chromosomal and Genetic Variations
- Epigenetics and DNA Methylation
- Viral Infections and Outbreaks Research
Quaid-i-Azam University
2019-2025
Evolutionary Genomics (United States)
2025
The BIG Data Center at Beijing Institute of Genomics (BIG) the Chinese Academy Sciences provides a suite database resources in support worldwide research activities both academia and industry. With vast amounts multi-omics data generated unprecedented scales rates, is continually expanding, updating enriching its core through big integration value-added curation. Resources with significant updates past year include BioProject (a biological project library), BioSample sample Genome Sequence...
ABSTRACT Tissue-specific gene regulation in mammals involves the coordinated binding of multiple transcription factors (TFs). Using forebrain as a model, we investigated syntax TF occupancy to determine tissue-specific enhancer regions. We analyzed forebrain-exclusive enhancers from VISTA Enhancer Browser and curated set 23 TFs relevant development disease. Our findings revealed distinct patterns combinatorial binding, with HES5-FOXP2-GATA3 triad being most frequent forebrain-specific...
Abstract Biological databases serve as a global fundamental infrastructure for the worldwide scientific community, which dramatically aid transformation of big data into knowledge discovery and drive significant innovations in wide range research fields. Given rapid production, biological continue to increase size importance. To build catalog databases, we curate total 5825 from 8931 publications, are geographically distributed 72 countries/regions developed by 1975 institutions (as...
Abstract The outbreak of coronavirus disease 2019 (COVID-19) caused by severe acute respiratory syndrome 2 (SARS-CoV-2) is spreading fast worldwide. There a pressing need to understand how the virus counteracts host innate immune responses. Deleterious clinical manifestations coronaviruses have been associated with virus-induced direct dysregulation responses occurring via viral macrodomains located within nonstructural protein-3 (Nsp3). However, no substantial information available...
Enhancers are non‐coding cis ‐regulatory elements crucial for transcriptional regulation. Mutations in enhancers can disrupt gene regulation, leading to disease phenotypes. Identifying and their tissue‐specific activity is challenging due lack of stereotyped sequences. This study presents a sequence‐based computational model that uses combinatorial transcription factor (TF) genomic occupancy predict enhancers. Trained on diverse datasets, including ENCODE Vista enhancer browser data, the...
Abstract COVID-19 has swept globally and Pakistan is no exception. To investigate the initial introductions transmissions of SARS-CoV-2 in Pakistan, we performed largest genomic epidemiology study generated 150 complete genome sequences from samples collected March 16 to June 1, 2020. We identified a total 347 mutated positions, 31 which were over-represented Pakistan. Meanwhile, found over 1000 intra-host single-nucleotide variants (iSNVs). Several them occurred concurrently, indicating...
Abstract In recent years, the number of human long noncoding RNAs (lncRNAs) that have been identified has increased exponentially. However, these lncRNAs are poorly annotated compared to protein‐coding genes, posing great challenges for a better understanding their functional significance and elucidating complex functioning molecular mechanisms. Here we employ both community expert curation yield comprehensive collection annotations. Specifically, LncRNAWiki (...
Abstract Over the course of COVID-19 pandemic, several SARS-CoV-2 variants have emerged that may exhibit different etiological effects such as enhanced transmissibility and infectivity. However, genetic variations reduce virulence deteriorate viral fitness not yet been thoroughly investigated. The present study sought to evaluate makeup on epidemiology in Pakistan, where infectivity mortality rate was comparatively lower than other countries during first pandemic wave. For this purpose, we...
ABSTRACT Pakistan has been severely affected by the COVID-19 pandemic. To investigate initial introductions and transmissions of SARS-CoV-2 in country, we performed largest genomic epidemiology study generated 150 complete genome sequences from samples collected before June 1, 2020. We identified a total 347 variants, 29 which were over-represented Pakistan. Meanwhile, found over one thousand intra-host single-nucleotide variants. Several them occurred concurrently, indicating possible...