Abhimanyu Singh
A bioinformatics beginner
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k-mers tutorial - classification and taxonomy
By Neel 1865 days agoivory.idyll.org - DNA k-mers underlie much of our assembly work, and we (along with many others!) have spent a lot of time thinking about how to store k-mer graphs efficiently, discard redundant data, and count them efficiently. More recently, we've...Understanding DUMP files from NCBI Taxonomy database !
By Shruti Paniwala 1543 days agoTaxonomy database !Genome Origami
By Jitendra Narayan 4314 days agoThere are only 10,000 loops instead of the predicted millions, and they form on/off switches in DNA.Human Complete Genome
By Shruti Paniwala 1551 days agowww.science.org - Telomere-to-telomere consortium We have sequenced the CHM13hTERT human cell line with a number of technologies. Human genomic DNA was extracted from the cultured cell line. As the DNA is native, modified bases will be preserved. The data includes...The Ghost Ancestors Hidden in Our DNA
By Jitendra Narayan 47 days agoA fascinating new study published in Science (https://www.science.org/doi/10.1126/science.aef8874?) introduces a computational method called TRACE, which allows scientists to search modern human genomes for genetic traces of ancient populations that...TRRUST v2: an expanded reference database of human and mouse transcriptional regulatory interactions
By Rahul Agarwal 3209 days agowww.grnpedia.org - TRRUST contains 8,444 and 6,552 TF-target regulatory relationships of 800 human TFs and 828 mouse TFs, respectively. They have been derived from 11,237 pubmed articles, which describe small-scale experimental studies of transcriptional regulations....PLAR: Pipeline for lncRNA annotation from RNA-seq data
By Abhi 1731 days agowww.weizmann.ac.il - Due to several requests, we are releasing an assingment of orthologs, determined using the same methods used in Hezroni et al. (BLAST, Whole Genome Alignment (WGA), and synteny). One is comparing human GENCODE genes (from GENCODE v30) to lncRNAs...Look up a biological numbers
By Jitendra Narayan 4791 days agobionumbers.hms.harvard.edu - Did you ever need to look up a number like the volume of a cell or the cellular concentration of ATP, only to find yourself spending much more time than you wanted on the Internet or flipping through textbooks - all without much...HistoneDB 2.0 – with variants
By Anjana 3776 days agowww.ncbi.nlm.nih.gov - This histone database can be used to explore the diversity of histone proteins and their sequence variants in many organisms. The resource was established to better understand how sequence variation may affect functional and structural features of...GOLD:Genomes Online Database
By Jit 3357 days agohttps://gold.jgi.doe.gov/ - GOLD:Genomes Online Database, is a World Wide Web resource for comprehensive access to information regarding genome and metagenome sequencing projects, and their associated metadata, around the world. https://gold.jgi.doe.gov/
