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export TASK_NAME=CoLA export GLUE_DIR=/tmp/glue_data/ python ./examples/text-classification/run_glue.py --model_name_or_path bert-base-uncased --task_name $TASK_NAME --do_train --do_eval --data_dir $GLUE_DIR/$TASK_NAME --max_seq_length 128 --per_device_eval_batch_size=2 --per...
Reads were then mapped to mouse (mm10) genome with STAR-RSEM pipeline using ENSEMBL version 79 gene annotation as reference. Differential gene expression was determined using DESeq2 (v1.32.0)82, the p-value adjusted for multiple comparisons. Genes with log2 (fold change) > 1.5 and q...
RNA-Seq was performed in order to detect changes in gene expression in FACS-purified MG between wild-type and Dicer-CKOMGmice, 1 month after induction (Fig.1b). We verified the loss of exon 23 in the Dicer1-deleted MG using the RNA-Seq data. The log2 of counts per million (CPM) ...
Samples were prepared for sequencing using NebNext Ultra II (NEB), then sequenced on an Illumina MiSeq with 300-bp paired-end reads. Sequences were analysed in Geneious (v.11) and a pipeline in R. Forward and reverse reads were paired using FLASh (https://ccb.jhu.edu/software/FLASH) ...
Single-Cell RNA-Seq Results for Transgenic E12.5 Forebrain, Related to Figure 2 Drop-Seq was performed on E12.5 forebrain from transgenic embryos harboring a fluorescent reporter gene under the control of one of the ultraconserved enhancers. This was done separately for each of the four enhancers...
No template information was used and the multiple sequence alignment options chosen were mmseq2_uniref_env and unpaired_paired. Five structures for each complex were predicted and used without relaxation using Amber. The sequences for P. putida were retrieve from UniProt accession numbers (AlgI: ...
For each line, RNA-seq was performed in two different tissues with known expression of the genes located in the adjacent TADs, and qPCR was performed to query select genes in a larger panel of tissues for a subset of the TAD boundary deletion lines (Supplementary Fig. 5–6, and Supple- ...
For each line, RNA-seq was performed in two different tissues with known expression of the genes located in the adjacent TADs, and qPCR was performed to query select genes in a larger panel of tissues for a subset of the TAD boundary deletion lines (Supplementary Fig. 5–6, and Supple- ...
Methods Model characteristics. The genes encoding ion channels in mouse rods have been revealed using single- cell RNA-Seq analysis12. The proposed model consisted of various ion channels, ion pumps, exchangers, and transporters identified using a gene expression database incorporating an ...