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Literature
同步
16s
A_needRead
alignment
b_bulkRNA-seq
alternative splicing
assembly
bulkRNA-seq article
review
b_scRNA-seq
cell type annotation
cell-cell communication
immune cell
integration
regulatory information
scRNASeq-method
seurat
trajectory inference
book
Epigenetic
WGBS
lncRNA
machine learning
biology
Dimensionality reduction for biology
metagenomic
assembly
binning
db
Kraken
MetaPhlAn
Pathogen
zh
miRNA
mNGS
other
a_mendely
databases
immune
Macrophages
mutation
ncRNA
reading
report
temp
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course
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Quantification
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Cell Type Enrichment
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Transcriptomics Metabolomics
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Untitled
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Genome-Wide Analysis of Yeast Metabolic Cycle through Metabolic Network Models Reveals Superiority of Integrated ATAC-seq Data over RNA-seq Data
Ultrafast and memory-efficient alignment of short DNA sequences to the human genome
Transcript-level expression analysis of RNA-seq experiments with HISAT, StringTie and Ballgown
Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation
TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions
TopHat: discovering splice junctions with RNA-Seq
The Sequence Alignment/Map format and SAMtools
Statistical relevance—relevant statistics, part I
STAR: ultrafast universal RNA-seq aligner
Salmon provides fast and bias-aware quantification of transcript expression
RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome
RNA-seq differential expression studies: more sequence or more replication?
RNA-Seq differential expression analysis: An extended review and a software tool
Next-generation transcriptome assembly
Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2
Misuse of RPKM or TPM normalization when comparing across samples and sequencing protocols
Integration of quantitated expression estimates from polyA-selected and rRNA-depleted RNA-seq libraries
Graph-based genome alignment and genotyping with HISAT2 and HISAT-genotype
Gaining comprehensive biological insight into the transcriptome by performing a broad-spectrum RNA-seq analysis
featureCounts: an efficient general purpose program for assigning sequence reads to genomic features
Fast and accurate short read alignment with Burrows-Wheeler transform
Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks
Coupling mRNA processing with transcription in time and space
Computational methods for transcriptome annotation and quantification using RNA-seq
Comprehensive comparative analysis of strand-specific RNA sequencing methods
Comparison of RNA-Seq by poly (A) capture, ribosomal RNA depletion, and DNA microarray for expression profiling
A game changer for bipolar disorder diagnosis using RNA editing-based biomarkers