SAGEmap
Names
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SAGEmap
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
metasource: bio.tools
version: extracted_at: 2022-11-04T11:36:09.541292
sagemap
metasource: bio.tools
version: extracted_at: 2022-11-04T11:36:09.541292
Names
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SAGEmap
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
metasource: bio.tools
version: extracted_at: 2022-11-04T11:36:09.541292
sagemap
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:36:09.541292
Names
More detailed information about this field from each metasource.
SAGEmap
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
metasource: bio.tools
version: extracted_at: 2022-11-04T11:36:09.541292
sagemap
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:36:09.541292
SAGEmap provides a tool for performing statistical tests designed specifically for differential-type analyses of SAGE (Serial Analysis of Gene Expression) data. The data include SAGE libraries generated by individual labs as well as those generated by the Cancer Genome Anatomy Project (CGAP), which have been submitted to Gene Expression Omnibus (GEO). Gene expression profiles that compare the expression in different SAGE libraries are also available on the Entrez GEO Profiles pages. It is also possible to enter a query sequence in the SAGEmap resource to determine what SAGE tags are in the sequence, then map to associated SAGEtag records and view the expression of those tags in different CGAP SAGE libraries. SAGEmap provides a two-way mapping between SAGE tags and UniGene clusters. SAGEmap can also construct a user-configurable table of data comparing one group of SAGE libraries with another. SAGEmap is updated immediately following the update of UniGene. The data is also reflected in the human,mouse and rat genome Map Viewer as the SAGE track.
Description
More detailed information about this field from each metasource.
SAGEmap provides a tool for performing statistical tests designed specifically for differential-type analyses of SAGE (Serial Analysis of Gene Expression) data. The data include SAGE libraries generated by individual labs as well as those generated by the Cancer Genome Anatomy Project (CGAP), which have been submitted to Gene Expression Omnibus (GEO). Gene expression profiles that compare the expression in different SAGE libraries are also available on the Entrez GEO Profiles pages. It is also possible to enter a query sequence in the SAGEmap resource to determine what SAGE tags are in the sequence, then map to associated SAGEtag records and view the expression of those tags in different CGAP SAGE libraries. SAGEmap provides a two-way mapping between SAGE tags and UniGene clusters. SAGEmap can also construct a user-configurable table of data comparing one group of SAGE libraries with another. SAGEmap is updated immediately following the update of UniGene. The data is also reflected in the human,mouse and rat genome Map Viewer as the SAGE track.
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
SAGE tag to gene mapping by NCBI.
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:36:09.541292
Webpage:
http://www.ncbi.nlm.nih.gov/SAGE/Webpage
More detailed information about this field from each metasource.
http://www.ncbi.nlm.nih.gov/SAGE/
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
metasource: bio.tools
version: extracted_at: 2022-11-04T11:36:09.541292
Publications:
Publications
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SAGEmap: a public gene expression resource
PMID: 10899154
metasource: bio.tools
version: extracted_at: 2022-11-04T11:36:09.541292
Publications
More detailed information about this field from each metasource.
SAGEmap: a public gene expression resource
PMID: 10899154
metasource: bio.tools
version: extracted_at: 2022-11-04T11:36:09.541292
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SAGEmap: a public gene expression resource
PubMed citations: 113.
113 articles citing: SAGEmap: a public gene expression resource
Trends in oligomannosylation and α1,2-mannosidase expression in human cancers. PMID:34676051
Cancer transcriptome profiling at the juncture of clinical translation. PMID:29279605
Combined serial analysis of gene expression and transcription factor binding site prediction identifies novel-candidate-target genes of Nr2e1 in neocortex development. PMID:26204903
The human sodium-dependent ascorbic acid transporters SLC23A1 and SLC23A2 do not mediate ascorbic acid release in the proximal renal epithelial cell. PMID:24400138
Genome wide transcriptome analysis of dendritic cells identifies genes with altered expression in psoriasis. PMID:24039940
Targeting Cdc42 in cancer. PMID:23957315
Identification of the tetraspanin CD82 as a new barrier to xenotransplantation. PMID:23872050
Development of a cytokine-modified allogeneic whole cell pancreatic cancer vaccine. PMID:23359154
Transcriptome-wide expansion of non-coding regulatory switches: evidence from co-occurrence of Alu exonization, antisense and editing. PMID:23303787
Hepatic sinusoidal endothelium avidly binds platelets in an integrin-dependent manner, leading to platelet and endothelial activation and leukocyte recruitment. PMID:23257923
The crystal structure of the protein-disulfide isomerase family member ERp27 provides insights into its substrate binding capabilities. PMID:23192347
A Prevalence of Imprinted Genes within the Total Transcriptomes of Human Tissues and Cells. PMID:22997578
Estimation of sequencing error rates in short reads. PMID:22846331
Transcriptome-wide identification of preferentially expressed genes in the hypothalamus and pituitary gland. PMID:22649398
Role of ERRF, a novel ER-related nuclear factor, in the growth control of ER-positive human breast cancer cells. PMID:22341523
Accelerated recruitment of new brain development genes into the human genome. PMID:22028629
Effects of mild-exercise training cessation in human skeletal muscle. PMID:21681480
Evolutionary transients in the rice transcriptome. PMID:21382590
Feeding regulates the expression of pancreatic genes in gastric mucosa. PMID:21234387
hSAGEing: an improved SAGE-based software for identification of human tissue-specific or common tumor markers and suppressors. PMID:21179408
Construction and application of an electronic spatiotemporal expression profile and gene ontology analysis platform based on the EST database of the silkworm, Bombyx mori. PMID:20874595
Gill transcriptome response to changes in environmental calcium in the green spotted puffer fish. PMID:20716350
Testing the coding potential of conserved short genomic sequences. PMID:20224812
Vitamin C transporter Slc23a1 links renal reabsorption, vitamin C tissue accumulation, and perinatal survival in mice. PMID:20200446
GonadSAGE: a comprehensive SAGE database for transcript discovery on male embryonic gonad development. PMID:20028690
Detection of low-abundant novel transcripts in mouse hematopoietic stem cells. PMID:19585147
A score system for quality evaluation of RNA sequence tags: an improvement for gene expression profiling. PMID:19500384
Perturbation of interaction networks for application to cancer therapy. PMID:19390668
Genomic landscape of developing male germ cells. PMID:19306351
Extract-SAGE: an integrated platform for cross-analysis and GA-based selection of SAGE data. PMID:19293993
Global expression profiling in epileptogenesis: does it add to the confusion? PMID:19243383
Identification of novel transcripts with differential dorso-ventral expression in Xenopus gastrula using serial analysis of gene expression. PMID:19210784
Gene expression profile analysis of human hepatocellular carcinoma using SAGE and LongSAGE. PMID:19171046
GermSAGE: a comprehensive SAGE database for transcript discovery on male germ cell development. PMID:18832368
Differential SAGE analysis in Arabidopsis uncovers increased transcriptome complexity in response to low temperature. PMID:18808718
Trans-natural antisense transcripts including noncoding RNAs in 10 species: implications for expression regulation. PMID:18653530
Inferring mouse gene functions from genomic-scale data using a combined functional network/classification strategy. PMID:18613949
Comparison of the expression profiles of promastigotes and axenic amastigotes in Leishmania donovani using serial analysis of gene expression. PMID:18568446
Validation of oligoarrays for quantitative exploration of the transcriptome. PMID:18513391
Differential remodeling of a T-cell transcriptome following CD8- versus CD3-induced signaling. PMID:18475290
A novel method of differential gene expression analysis using multiple cDNA libraries applied to the identification of tumour endothelial genes. PMID:18394197
Interrogating global gene expression in rat neuronal cultures using SAGE. PMID:18201949
SAGETTARIUS: a program to reduce the number of tags mapped to multiple transcripts and to plan SAGE sequencing stages. PMID:17884916
In silico gene expression analysis--an overview. PMID:17683638
miRAS: a data processing system for miRNA expression profiling study. PMID:17683571
DNA microarrays: a powerful genomic tool for biomedical and clinical research. PMID:17660860
SAGExplore: a web server for unambiguous tag mapping in serial analysis of gene expression oriented to gene discovery and annotation. PMID:17626053
DEEP--a tool for differential expression effector prediction. PMID:17584786
Housekeeping and tissue-specific genes in mouse tissues. PMID:17519037
Exon arrays provide accurate assessments of gene expression. PMID:17504534
Unexpected observations after mapping LongSAGE tags to the human genome. PMID:17504516
Transcriptional interferences in cis natural antisense transcripts of humans and mice. PMID:17409075
Impaired expression of NER gene network in sporadic solid tumors. PMID:17332015
DiscoverySpace: an interactive data analysis application. PMID:17210078
Target discovery and validation in pancreatic cancer. PMID:17172725
ECgene: an alternative splicing database update. PMID:17132829
A comparative analysis of the information content in long and short SAGE libraries. PMID:17109755
Accurate and unambiguous tag-to-gene mapping in serial analysis of gene expression. PMID:17083742
PET-Tool: a software suite for comprehensive processing and managing of Paired-End diTag (PET) sequence data. PMID:16934139
SAGE2Splice: unmapped SAGE tags reveal novel splice junctions. PMID:16683015
Molecular phenotype of zebrafish ovarian follicle by serial analysis of gene expression and proteomic profiling, and comparison with the transcriptomes of other animals. PMID:16526958
A molecular signature of epithelial host defense: comparative gene expression analysis of cultured bronchial epithelial cells and keratinocytes. PMID:16420688
Database resources of the National Center for Biotechnology Information. PMID:16381840
TiProD: the Tissue-specific Promoter Database. PMID:16381824
Genome-wide estimation of transcript concentrations from spotted cDNA microarray data. PMID:16204447
Characterization of the global profile of genes expressed in cervical epithelium by Serial Analysis of Gene Expression (SAGE). PMID:16171524
XenDB: full length cDNA prediction and cross species mapping in Xenopus laevis. PMID:16162280
CIC, a gene involved in cerebellar development and ErbB signaling, is significantly expressed in medulloblastomas. PMID:15981098
WEBSAGE: a web tool for visual analysis of differentially expressed human SAGE tags. PMID:15980565
ECgene: genome-based EST clustering and gene modeling for alternative splicing. PMID:15805497
Global transcriptome analysis of the C57BL/6J mouse testis by SAGE: evidence for nonrandom gene order. PMID:15748293
Circulating transcriptome reveals markers of atherosclerosis. PMID:15728378
Reproducibility, bioinformatic analysis and power of the SAGE method to evaluate changes in transcriptome. PMID:15716308
RPL38, FOSL1, and UPP1 are predominantly expressed in the pancreatic ductal epithelium. PMID:15714138
ECgene: genome annotation for alternative splicing. PMID:15608289
Database resources of the National Center for Biotechnology Information. PMID:15608222
Maximizing the efficacy of SAGE analysis identifies novel transcripts in Arabidopsis. PMID:15489285
A genome annotation-driven approach to cloning the human ORFeome. PMID:15461802
Over 20% of human transcripts might form sense-antisense pairs. PMID:15356298
The use of MPSS for whole-genome transcriptional analysis in Arabidopsis. PMID:15289482
Global survey of chromatin accessibility using DNA microarrays. PMID:15231753
Genomic analysis of mouse retinal development. PMID:15226823
Methods for transcriptional profiling in plants. Be fruitful and replicate. PMID:15173570
Arabidopsis MPSS. An online resource for quantitative expression analysis. PMID:15173564
Genomic regionality in rates of evolution is not explained by clustering of genes of comparable expression profile. PMID:15173108
Genetic alteration and gene expression modulation during cancer progression. PMID:15035667
Universality and flexibility in gene expression from bacteria to human. PMID:14999098
The Arabidopsis root transcriptome by serial analysis of gene expression. Gene identification using the genome sequence. PMID:14730065
Scratching the (T cell) surface. PMID:14709166
The Mouse SAGE Site: database of public mouse SAGE libraries. PMID:14681462
Database resources of the National Center for Biotechnology Information: update. PMID:14681353
A panoramic view of gene expression in the human kidney. PMID:14595018
Bioinformatic analysis of the nucleolus. PMID:14531731
Molecular cloning, genomic characterization and over-expression of a novel gene, XRRA1, identified from human colorectal cancer cell HCT116Clone2_XRR and macaque testis. PMID:12908878
Congruence of tissue expression profiles from Gene Expression Atlas, SAGEmap and TissueInfo databases. PMID:12885301
Prediction of cell type-specific gene modules: identification and initial characterization of a core set of smooth muscle-specific genes. PMID:12869577
Genome informatics: current status and future prospects. PMID:12750305
Assessment of SAGE in transcript identification. PMID:12743019
Transcript identification by analysis of short sequence tags--influence of tag length, restriction site and transcript database. PMID:12682372
Computationally identifying novel NF-kappa B-regulated immune genes in the human genome. PMID:12654722
Expression of IFI 16 in epithelial cells and lymphoid tissues. PMID:12548405
Strong-association-rule mining for large-scale gene-expression data analysis: a case study on human SAGE data. PMID:12537556
PGDB: a curated and integrated database of genes related to the prostate. PMID:12520005
Database resources of the National Center for Biotechnology. PMID:12519941
PRESTA: associating promoter sequences with information on gene expression. PMID:12225589
Identifying novel transcripts and novel genes in the human genome by using novel SAGE tags. PMID:12213963
An anatomy of normal and malignant gene expression. PMID:12119410
Approaches to the analysis of gene expression using mRNA: a technical overview. PMID:12059114
The human genome browser at UCSC. PMID:12045153
Characterization of BTBD1 and BTBD2, two similar BTB-domain-containing Kelch-like proteins that interact with Topoisomerase I. PMID:11818025
A comparative molecular analysis of developing mouse forelimbs and hindlimbs using serial analysis of gene expression (SAGE). PMID:11591645
Identification and prevention of a GC content bias in SAGE libraries. PMID:11410683
Future directions in alcoholism research. Genomics and gene transfer. PMID:11199290
Tags:
Tags
More detailed information about this field from each metasource.
microarray data and other gene expression databases
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
gene expression
metasource: bio.tools
version: extracted_at: 2022-11-04T11:36:09.541292
mapping
metasource: bio.tools
version: extracted_at: 2022-11-04T11:36:09.541292
gene transcripts
metasource: bio.tools
version: extracted_at: 2022-11-04T11:36:09.541292
model organisms
metasource: bio.tools
version: extracted_at: 2022-11-04T11:36:09.541292
nucleic acid sites, features and motifs
metasource: bio.tools
version: extracted_at: 2022-11-04T11:36:09.541292
Tags
More detailed information about this field from each metasource.
microarray data and other gene expression databases
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
gene expression
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:36:09.541292
mapping
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:36:09.541292
gene transcripts
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:36:09.541292
model organisms
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:36:09.541292
nucleic acid sites, features and motifs
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:36:09.541292
microarray data and other gene expression gene expression mapping gene transcripts model organisms nucleic acid sites, features and motifs
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