SYDE2 Gene
protein-coding GIFtS: 46
GCID: GC01M085623
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|
synapse defective 1, Rho GTPase, homolog 2 (C. elegans)
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Aliases for SYDE2 gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb) About This Section
|
| Aliases |
|---|
| Synapse Defective 1, Rho GTPase, Homolog 2 (C. Elegans)1 2 | | Protein Syd-1 Homolog 22 3 | | Synapse Defective Protein 1 Homolog 22 3 | | FLJ138151 | | RP11-33E12.12 | | Rho GTPase-Activating Protein SYDE22 |
Export aliases for SYDE2 gene to outside databasesPrevious GC identifers: GC01M085338 GC01M083733 |
Summaries for SYDE2 gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
| UniProtKB/Swiss-Prot: SYDE2_HUMAN, Q5VT97Function: GTPase activator for the Rho-type GTPases by converting them to an inactive GDP-bound state (By similarity)
|
Genomic Views for SYDE2 gene
(According to
GeneLoc and/or
HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to
UCSC (hg19) and
Ensembl (release 69),
Regulatory elements and Epigenetics data according to
QIAGEN,
SABiosciences, and/or
SwitchGear Genomics) About This Section
| RefSeq DNA sequence:- NC_000001.10 NC_018912.1 NT_032977.9
Regulatory elements: SABiosciences Regulatory transcription factor binding sites in the SYDE2 gene promoter: GR ISGF-3 NF-YA Nkx2-5 CBF-B CBF-A GR-alpha CP1A NF-Y CBF(2) Other transcription factors
Search SABiosciences Chromatin IP Primers for SYDE2
Epigenetics:
|  | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SYDE2 |
Genomic Location: Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 1p22.3 Ensembl cytogenetic band: 1p22.3 HGNC cytogenetic band: 1p22.3SYDE2 Gene in genomic location: bands according to Ensembl, locations according to
(and/or Entrez Gene and/or Ensembl if different)

GeneLoc information about chromosome 1 GeneLoc Exon Structure GeneLoc location for GC01M085623: view genomic region
(about GC identifiers)
Start:
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85,622,556 bp from pter |
End:
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85,666,729 bp from pter |
Size:
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44,174 bases |
Orientation:
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minus strand |
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Proteins for SYDE2 gene
(According to
1UniProtKB,
HORDE,
neXtProt,
Ensembl,
and/or Reactome,
Modification sites according to 2PhosphoSitePlus,
Specific Peptides from DME,
Protein expression images according to data from SPIRE MOPED and PaxDb,
RefSeq according to NCBI,
PDB rendering according to OCA and/or Proteopedia,
Recombinant Proteins
from
EMD Millipore,
R&D Systems,
GenScript,
Enzo Life Sciences,
OriGene,
Novus Biologicals,
Sino Biological,
ProSpec, and/or
Uscn,
Biochemical Assays by
EMD Millipore,
R&D Systems,
OriGene,
GenScript,
Cell Signaling Technology,
Enzo Life Sciences, and/or
Uscn,
Ontologies according to Gene
Ontology Consortium 01 Mar 2013 and
Entrez Gene,
Antibodies by
EMD Millipore,
R&D Systems,
GenScript,
Cell Signaling Technology,
OriGene,
Novus Biologicals,
Thermo Fisher Scientific,
Abcam, and/or
Uscn)
About This Section
| UniProtKB/Swiss-Prot: SYDE2_HUMAN, Q5VT97 (See
protein sequence)Recommended Name: Rho GTPase-activating protein SYDE2 Size: 1194 amino acids; 133230 Da
Caution: It is uncertain whether Met-1 or Met-79 is the initiator
Sequence caution: Sequence=BAB14711.1; Type=Erroneous initiation; Note=Translation N-terminally extended;Sequence=BAB14711.1; Type=Miscellaneous discrepancy; Note=Probable cloning artifact; Sequence=CAH72669.1;Type=Erroneous initiation; Note=Translation N-terminally extended; Sequence=CAH72670.1; Type=Erroneous initiation;Note=Translation N-terminally extended;
Secondary accessions: Q5VT96 Q8NDB8 Q9H8A6Alternative splicing: 2 isoforms: Q5VT97-1 Q5VT97-2 Explore the universe of human proteins at neXtProt for SYDE2: NX_Q5VT97
Post-translational modifications:
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_Q5VT97 SYDE2 Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins: NP_115560.1 ENSEMBL proteins: ENSP00000340594 Reactome Protein details: Q5VT97 Human Recombinant Protein Products:
Gene Ontology (GO): 1 cellular component term (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0005829 | cytosol |
TAS | -- |
SYDE2 for ontologies About GeneDecksing
SYDE2 Antibody Products: Assay Products for SYDE2: |
Protein
Domains / Families for SYDE2 gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
SYDE2 for domains About GeneDecksing
4 InterPro domains/families:Graphical View of Domain Structure for InterPro Entry Q5VT97ProtoNet protein and cluster: Q5VT97 2 Blocks protein families: IPB000008 C2 domain IPB000198 RhoGAP domain
UniProtKB/Swiss-Prot: SYDE2_HUMAN, Q5VT97Similarity: Contains 1 C2 domainSimilarity: Contains 1 Rho-GAP domain |
Function for SYDE2 gene
(According to 1UniProtKB,
Genatlas,
LifeMap Discovery™,
IUBMB, and/or
2DME,
Human phenotypes from GenomeRNAi,
Animal models from MGI Mar 06 2013,
bound targets from SABiosciences,
miRNA Gene Targets from miRTarBase
shRNA from
OriGene,
RNAi from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
microRNA from QIAGEN,
Gene Editing from DNA2.0,
Clones from EMD Millipore,
OriGene,
SwitchGear Genomics,
GenScript,
Sino Biological,
DNA2.0,
and Vector BioLabs,
Cell Lines from GenScript,
LifeMap BioReagents,
In Situ Hybridization Assays from Advanced Cell Diagnostics,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene.)
About This Section
| Function Summary: UniProtKB/Swiss-Prot: SYDE2_HUMAN, Q5VT97Function: GTPase activator for the Rho-type GTPases by converting them to an inactive GDP-bound state (By similarity)
Clone Products: |  | Browse Clones for the Expression of Recombinant Proteins Available from EMD Millipore | |  | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for SYDE2 (see all 2) OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for SYDE2 (see all 2) OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling 
| |  | GenScript: all cDNA clones in your preferred vector: SYDE2 (NM_032184) | |  | Browse Sino Biological Human cDNA Clones | |  | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for SYDE2 | |  | Search Vector BioLabs for ready-to-use adenovirus/AAV for human, mouse, rat SYDE2  |
In Situ Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SYDE2 |
Gene Ontology (GO): 1 molecular function term (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0005100 | Rho GTPase activator activity |
ISS | -- |
SYDE2 for ontologies About GeneDecksing
1 GenomeRNAi human phenotype for SYDE2:
|
Pathways & Interactions for SYDE2 gene
(Pathways according to
EMD Millipore,
R&D Systems,
Cell Signaling Technology,
KEGG,
PharmGKB,
BioSystems,
Reactome,
Tocris Bioscience,
GeneGo (Thomson Reuters),
QIAGEN,
and/or UniProtKB,
Sets of similar genes according to GeneDecks,
Interaction Networks according to
SABiosciences,
and/or STRING,
Interactions according to 1UniProtKB,
2MINT,
3I2D, and/or
4STRING,
with links to IntAct and
Ensembl,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene).
About This Section
| Unified GeneCards pathways  About this table  See pathways by source
| Super-pathway | contained gene-specific pathways |
|---|
| 1 | Cell death signalling via NRAGE, NRIF and NADE | | | 2 | Signaling by GPCR | |
Pathway sources See GeneCards unified pathways Show all pathways
3
Reactome Pathways for SYDE2
SYDE2 for pathways About GeneDecksing
Interactions:
Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for SYDE2
STRING Interaction
Network Preview (showing 5 interactants - click image to see 25)
 5/35 Interacting proteins for SYDE2 (Q5VT973 ENSP000003405944) via UniProtKB, MINT, STRING, and/or I2D (see all 35)About this table
Gene Ontology (GO): 3 biological process terms (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0007264 | small GTPase mediated signal transduction |
TAS | -- | | GO:0032862 | activation of Rho GTPase activity |
ISS | -- | | GO:0051056 | regulation of small GTPase mediated signal transduction |
TAS | -- |
SYDE2 for ontologies About GeneDecksing
|
Drugs & Compounds for SYDE2 gene(Chemical Compounds according to UniProtKB, Enzo Life Sciences,
EMD Millipore, Tocris Bioscience
HMDB,
BitterDB, and/or
Novoseek, and Drugs according to
DrugBank,
Enzo Life Sciences, and/or
PharmGKB, with drugs/clinical trials/news
search links to CenterWatch)
About This Section
|
Browse Tocris compounds for SYDE2 Search CenterWatch for drugs/clinical trials and news about SYDE2 
|
Transcripts for SYDE2 gene(Secondary structures according to
fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene
(Build 235 Homo sapiens; Mar 10 2013) or GenBank, RefSeq according to Entrez Gene,
DOTS (version 10), and/or
AceView,
transcript ids from Ensembl
with links to UCSC,
exon structure from GeneLoc,
alternative splicing isoforms according to ASD and/or
ECgene,
RNAi Products from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
shRNA from
OriGene,
microRNA from QIAGEN,
Tagged/untagged cDNA clones from
OriGene,
SwitchGear Genomics,
GenScript,
DNA2.0,
Vector BioLabs,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN
) About This Section
| REFSEQ mRNAs for SYDE2 gene: NM_032184.1 Unigene Cluster for SYDE2: Synapse defective 1, Rho GTPase, homolog 2 (C. elegans) Hs.670497 [show with all ESTs]Unigene Representative Sequence: NM_0321842 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000341460(uc009wcm.3) ENST00000234668(uc001dku.4)
Clone Products: |  | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for SYDE2 (see all 2) OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for SYDE2 (see all 2) OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling 
| |  | GenScript: all cDNA clones in your preferred vector: SYDE2 (NM_032184) | |  | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for SYDE2 | |  | Search Vector BioLabs for ready-to-use adenovirus/AAV for human, mouse, rat SYDE2  |
Additional cDNA sequence: AL834286.1 7 DOTS entries: DT.91745782 DT.102820170 DT.92041943 DT.102822269 DT.121416905 DT.92048476 DT.91985629 2 AceView cDNA sequences: CN483144 AI741865 GeneLoc Exon Structure
3 Alternative Splicing Database (ASD) splice patterns (SP) for SYDE2 About this scheme
| ExUns: | 1a | · | 1b | · | 1c | · | 1d | ^ | 2 | ^ | 3a | · | 3b | ^ | 4 | |
| SP1: | |   | |   | |   | - |   | - |   | |   | |   | |   | |
| SP2: | |   | |   | |   | |   | |   | |   | |   | |   | |
| SP3: | |   | |   | |   | |   | - |   | |   | |   | |   |
ECgene alternative splicing isoforms for SYDE2
|
Expression for SYDE2 gene
(RNA expression data according to
H-InvDB,
NONCODE,
miRBase, and
RNAdb,
Expression images according to data from
BioGPS,
Illumina Human BodyMap, and
CGAP
SAGE,
Sets of similar genes according to GeneDecks,
in vivo and in vitro expression data from LifeMap Discovery™,
plus additional links to
Genevestigator, and/or
SOURCE, and/or
BioGPS, and/or
UniProtKB,
PCR Arrays from
SABiosciences,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN,
In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section
| SYDE2 expression in normal human tissues (normalized intensities) See probesets specificity/sensitivity at GeneAnnot About this imageBioGPS CGAP TAG: AGGCCAAAAT
About this image See SYDE2 Protein Expression from SPIRE MOPED and PaxDB Genevestigator expression for SYDE2
SOURCE GeneReport for Unigene cluster: Hs.670497 SABiosciences Custom PCR Arrays for SYDE2
Primer Products: |  | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for SYDE2 Browse OriGene validated miRNA SYBR primer pairs
| |  | SABiosciences RT2 qPCR Primer Assay in human, mouse, rat SYDE2 | |  | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat SYDE2 | |  | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat SYDE2 | In Situ Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SYDE2 |
Orthologs for SYDE2 gene
(Orthologs according to
1,2HomoloGene (2older version, for species not in 1newer version),
3euGenes,
4SGD
,
5MGI Mar 06 2013,
with possible further links to
Flybase
and/or
WormBase,
and/or
6Ensembl pan taxonomic compara ,
Gene Trees according to Ensembl and
TreeFam)
About This Section
|
This gene was present in the common ancestor of animals.
Orthologs for SYDE2 gene from 5/14 species (see all 14) About this table
| Organism |
Taxonomic classification |
Gene |
Description |
Human Similarity |
Orthology Type |
Details |
chicken (Gallus gallus) |
Aves |
SYDE21 |
synapse defective 1, Rho GTPase, homolog 2 (C. elegans) |
68.8(n) 67.93(a) |
  |
424530 XM_422367.3 XP_422367.3 |
lizard (Anolis carolinensis) |
Reptilia |
SYDE26 |
-- |
66(a) |
1 ↔ 1 |
GL343194.1(10178810-10223816) |
zebrafish (Danio rerio) |
Actinopterygii |
CABZ01069339.16 |
-- |
70(a) |
1 ↔ 1 |
23(45031991-45049394) |
fruit fly (Drosophila melanogaster) |
Insecta |
RhoGAP100F6 |
RhoGAP100F |
11(a) |
1 → many |
3R(27638331-27670966) |
worm (Caenorhabditis elegans) |
Secernentea |
syd-16 |
Rho GTPase-activating protein syd-1 |
15(a) |
1 → many |
II(7585683-7594864) |
ENSEMBL Gene Tree for SYDE2 (if available) TreeFam Gene Tree for SYDE2 (if available)  |
Paralogs for SYDE2 gene(Paralogs according to
1HomoloGene, 2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68) About This Section
| Paralogs for SYDE2 gene
- RACGAP12 ABR2 SYDE12 BCR2
SYDE2 for paralogs About GeneDecksing
|
Genomic Variants for SYDE2 gene(SNPs/Variants according to the
1NCBI SNP Database,
2Ensembl,
3PupaSUITE,
UniProtKB, and
DNA2.0,
Linkage Disequilibrium by HapMap,
Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene
Mutation Database (HGMD) and the Locus Specific Mutation
Databases (LSDB), Blood group antigen gene mutations by BGMUT,
Resequencing Primers from QIAGEN,
Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
About This Section
|
| Genomic Data | Transcription Related Data | Allele Frequencies | | SNP ID | Valid | Clinical significance | Chr 1 pos | Sequence | # | AA Chg | Type | More | # | Allele freq | Pop | Total sample | More |
|---|
HapMap Linkage Disequilibrium report for SYDE2 (85622556 - 85666729 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions) Database of Genomic Variants (DGV): 2 variations for SYDE2 2 CNVs: 64118 47846  | SABiosciences Cancer Mutation PCR Assays |
|  | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing SYDE2 |
|
Disorders
/ Diseases for SYDE2 gene
(in which this Gene is Involved, According to MalaCards,
OMIM, UniProtKB,
the University of Copenhagen DISEASES
database,
Genatlas, GeneTests,
GAD,
HuGE Navigator,
and/or TGDB.)
About This Section
|
SYDE2 for disorders About GeneDecksing
1 disease for SYDE2: About MalaCardsneuronitis Export disorders for SYDE2 gene to outside databases
|
Publications for SYDE2 gene (in
PubMed.
Associations of this gene to articles via
1Entrez Gene,
2UniProtKB/Swiss-Prot,
3HGNC,
4GAD,
5PharmGKB,
6HMDB,
7DrugBank,
8UniProtKB/TrEMBL,
9 Novoseek, and/or
10fRNAdb)
About This Section
|
PubMed articles for SYDE2 gene integrated from 9 sources: (articles sorted by number of sources associating them with SYDE2) | |  | Utopia: connect your pdf to the dynamic world of online information |
- Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
- System-wide temporal characterization of the proteome and phosphoproteome of human embryonic stem cell differentiation. (PubMed id 21406692)2 Rigbolt K.T....Blagoev B. (2011)
- Quantitative phosphoproteomic analysis of T cell receptor signaling reveals system-wide modulation of protein-protein interactions. (PubMed id 19690332)2 Mayya V.... Han D.K. (2009)
- A quantitative atlas of mitotic phosphorylation. (PubMed id 18669648)2 Dephoure N.... Gygi S.P. (2008)
- Broad spectrum identification of SUMO substrates in m elanoma cells. (PubMed id 17549794)1 Ganesan A.K....White M.A. (2007)
- The full-ORF clone resource of the German cDNA consortium. (PubMed id 17974005)2 Bechtel S.... Schupp I. (2007)
- The DNA sequence and biological annotation of human chromosome 1. (PubMed id 16710414)2 Gregory S.G.... Bentley D.R. (2006)
|
External Searches for SYDE2 gene
(in PubMed,
OMIM, and NCBI Bookshelf) About This Section
|
|
Genome Databases showing SYDE2 gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing SYDE2 gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing SYDE2 gene(According to PharmGKB,
ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL, Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot) About This Section
|
| Name | Description |
| PharmGKB entry for SYDE2 | Pharmacogenomics, SNPs, Pathways |
|
| | |
About This Section
| Patent Information for SYDE2 gene: Search GeneIP for patents involving SYDE2
GeneCards and IP: Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products for SYDE2 gene(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Uscn, Thermo Fisher Scientific, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or
Enzo Life Sciences), In Situ Hybridization Assays from Advanced Cell Diagnostics About This Section
|
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 | |
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| | | | Browse OriGene Antibodies | | OriGene shRNA RFP for SYDE2 | | OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for SYDE2 | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for SYDE2 | | OriGene Protein Over-expression Lysate for SYDE2 | | Browse OriGene Fluorogenic Cell Assay Kits | | OriGene siRNA for SYDE2 | | OriGene 3'-UTR Clone for SYDE2 | | OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for SYDE2 | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for SYDE2 | | Browse OriGene GFP tagged cDNA clones in CMV expression vector | | Browse OriGene MicroRNA Expression Plasmids | | Browse OriGene basic RS shRNAs | | Browse OriGene validated miRNA SYBR primer pairs | | Browse OriGene full length recombinant human proteins expressed in human HEK293 cells | | OriGene custom cloning services - gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling | | OriGene Custom Antibody Services for SYDE2 | | OriGene Custom Protein Services for SYDE2 | | OriGene Custom Immunoassay Development | | |
| |  |
 |
| | QIAGEN Custom miScript Target Protector blocks miRNA-binding site of in human, mouse, rat SYDE2 | | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing SYDE2 | | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SYDE2 | | QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat SYDE2 | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat SYDE2 | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat SYDE2 |
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 |  |  |  | |
| | | Search Tocris compounds for SYDE2 |
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 | | SYDE2 Proteins, Antibodies, CLIAs, and ELISAs |
| | | | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SYDE2 |
|  |  |  | | | Search ThermoFisher Antibodies for SYDE2 |
| | Search Vector BioLabs for ready-to-use adenovirus/AAV for human, mouse, rat SYDE2 |
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