TIMD4 Gene
protein-coding GIFtS: 47
GCID: GC05M156278
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T-cell immunoglobulin and mucin domain containing 4
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Aliases
for TIMD4 gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb)
About This Section
|
| Aliases |
|---|
| T-Cell Immunoglobulin And Mucin Domain Containing 41 2 | | T-Cell Membrane Protein 42 3 | | TIM-42 3 | | SMUCKLER2 | | TIM42 3 | | T-Cell Immunoglobulin And Mucin Domain-Containing Protein 42 | | TIMD-42 3 | | |
Export aliases for TIMD4 gene to outside databasesPrevious GC identifer: GC05M151439 |
Summaries
for TIMD4 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: TIMD4_HUMAN, Q96H15Function: Phosphatidylserine receptor that enhances the engulfment of apoptotic cells. Involved in regulating T-cellproliferation and lymphotoxin signaling. Ligand for HAVCR1/TIMD1 (By similarity)
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Genomic Views
for TIMD4 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_000005.9 NC_018916.1 NT_023133.13
Regulatory elements:
 SABiosciences Regulatory transcription factor binding sites in the TIMD4 gene promoter:
ISGF-3 AP-1 XBP-1 Nkx2-5 HNF-4alpha2 IRF-1 Evi-1 HNF-4alpha1 PPAR-gamma1 PPAR-gamma2
Other transcription factors
Search SABiosciences Chromatin IP Primers for TIMD4
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat TIMD4 |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 5q33.3 Ensembl cytogenetic band: 5q33.3 HGNC cytogenetic band: 5q33.3TIMD4 Gene in genomic location: bands according to Ensembl, locations according to
 (and/or Entrez Gene and/or Ensembl if different)
GeneLoc information about chromosome 5 GeneLoc Exon Structure GeneLoc location for GC05M156278: view genomic region
(about GC identifiers)
Start:
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156,346,293 bp from pter |
End:
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156,390,266 bp from pter |
Size:
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43,974 bases |
Orientation:
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minus strand |
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Proteins
for TIMD4 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: TIMD4_HUMAN, Q96H15 (See
protein sequence)Recommended Name: T-cell immunoglobulin and mucin domain-containing protein 4 precursor Size: 378 amino acids; 41578 Da
Subcellular location: Membrane; Single-pass type I membrane protein (Potential)
Secondary accessions: B5MCL9Alternative splicing: 2 isoforms: Q96H15-1 Q96H15-2 (No experimental confirmation available)Explore the universe of human proteins at neXtProt for TIMD4: NX_Q96H15
Post-translational modifications:
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_Q96H15
TIMD4 Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins (2 alternative transcripts):
NP_001140198.1 NP_612388.2
ENSEMBL proteins: ENSP00000274532 ENSP00000385882 ENSP00000385973
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:0016021 | integral to membrane |
IEA | -- |
TIMD4 for ontologies About GeneDecksing
TIMD4 Antibody Products:
Assay Products for TIMD4: |
Protein
Domains /
Families
for TIMD4 gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
TIMD4 for domains About GeneDecksing
4 InterPro domains/families:Graphical View of Domain Structure for InterPro Entry Q96H15ProtoNet protein and cluster: Q96H15 1 Blocks protein family: IPB003599 Immunoglobulin subtype
UniProtKB/Swiss-Prot: TIMD4_HUMAN, Q96H15Domain: Recognizes phosphatidyl serine via its immunoglobulin domainSimilarity: Belongs to the immunoglobulin superfamily. TIM familySimilarity: Contains 1 Ig-like V-type (immunoglobulin-like) domain |
Function
for TIMD4 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: TIMD4_HUMAN, Q96H15Function: Phosphatidylserine receptor that enhances the engulfment of apoptotic cells. Involved in regulating T-cellproliferation and lymphotoxin signaling. Ligand for HAVCR1/TIMD1 (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 TIMD4 (see all 4)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for TIMD4 (see all 2)
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling 
| |  | GenScript: all cDNA clones in your preferred vector (see all 2): TIMD4 (NM_138379) | |  | Browse Sino Biological Human cDNA Clones | |  | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for TIMD4 | |  | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat TIMD4 |
In Situ Assay
Products: |
 | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TIMD4 |
Animal Models:
Mouse knock-outs for TIMD4: Timd4tm1Wouy Timd4tm1Kuch
3 MGI mutant phenotypes (inferred from 3 alleles ) (MGI details for Timd4):
TIMD4 for phenotypes About GeneDecksing
|
Pathways & Interactions
for TIMD4 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
|
Interactions:
Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for TIMD4
|
Drugs & Compounds
for TIMD4 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 TIMD4
Search CenterWatch for drugs/clinical trials and news about TIMD4
|
Transcripts
for TIMD4 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 TIMD4 gene (2 alternative transcripts): NM_001146726.1 NM_138379.2 Unigene Cluster for TIMD4: T-cell immunoglobulin and mucin domain containing 4 Hs.334907 [show with all ESTs]Unigene Representative Sequence: BM5595213 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000274532(uc003lwh.2 uc010jii.2) ENST00000406964(uc003lwg.2)
ENST00000407087
Clone
Products: | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for TIMD4 (see all 4)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for TIMD4 (see all 2)
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling
| | | GenScript: all cDNA clones in your preferred vector (see all 2): TIMD4 (NM_138379) | | | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for TIMD4 | | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat TIMD4 |
Additional cDNA sequence: AK131025.1 AK301337.1 AK312746.1 BC008988.1 JX049980.1 2 DOTS entries: DT.97783175 DT.92066900 24/29 AceView cDNA sequences (see all 29): CR603034 AK131025 BX439191 BP371340 NM_138379 AI218853 BE550640 AW516351 BE552351 BC008988 AA861640 AA400536 BX448841 BF338867 AI476417 AI862534 AW274868 BQ182903 BX281207 AI149724 AA843555 AA936598 AW292593 BU958106
GeneLoc Exon Structure
3 Alternative Splicing Database (ASD) splice patterns (SP) for TIMD4 About this scheme
| ExUns: | 1 | ^ | 2 | ^ | 3 | ^ | 4 | ^ | 5 | ^ | 6 | ^ | 7 | ^ | 8a | · | 8b | · | 8c | ^ | 9 | ^ | 10 |
|---|
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| SP1: | | | | | | | | | | | - | | | | | | | | - | | | | | | |
| SP2: | | | | | | | | | | | | | | | | | | | - | | | | | | |
| SP3: | | | | | | | | | | | | | | | | | | | | | | | | |
ECgene alternative splicing isoforms for TIMD4
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Expression
for TIMD4 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
| TIMD4 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: ACACTCCAGT
About this image
See TIMD4 Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for TIMD4
SOURCE GeneReport for Unigene cluster: Hs.334907
SABiosciences Custom PCR Arrays for TIMD4
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for TIMD4
Browse OriGene validated miRNA SYBR primer pairs
| | | SABiosciences RT2 qPCR Primer Assay in human, mouse, rat TIMD4 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat TIMD4 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat TIMD4 | In Situ
Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TIMD4 |
Orthologs
for TIMD4 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 chordates.
Orthologs for TIMD4 gene from 3/10 species (see all 10) About this table
ENSEMBL Gene Tree for TIMD4 (if available)
TreeFam Gene Tree for TIMD4 (if available) |
Paralogs
for TIMD4 gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| Paralogs for TIMD4 gene
- HAVCR12 HAVCR22
TIMD4 for paralogs About GeneDecksing
|
Genomic Variants
for TIMD4 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 5 pos | Sequence | # | AA
Chg | Type | More | # | Allele
freq | Pop | Total
sample | More |
|---|
HapMap Linkage Disequilibrium report for TIMD4 (156346293 - 156390266 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV) variations for TIMD4: -- | SABiosciences Cancer Mutation PCR Assays |
| | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing TIMD4 |
|
Disorders
/ Diseases
for TIMD4 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
|
TIMD4 for disorders About GeneDecksing
OMIM gene information: 610096
OMIM disorders: --
17  diseases for TIMD4: About MalaCardsinterdigitating dendritic cell sarcoma dendritic cell sarcoma systemic lupus erythematosus hemophilia b
lupus erythematosus atopic dermatitis allergic asthma hepatitis a
hemophilia dermatitis hepatitis b cerebral malaria
asthma sarcoma cerebritis hepatitis
malaria
Human Genome Epidemiology (HuGE) Navigator: TIMD4 (8 documents)
Export disorders for TIMD4 gene to outside databases
|
Publications
for TIMD4 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 TIMD4 gene, integrated from 9 sources (see all 25):
(articles sorted by number of sources associating them with TIMD4) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)
- Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1, 3 Strausberg R.L....Marra M.A. (2002)
- Increased expression of human T-cell immunoglobulin- and mucin-domain-containing molecule-4 in peripheral blood mononuclear cells fr om patients with system lupus erythematosus. (PubMed id 20140011)1, 9 Zhao P....Gao L. (2010)
- Significant association between TIM1 promoter polymorphisms and protection against cerebral malaria in Thailand. (PubMed id 18294362)1, 9 Nuchnoi P....Patarapotikul J. (2008)
- Genetic variation and significant association of polym orphism rs7700944 G>A of TIM-4 gene with rheumatoid arthritis susceptibility in Chinese Han and Hui populations. (PubMed id 22353209)1 Xu J....Wang Y. (2012)
- Glioma-derived T cell immunoglobulin- and mucin domai n-containing molecule-4 (TIM4) contributes to tumor tolerance. (PubMed id 21896488)1 Xu L....Liang H. (2011)
- Two polymorphisms in the TIM-4 gene are associated wi th asthma in a Chinese Han population. (PubMed id 20727045)1 Zhao B....Liu Q. (2011)
- Genetic loci associated with lipid concentrations and cardiovascular risk factors in the Korean population. (PubMed id 20972250)1 Park M.H....Park H.Y. (2011)
- New genetic associations detected in a host response study to hepatitis B vaccine. (PubMed id 20237496)1 Davila S....Seielstad M. (2010)
- Biological, clinical and population relevance of 95 l oci for blood lipids. (PubMed id 20686565)1 Teslovich T.M....Kathiresan S. (2010)
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External Searches for TIMD4 gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
|
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Genome Databases showing TIMD4 gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing TIMD4 gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing TIMD4 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 TIMD4 | Pharmacogenomics, SNPs, Pathways |
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| | |
About This Section
| Patent Information for TIMD4 gene:
Search GeneIP for patents involving TIMD4
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for TIMD4 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
|
 | |
 | |
 |
| | |  | OriGene Antibodies for TIMD4 | | OriGene shRNA RFP for TIMD4 | | | OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for TIMD4 | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for TIMD4 | | | OriGene Protein Over-expression Lysate for TIMD4 | | Browse OriGene Fluorogenic Cell Assay Kits | | | OriGene siRNA for TIMD4 | | Browse 3'-UTR reporter clones for miRNA target validation | | | OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for TIMD4 | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for TIMD4 | | | 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 | | | OriGene Purified Protein for TIMD4 | | OriGene custom cloning services - gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling | | | OriGene Custom Antibody Services for TIMD4 | | OriGene Custom Protein Services for TIMD4 | | | OriGene Custom Immunoassay Development | | |
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| | | QIAGEN Custom miScript Target Protector blocks miRNA-binding site of in human, mouse, rat TIMD4 | | | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing TIMD4 | | | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat TIMD4 | | | QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat TIMD4 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat TIMD4 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat TIMD4 |
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| | | | Search Tocris compounds for TIMD4 |
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 | | | TIMD4 Proteins, Antibodies, CLIAs, and ELISAs |
| | | | | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TIMD4 |
|  |  |  | | | | ThermoFisher Antibodies for TIMD4 |
| | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat TIMD4 |
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