ATAD3B Gene
protein-coding GIFtS: 48
GCID: GC01P001397
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ATPase family, AAA domain containing 3B
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Aliases
for ATAD3B gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb)
About This Section
|
| Aliases |
|---|
| ATPase Family, AAA Domain Containing 3B1 2 | | TOB31 2 3 5 | | KIAA12731 3 5 | | AAA-TOB32 3 | | AAA-ATPase TOB32 | | ATPase Family AAA Domain-Containing Protein 3B2 |
Export aliases for ATAD3B gene to outside databasesPrevious GC identifers: GC01P001359 GC01P001493 GC01P000680 |
Summaries
for ATAD3B gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
|
Entrez Gene summary for ATAD3B:
ATAD3A (MIM 612316) and ATAD3B are mitochondrial membrane proteins that contribute to the stabilization of largemitochondrial DNA (mtDNA)-protein complexes called nucleoids (He et al., 2007 (PubMed 17210950)).(supplied by OMIM,Sep 2008)
UniProtKB/Swiss-Prot: ATD3B_HUMAN, Q5T9A4Function: May play a role in a mitochondrial network organization typical for stem cells, characterized by reducedmitochondrial metabolism, low mtDNA copies and fragmentated mitochondrial network. may act by suppressing ATAD3Afunction, interfering with ATAD3A interaction with matrix nucleoid complexes
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Genomic Views
for ATAD3B 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_004350.19
Regulatory elements:
 SABiosciences Regulatory transcription factor binding sites in the ATAD3B gene promoter:
POU2F2 (Oct-2.1) Oct-B1 oct-B3 oct-B2 Lmo2 POU2F2 POU2F2C POU2F1 POU2F1a POU2F2B
Other transcription factors
Search SABiosciences Chromatin IP Primers for ATAD3B
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat ATAD3B |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 1p36.33 Ensembl cytogenetic band: 1p36.33 HGNC cytogenetic band: 1p36.33ATAD3B 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 GC01P001397: view genomic region
(about GC identifiers)
Start:
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1,407,143 bp from pter |
End:
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1,433,228 bp from pter |
Size:
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26,086 bases |
Orientation:
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plus strand |
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Proteins
for ATAD3B 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: ATD3B_HUMAN, Q5T9A4 (See
protein sequence)Recommended Name: ATPase family AAA domain-containing protein 3B Size: 648 amino acids; 72573 Da
Subunit: Forms heterooligomers with ATAD3A. Interacts with components of the mitochondrial ribosome, including MRPL11and MRPS18B, and with other proteins involved in mitochondrial RNA metabolism, possibly via interaction with ATAD3A.Interacts with GADD45GIP1
Subcellular location: Mitochondrion inner membrane; Peripheral membrane protein. Note=Has been found to co-purify withnucleoids (PubMed:22453275). Since it does not face the mitochondrial matrix, the association with nucleoids could bemediated by ATAD3A
Developmental stage: Expressed in proliferating embryonic stem cells and down-regulated during differentiation
Sequence caution: Sequence=BAA86587.1; Type=Erroneous initiation; Note=Translation N-terminally shortened;
Secondary accessions: A8K3H1 Q6ZRB5 Q9BUK4 Q9ULE7Alternative splicing: 3 isoforms: Q5T9A4-1 Q5T9A4-2 Q5T9A4-3 (No experimental confirmation available)Explore the universe of human proteins at neXtProt for ATAD3B: NX_Q5T9A4
Post-translational modifications:
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_Q5T9A4
ATAD3B Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins: NP_114127.3
ENSEMBL proteins: ENSP00000311766 ENSP00000368015
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:0005743 | mitochondrial inner membrane |
IEA | -- |
ATAD3B for ontologies About GeneDecksing
ATAD3B Antibody Products:
Assay Products for ATAD3B: |
Protein
Domains /
Families
for ATAD3B gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
ATAD3B for domains About GeneDecksing
3 InterPro domains/families:Graphical View of Domain Structure for InterPro Entry Q5T9A4ProtoNet protein and cluster: Q5T9A4 UniProtKB/Swiss-Prot: ATD3B_HUMAN, Q5T9A4Similarity: Belongs to the AAA ATPase family |
Function
for ATAD3B 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: ATD3B_HUMAN, Q5T9A4Function: May play a role in a mitochondrial network organization typical for stem cells, characterized by reducedmitochondrial metabolism, low mtDNA copies and fragmentated mitochondrial network. may act by suppressing ATAD3Afunction, interfering with ATAD3A interaction with matrix nucleoid complexesInduction: Up-regulated by MYC
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 ATAD3B
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for ATAD3B
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Gene Ontology (GO): 2 molecular function terms (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0005524 | ATP binding |
IEA | -- | | GO:0017111 | nucleoside-triphosphatase activity |
IEA | -- |
ATAD3B for ontologies About GeneDecksing
|
Pathways & Interactions
for ATAD3B 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 ATAD3B
STRING Interaction
Network Preview (showing 5 interactants - click image to see 19)
5/395 Interacting proteins for ATAD3B (Q5T9A42, 3 ENSP000003117664) via UniProtKB, MINT, STRING, and/or I2D (see all 395)About this table
|
Drugs & Compounds
for ATAD3B 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 ATAD3B
Search CenterWatch for drugs/clinical trials and news about ATAD3B / ATD3B
|
Transcripts
for ATAD3B 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 ATAD3B gene: NM_031921.4 Unigene Cluster for ATAD3B: ATPase family, AAA domain containing 3B Hs.729021 [show with all ESTs]Unigene Representative Sequence: AB0330996 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000308647(uc001afv.3 uc021oeq.1) ENST00000472194(uc001afw.2 uc001afx.3)
ENST00000378736 ENST00000485748 ENST00000474481 ENST00000378741
Clone
Products: | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for ATAD3B
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for ATAD3B
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling
| | | GenScript: all cDNA clones in your preferred vector: ATAD3B (NM_031921) | | | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for ATAD3B | | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat ATAD3B |
Additional cDNA sequence: AB033099.1 AK024028.1 AK097309.1 AK127857.1 AK128357.1 AK290586.1 BC002542.2 BC009938.2 BC018701.1 18 DOTS entries: DT.100789525 DT.100789533 DT.101961879 DT.91769413 DT.100031229 DT.121327897 DT.100031228 DT.100789532 DT.121327910 DT.121327932 DT.95265774 DT.100789528 DT.75124626 DT.92048665 DT.95265772 DT.121327912 DT.75182947 DT.95265763 24/466 AceView cDNA sequences (see all 466): AI744345 AW237061 CD672423 CD557191 CF242864 BI091881 CK823587 BQ925983 BE561304 BM556227 BF309272 AA564034 BU507084 BQ053152 BQ688832 BE391349 BQ129223 BM561826 BQ223719 BG740272 BX097516 BU633185 BF312210 BU155205
GeneLoc Exon Structure
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Expression
for ATAD3B 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
| ATAD3B expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: GCCAGGGGCC
About this image
See ATAD3B Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for ATAD3B
SOURCE GeneReport for Unigene cluster: Hs.729021
UniProtKB/Swiss-Prot: ATD3B_HUMAN, Q5T9A4Tissue specificity: Tends to be down-regulated in differentiated cells and re-expressed in pluripotent stem cells orcancer cells (at protein level)
SABiosciences Custom PCR Arrays for ATAD3B
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for ATAD3B
Browse OriGene validated miRNA SYBR primer pairs
| | | Search SABiosciences RT2 qPCR
Primer Assays in human, mouse, rat ATAD3B | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat ATAD3B | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat ATAD3B |
Orthologs
for ATAD3B 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 eukaryotes.
Orthologs for ATAD3B gene from 7/24 species (see all 24) About this table
ENSEMBL Gene Tree for ATAD3B (if available)
TreeFam Gene Tree for ATAD3B (if available) |
Paralogs
for ATAD3B gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| Paralogs for ATAD3B gene
- ATAD3A1 2 ATAD3C2 PSMC32
3 SIMAP similar genes for ATAD3B using alignment to 2 protein entries: ATD3B_HUMAN (see all proteins):ATAD3A DKFZp761L1023 ATAD3C
ATAD3B for paralogs About GeneDecksing
|
Genomic Variants
for ATAD3B 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 ATAD3B (1407143 - 1433228 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV): 3 variations for ATAD3B
3 CNVs: 68436 30362 3276 | SABiosciences Cancer Mutation PCR Assays |
| | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing ATAD3B |
|
Disorders
/ Diseases
for ATAD3B 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
|
ATAD3B for disorders About GeneDecksing
OMIM gene information: 612317
OMIM disorders: --
1  disease for ATAD3B: About MalaCardsmalaria
Human Genome Epidemiology (HuGE) Navigator: ATAD3B (4 documents)
Export disorders for ATAD3B gene to outside databases
|
Publications
for ATAD3B 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 ATAD3B gene, integrated from 9 sources (see all 31):
(articles sorted by number of sources associating them with ATAD3B) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- Prediction of the coding sequences of unidentified human genes. XV. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro. (PubMed id 10574462)1, 2, 3 Nagase T.... Ohara O. (1999)
- ATAD3B is a human embryonic stem cell specific mitochondrial protein, re-expressed in cancer cells, that functions as dominant negative for the ubiquitous ATAD3A. (PubMed id 22664726)1, 2 Merle N....Baudier J. (2012)
- The DNA sequence and biological annotation of human chromosome 1. (PubMed id 16710414)1, 2 Gregory S.G.... Bentley D.R. (2006)
- Molecular characterization of the tumor-associated antigen AAA-TOB3. (PubMed id 16909202)1, 2 Schaffrik M....Gires O. (2006)
- 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)
- Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
- Mitochondrial nucleoid interacting proteins support mitochondrial protein synthesis. (PubMed id 22453275)2 He J....Holt I.J. (2012)
- The proteomic analysis of endogenous FAT10 substrates identifies p62/SQSTM1 as a substrate of FAT10ylation. (PubMed id 22797925)1 Aichem A....Groettrup M. (2012)
- Global landscape of HIV-human protein complexes. (PubMed id 22190034)1 Jager S....Krogan N.J. (2012)
- [ATAD3, a vital membrane-bound mitochondrial ATPase in volved in tumor progression]. (PubMed id 22192748)1 Li S. and Rousseau D. (2011)
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External Searches for ATAD3B gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
|
|
Genome Databases showing ATAD3B gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing ATAD3B gene
(According to HUGE)
About This Section
| |
Specialized Databases showing ATAD3B 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 ATAD3B | Pharmacogenomics, SNPs, Pathways |
|
| | |
About This Section
| Patent Information for ATAD3B gene:
Search GeneIP for patents involving ATAD3B
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for ATAD3B 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
|
 | |
 | |
 |
| | |  | Browse OriGene Antibodies | | OriGene shRNA RFP for ATAD3B | | | OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for ATAD3B | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for ATAD3B | | | Browse OriGene Protein Over-expression Lysates | | Browse OriGene Fluorogenic Cell Assay Kits | | | OriGene siRNA for ATAD3B | | OriGene 3'-UTR Clone for ATAD3B | | | OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for ATAD3B | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for ATAD3B | | | 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,
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| | | QIAGEN Custom miScript Target Protector blocks miRNA-binding site of in human, mouse, rat ATAD3B | | | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing ATAD3B | | | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat ATAD3B | | | QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat ATAD3B | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat ATAD3B | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat ATAD3B |
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 | | | ATAD3B Proteins, Antibodies, CLIAs, and ELISAs |
| | | |  |  |  | | | | ThermoFisher Antibodies for ATAD3B |
| | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat ATAD3B |
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