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HAPLN4 Gene

protein-coding GIFtS: 53

GC19M019230

hyaluronan and proteoglycan link protein 4
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database

(According to ¹HGNC, ²Entrez Gene,
³UniProtKB/Swiss-Prot, ⁴UniProtKB/TrEMBL, ⁵OMIM, ⁶GeneLoc , and/or ⁷Ensembl, ⁸miRBase)
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Aliases
BRAL2 ^¹, ², ³
KIAA1926 ^¹, ², ³

Descriptions
Brain link protein 2 ^², ³
hyaluronan and proteoglycan link protein 4 ^²

External Ids
HGNC: 31357¹
Entrez Gene: 404037²
UniProtKB: Q86UW8³
Ensembl: ENSG00000187664⁷

Search outside databases for aliases for HAPLN4 gene

Previous GC identifers: GC19M019227 GC19M019229

(According to Entrez Gene, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

UniProtKB/Swiss-Prot: HPLN4_HUMAN, Q86UW8

Function: Binds to hyaluronic acid and may be involved in formation of the extracellular matrix (By

similarity)

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 36),
and/or miRBase,
Genomic Views according to UCSC and Ensembl, Transcription factor binding sites according to SABiosciences)
About This Section

Genomic View:

UCSC Golden Path with GeneCards custom track

Transcription factor binding sites upstream to the HAPLN4 gene

Entrez Gene cytogenetic band: 19p13.1 Ensembl cytogenetic band: 19p13.11 HGNC cytogenetic band: 19p13.1

HAPLN4 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)

GeneLoc gene densities for chromosome 19 GeneLoc Exon Structure

GeneLoc location for GC19M019230: (about GC identifiers)

Start:	19,226,557 bp from pter
End:	19,245,178 bp from pter
Size:	18,622 bases
Orientation:	minus strand

RefSeq DNA sequence:

NC_000019.8 NT_011295.10

(According to ¹UniProtKB, and/or Ensembl, Phosphorylation sites according to ²Phosphosite, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Enzo Life Sciences, Abnova, OriGene and/or, Abcam,
Biochemical Assays by Invitrogen, Millipore, R&D Systems, Cell Signaling Technology, and/or Enzo Life Sciences, Ontologies according to Gene Ontology Consortium 01 Apr 2009 and Entrez Gene, Antibodies by Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Cell Signaling Technology, Abcam, Abnova, and/or Novus Biologicals)
About This Section

UniProtKB/Swiss-Prot: HPLN4_HUMAN, Q86UW8 (See protein sequence)

Recommended Name: Hyaluronan and proteoglycan link protein 4 precursor

Size: 402 amino acids; 42801 Da

Subcellular location: Secreted, extracellular space, extracellular matrix (By similarity)

Secondary accessions: Q96PW2

Post-translational modifications:

View phosphorylation sites using PhosphoSite²

REFSEQ proteins: NP_075378.1

ENSEMBL proteins:

ENSP00000291481

Human Recombinant Proteins

	Browse Drug Discovery Central at Invitrogen for human recombinant proteins
	Browse Purified and Recombinant Proteins at Millipore
	Browse Human Recombinant Proteins at Sigma-Aldrich
	Browse R&D Systems for human recombinant proteins
	Browse recombinant and purified proteins available from Enzo Life Sciences
	Recombinant Proteins from Abcam (HAPLN4)
	Human Recombinant Proteins from Abnova (HAPLN4)

Browse Origene for full length recombinant human proteins expressed in human HEK293 cells

2 Gene Ontology (GO) cellular component terms (links to tree view):

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0005576	extracellular region	IEA	--
GO:0005578	proteinaceous extracellular matrix	IEA	--

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Antibodies for HAPLN4:

	Browse Antibodies Central at Invitrogen
	Browse Millipore's Extensive Line of Mono- and Polyclonal Antibodies
	Sigma-Aldrich Antibodies for HAPLN4
	R&D Systems Antibodies for HAPLN4
	Antibodies from Abcam (HAPLN4), each with their Abpromise^SM
	Monoclonal and Polyclonal Antibodies from Abnova (HAPLN4)
	Novus Biologicals Antibodies for HAPLN4

Assays for HAPLN4:

	Browse Invitrogen for biochemical assays
	Browse Kits and Assays available from Millipore
	Browse R&D Systems for biochemical assays
	Browse biochemical assays available from Enzo Life Sciences

(According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
About This Section

Graphical View of Domain Structure for InterPro Entry Q86UW8

ProtoNet protein and cluster: Q86UW8

3 Blocks protein families:

IPB000538 Link domain

IPB003598 Immunoglobulin C-2 type

IPB013106 Immunoglobulin V-set

UniProtKB/Swiss-Prot: HPLN4_HUMAN, Q86UW8

Similarity: Belongs to the HAPLN family

Similarity: Contains 1 Ig-like C2-type (immunoglobulin-like) domain

Similarity: Contains 2 Link domains

(According to MGI Jun 06 2009, UniProtKB, IUBMB,and/or Genatlas,
shRNA from OriGene, Sigma-Aldrich, RNAi from Sigma-Aldrich,
RNAi Products, Clones, and Q-PCR Products from Invitrogen, Millipore, OriGene, and/or Abnova, siRNAs from Applied Biosystems, SYBR primers from OriGene, Cell-based Assays from Millipore, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
About This Section

Inhib. RNA:		Invitrogen RNAi Products for gene knock-down (HAPLN4)
		Browse for Gene Knock-down Tools from Millipore
		Abnova Chimera RNAi Products for Gene knock-down (HAPLN4)

OriGene 29mer shRNA kit in GFP-retroviral vector: NM_023002

Applied Biosystems Silencer® siRNAs for HAPLN4

Sigma-Aldrich siRNA for HAPLN4

Sigma-Aldrich shRNA for HAPLN4

Explore Sigma-Aldrich super-pooled esiRNAs

Clones:		Browse Clone Ranger at Invitrogen for clones
		Browse Clones for the Expression of Recombinant Proteins Available from Millipore

OriGene GFP tagged cDNA clone in CMV expression vector: NM_023002
Myc/DDK tagged cDNA clone in CMV expression vector: NM_023002
untagged cDNA clone in CMV expression vector: NM_023002

Primers:

Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers

OriGene genome-wide validated SYBR primer pairs: NM_023002

UniProtKB/Swiss-Prot: HPLN4_HUMAN, Q86UW8

Function: Binds to hyaluronic acid and may be involved in formation of the extracellular matrix (By

similarity)

2 Gene Ontology (GO) molecular function terms (links to tree view):

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0005488	binding	IEA	--
GO:0005540	hyaluronic acid binding	IEA	--

About this table

(Pathways according to Invitrogen (maps by GeneGo), Millipore, Cell Signaling Technology, Sigma-Aldrich, KEGG and/or UniProtKB,
Sets of similar genes according to GeneDecks, Proteins Network according to SABiosciences, Interactions according to ¹UniProtKB, ²MINT, and/or ³STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
About This Section

1 Interacting protein for HAPLN4 (ENSP00000291481³) via UniProtKB, MINT, and/or STRING

Interactant		Interaction Details
GeneCard	External ID(s)	Interaction Details
TM6SF1	ENSP00000368696³	STRING (score=.813)

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1 Gene Ontology (GO) biological process term (links to tree view):

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0007155	cell adhesion	IEA	--

About this table

(Chemical Compounds according to UniProtKB, Enzo Life Sciences, Sigma-Aldrich, Tocris Bioscience, and/or Novoseek and Drugs according to Enzo Life Sciences and/or PharmGKB)
About This Section

Browse drugs & compounds from Enzo Life Sciences

Browse Small Molecules at Sigma-Aldrich

Browse Tocris compounds for HAPLN4

(GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 219 Homo sapiens; Jun 2 2009) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView,
non coding RNAs according to RNAdb,
ESTs according to GeneTide,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
RNAi Products from Invitrogen, Millipore, and/or Abnova,
siRNAs from Applied Biosystems, Sigma-Aldrich,
shRNA from Sigma-Aldrich, OriGene,
Tagged/untagged cDNA clones from OriGene,
Expression Assays from Applied Biosystems)
About This Section

Inhib. RNA:		Invitrogen RNAi Products for gene knock-down (HAPLN4)
		Browse for Gene Knock-down Tools from Millipore
		Abnova Chimera RNAi Products for Gene knock-down (HAPLN4)

OriGene 29mer shRNA kit in GFP-retroviral vector: NM_023002

Sigma-Aldrich siRNA for HAPLN4

Sigma-Aldrich shRNA for HAPLN4

Explore Sigma-Aldrich super-pooled esiRNAs

Applied Biosystems Silencer® siRNAs:

NM_023002

REFSEQ mRNAs for HAPLN4 gene:

NM_023002.2

Applied Biosystems TaqMan ® Gene Expression Assays:

NM_023002

              OriGene GFP tagged cDNA clone in CMV expression vector: NM_023002
                                 Myc/DDK tagged cDNA clone in CMV expression vector: NM_023002
                                 untagged cDNA clone in CMV expression vector: NM_023002

Additional cDNA sequence:

AB107883.1 AL389941.1 AY262756.1 BC142644.1 BC142698.1

3 DOTS entries:

DT.91691895 DT.121493075 DT.407752

24/43 AceView cDNA sequences (see all 43 ):

BX096239 AK026307 NM_023002 AB107883 AF255923 AY262756 NM_001001524 AA907902

NM_203510 AW450803 AB067513 BE047138 BM683825 CK300169 AK097070 BM930363

Z42718 BQ184042 BQ189795 AL389941 AW149841 BQ083418 BM682566 AA984368

highest scoring ESTs for HAPLN4:

AY262756 N99350 CK300901 AA324682 AA984368 AB107883 AI826108 AL389941 AW149841 AW450803

Unigene Cluster for HAPLN4:

Hyaluronan and proteoglycan link protein 4

Hs.367829 [show with all ESTs]

Unigene Representative Sequence: BC142698

GeneLoc Exon Structure

1 Ensembl transcript including schematic representation:

ENST00000291481

(Experimental results according to ¹GeneNote and GNF BioGPS,
probe sets-to-genes annotations according to ²GeneAnnot , ³GeneTide , Sets of similar genes according to GeneDecks, Electronic Northern calculations according to data from UniGene (Build 219 Homo sapiens), SAGE tags according to CGAP, plus additional links to SOURCE, and/or GNF BioGPS, and/or EXPOLDB, and/or UniProtKB,
Expression Assays from Applied Biosystems )
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HAPLN4 expression in normal and diseased human tissues

Applied Biosystems TaqMan ® Gene Expression Assays for HAPLN4

¹ / ² / ³

3 probe-sets matching HAPLN4 gene

Affymetrix probe-set	Array	# genes	Sensitivity	Specificity	Correlation	Length	Gb_Accession	Consensus	Uniqueness	Score	Rank
Affymetrix probe-set	Array	GeneAnnot data			GeneNote data		GeneTide data
46493_at²^{, 3}	U95-B	1	1.00	1.00	1.00	1.00	N99350	0.80	0.88	0.84	1
235420_at²^{, 3}	U133-B	1	1.00	1.00	--	--	W63783	0.60	0.83	0.73	1
235420_at²	U133Plus2	1	1.00	1.00	--	--	--	--	--	--	--

GeneDecks HAPLN4 for binary patterns associated with the probe-sets selected above

About GeneDecksing

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Data from

(Publications) and GNF BioGPS
About these images
About these images

CGAP SAGE TAG: ACAACCAGAC

SOURCE GeneReport for Unigene cluster: Hs.367829
UniProtKB/Swiss-Prot: HPLN4_HUMAN, Q86UW8
Tissue specificity: Expressed predominantly in brain

(Orthologs according to ^1,2HomoloGene (²older version, for species not in ¹newer version), ³euGenes, ⁴SGD and/or ⁵MGI Jun 06 2009, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
About This Section

Orthologs for HAPLN4 gene from 5 species

Organism	Gene	Locus	Description	Human Similarity	NCBI accessions
chimpanzee (Pan troglodytes)	HAPLN4¹	--	hyaluronan and proteoglycan link protein 4	99.33(n) 100(a)	468776 XM_524163.2 XP_524163.2
cow (Bos taurus)	HAPLN4¹	--	hyaluronan and proteoglycan link protein 4	87.53(n) 96.26(a)	539254 XM_585944.3 XP_585944.3
rat (Rattus norvegicus)	Hapln4¹	--	hyaluronan and proteoglycan link protein 4	83.63(n) 91.23(a)	361129 XM_341416.3 XP_341417.3
mouse (Mus musculus)	Hapln4^{1, 5}	8⁵	hyaluronan and proteoglycan link protein 4^{1, 5}	83.96(n)¹ 91.48(a)¹	330790¹ NM_177900.4¹ NP_808568.1¹ AB107882⁵ AI841064⁵ (see all 12)
zebrafish (Danio rerio)	si:dkey-19f23.2¹	--	si:dkey-19f23.2	63.9(n) 65.81(a)	559818 NM_001044907.1 NP_001038372.1

About this table Species with no ortholog for HAPLN4

ENSEMBL Gene Tree for HAPLN4

(Paralogs according to ¹HomoloGene
and ²Ensembl, Pseudogenes according to ³Pseudogene.org)
About This Section

Paralogs for HAPLN4 gene

HAPLN1² HAPLN3² NCAN² HAPLN2²

(According to the ¹NCBI SNP Database, ²Ensembl, ³PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Genotyping Reagents from Applied Biosystems)
About This Section

10/35 NCBI SNPs in HAPLN4 are shown (see all 35 )
(Click for Applied Biosystems TaqMan ® Genotyping Assay) (see all 31)

AB	SNP ID	Valid	Chr 19 pos	Sequence	Recs	AA Chg	Type	More	Recs	Allele freq	Pop	Total sample	More
AB	Genomic Data				Transcription Data				Allele Frequencies
				--	--	--		--	--				--
	rs988339^1,2	A,C,F,H,O	19227407(+)	`TTATCT/AACCAA`	1	--	ng5¹		7		NA EU EA WA	562
	rs2074296^1,2	A,C,F,H	19234689(+)	`GGTGTA/GTTAAA`	1	--	ng3¹		4		EU EA WA	410
	rs8105094^1,2	A,C,F,H	19235061(+)	`acaggC/Tcccaa`	1	--	ng3¹		4		EU EA WA	412
	rs8105984^1,2	A,C,F,H	19235068(+)	`ccaatT/Ccaagt`	1	--	ng3¹		4		EU EA WA	416
	rs17216041^1,2	C,F,H	19227643(+)	`GATAGG/ATTTCC`	1	--	ut3¹		11		NA EU EA WA	970
	rs3752170^1,2	F	19228178(+)	`ATGGGG/ATGCAG`	1	--	ut3¹ ese³		1		EA	1502
	rs2074295^1,2	A,C,F	19230435(+)	`CCTGCA/GCTCCC`	1	S/S	syn¹ ese³		1		EA	1478
--	rs4808934^1,2	A,C,F,H	19231917(+)	`TGACAC/TGGTGT`	1	--	int¹		4		EU EA WA	412
--	rs7257875^1,2	A	19233150(+)	`AGTGGC/TTGGGG`	1	--	int¹		0	--	--	--	--
--	rs10422893^1,2	A	19233185(+)	`TACCCC/GCTACC`	1	--	int¹		0	--	--	--	--

About this table

HapMap Linkage Disequilibrium images for HAPLN4 (up to first 250kb)

(in which this Gene is Involved, According to OMIM, UniProtKB, PharmGKB, Genatlas, GeneTests, Blood group antigen gene mutations by BGMUT, HGMD, GAD, HuGE Navigator, BCGD, and/or TGDB.)
About This Section

(Possibly Related Articles in Doctor's Guide)
About This Section

(in PubMed. Associations of this gene to articles via ¹Novoseek, ²HGNC, ³Entrez Gene, ⁴UniProtKB/Swiss-Prot, ⁵UniProtKB/TrEMBL, ⁶GAD, and/or ⁷PharmGKB)
About This Section

4 PubMed articles for HAPLN4 gene:

A hyaluronan binding link protein gene family whose members are physically linked adjacent to chondroitin sulfate proteoglycan core protein genes: the missing links. (PubMed id 12663660)^{1, 2, 3, 4} Spicer A.P.... Bowling R.A. Jr. (2003)
Molecular cloning of Bral2, a novel brain-specific link protein, and immunohistochemical colocalization with brevican in perineuronal nets. (PubMed id 14550776)^{3, 4} Bekku Y.... Oohashi T. (2003)
Prediction of the coding sequences of unidentified human genes. XXI. The complete sequences of 60 new cDNA clones from brain which code for large proteins. (PubMed id 11572484)^{3, 4} Nagase T....Ohara O. (2001)
Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)³ Strausberg R.L....Marra M.A. (2002)

(in PubMed, OMIM, and NCBI Bookshelf)
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		AND	OR
Aliases
Free Text

Query String		PubMed OMIM NCBI Bookshelf
	(Note: In FireFox, select the above section and copy using Ctrl-C)

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, and/or H-InvDB)
About This Section

Entrez Gene: 404037	HGNC: 31357	AceView: HAPLN4andTM6SF2	Ensembl:ENSG00000187664	euGenes: HUgn404037
ECgene: HAPLN4	H-InvDB: HAPLN4

(According to HUGE)
About This Section

HUGE: KIAA1926

(According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section

Licensable Technologies for HAPLN4
(Available from WIS Yeda, Salk, Tufts)

About This Section

(Reagents available from Applied Biosystems, Antibodies and assays by Cell Signaling Technology, Abcam, Novus Biologicals,
Sigma-Aldrich, R&D Systems, Millipore, Abnova, and/or Invitrogen, Clones available from OriGene,and/or Invitrogen, Drugs and/or compounds by Sigma-Aldrich,
Enzo Life Sciences, and/or Tocris Bioscience)
About This Section

Products for HAPLN4:

TaqMan ® Gene Expression Assays

TaqMan ® Genotyping Assays

Free SNP selection tool

Invitrogen iPath Pathways	Invitrogen BLOCK-iT™ RNAi
Invitrogen Antibodies	Invitrogen Assays
Invitrogen Clones	Invitrogen Q-PCR Products
Invitrogen Human Recombinant Kinases	Invitrogen Custom Antibody and Peptide Service
Invitrogen Proteins / Assays / Screening Services	Search Invitrogen catalog for HAPLN4-related products

	Millipore Custom Antibody & Bulk Services
	Millipore Preclinical / Clinical Development Services
	Millipore Immunoassay Services
	Millipore Target Screening & Profiling Services

	Predesigned and custom siRNAs for HAPLN4		Antibodies for HAPLN4
	Explore super-pooled esiRNAs		Browse proteins at Sigma-Aldrich
	Lentivirus-delivered shRNAs for HAPLN4		Browse small molecules at Sigma-Aldrich
	"Your Favorite Gene" Pathways		feedback

	Antibodies		Primer Pairs
	Cell Culture Products		ELISAs
	Flow Cytometry Kits		Protease Activity Assays & Reagents
	Cell Selection/Detection Kits & Reagents		ELISA/Assay Development Kits & Reagents
	Multiplex/Array Assay Kits & Reagents		ELISpot Kits & Development Modules
	Recombinant & Natural Proteins

	Recombinant Proteins (HAPLN4)
	Antibodies (HAPLN4)
	Chimera RNAi (HAPLN4)
	Custom Service for Mouse Mab
	Custom Service for Rabbit Pab from Full-length Protein

Search for Antibodies & Assays

	Recombinant Proteins (HAPLN4)
	Antibodies (HAPLN4)

Search OriGene for HAPLN4

Search Tocris compounds for HAPLN4

Search www.enzolifesicences.com for proteins, assays, substrates, inhibitors & antibodies

Antibodies for HAPLN4

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HAPLN4 Gene

protein-coding GIFtS: 53

Aliases &
Descriptions
for HAPLN4

Summaries
for HAPLN4

Genomic Location
for HAPLN4

Proteins
for HAPLN4

Protein Domains/
Families
for HAPLN4

Gene Function
for HAPLN4

Pathways & Interactions
for HAPLN4

Drugs & Compounds
for HAPLN4

Transcripts
for HAPLN4

Expression
for HAPLN4

Orthologs
for HAPLN4

Paralogs
for HAPLN4

SNPs/Variants
for HAPLN4

Disorders & Mutations
for HAPLN4

Medical News
for HAPLN4

Publications
for HAPLN4

Search for HAPLN4

Genome Databases showing HAPLN4

Other Databases showing HAPLN4

Specialized Databases showing HAPLN4

Licensable Technologies
for HAPLN4

Services
for HAPLN4

Gene Index: 3 5 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z

HAPLN4 Gene

protein-coding GIFtS: 53

Aliases & Descriptionsfor HAPLN4

Summariesfor HAPLN4

Genomic Locationfor HAPLN4

Proteinsfor HAPLN4

Protein Domains/Familiesfor HAPLN4

Gene Functionfor HAPLN4

Pathways & Interactionsfor HAPLN4

Drugs & Compoundsfor HAPLN4

Transcriptsfor HAPLN4

Expression for HAPLN4

Orthologsfor HAPLN4

Paralogsfor HAPLN4

SNPs/Variantsfor HAPLN4

Disorders & Mutationsfor HAPLN4

Medical Newsfor HAPLN4

Publicationsfor HAPLN4

Search for HAPLN4

Genome Databases showing HAPLN4

Other Databases showing HAPLN4

Specialized Databases showing HAPLN4

Licensable Technologiesfor HAPLN4

Servicesfor HAPLN4

Gene Index: 3 5 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z

Aliases &
Descriptions
for HAPLN4

Summaries
for HAPLN4

Genomic Location
for HAPLN4

Proteins
for HAPLN4

Protein Domains/
Families
for HAPLN4

Gene Function
for HAPLN4

Pathways & Interactions
for HAPLN4

Drugs & Compounds
for HAPLN4

Transcripts
for HAPLN4

Expression
for HAPLN4

Orthologs
for HAPLN4

Paralogs
for HAPLN4

SNPs/Variants
for HAPLN4

Disorders & Mutations
for HAPLN4

Medical News
for HAPLN4

Publications
for HAPLN4

Licensable Technologies
for HAPLN4

Services
for HAPLN4