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Center for Computational Systems Medicine
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Fusion Gene Summary

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Fusion Gene ORF analysis

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Fusion Genomic Features

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Fusion Protein Features

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Fusion Gene Sequence

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Fusion Gene PPI analysis

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Related Drugs

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Related Diseases

Fusion gene:TMEM9B-MGP (FusionGDB2 ID:92298)

Fusion Gene Summary for TMEM9B-MGP

check button Fusion gene summary
Fusion gene informationFusion gene name: TMEM9B-MGP
Fusion gene ID: 92298
HgeneTgene
Gene symbol

TMEM9B

MGP

Gene ID

56674

4256

Gene nameTMEM9 domain family member Bmatrix Gla protein
SynonymsC11orf15GIG36|MGLAP|NTI
Cytomap

11p15.4

12p12.3

Type of geneprotein-codingprotein-coding
Descriptiontransmembrane protein 9Bmatrix Gla proteincell growth-inhibiting gene 36 protein
Modification date2020031320200313
UniProtAcc.

P08493

Ensembl transtripts involved in fusion geneENST00000525069, ENST00000534025, 
ENST00000309134, ENST00000528117, 
ENST00000228938, ENST00000539261, 
Fusion gene scores* DoF score5 X 7 X 4=14011 X 8 X 3=264
# samples 812
** MAII scorelog2(8/140*10)=-0.807354922057604
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(12/264*10)=-1.13750352374993
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: TMEM9B [Title/Abstract] AND MGP [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointTMEM9B(8977737)-MGP(15035981), # samples:2
Anticipated loss of major functional domain due to fusion event.TMEM9B-MGP seems lost the major protein functional domain in Hgene partner, which is a essential gene due to the frame-shifted ORF.
* DoF score (Degree of Frequency) = # partners X # break points X # cancer types
** MAII score (Major Active Isofusion Index) = log2(# samples/DoF score*10)

check button Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez
PartnerGeneGO IDGO termPubMed ID

check buttonFusion gene breakpoints across TMEM9B (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure

check buttonFusion gene breakpoints across MGP (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure

check button Fusion gene information from two resources (ChiTars 5.0 and ChimerDB 4.0)
* All genome coordinats were lifted-over on hg19.
* Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser.
SourceDiseaseSampleHgeneHchrHbpHstrandTgeneTchrTbpTstrand
ChimerDB4BRCATCGA-BH-A0B1-01ATMEM9Bchr11

8977737

-MGPchr12

15035981

-


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Fusion Gene ORF analysis for TMEM9B-MGP

check button Open reading frame (ORF) analsis of fusion genes based on Ensembl gene isoform structure.
* Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser.
ORFHenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrand
Frame-shiftENST00000525069ENST00000228938TMEM9Bchr11

8977737

-MGPchr12

15035981

-
Frame-shiftENST00000525069ENST00000539261TMEM9Bchr11

8977737

-MGPchr12

15035981

-
Frame-shiftENST00000534025ENST00000228938TMEM9Bchr11

8977737

-MGPchr12

15035981

-
Frame-shiftENST00000534025ENST00000539261TMEM9Bchr11

8977737

-MGPchr12

15035981

-
In-frameENST00000309134ENST00000228938TMEM9Bchr11

8977737

-MGPchr12

15035981

-
In-frameENST00000309134ENST00000539261TMEM9Bchr11

8977737

-MGPchr12

15035981

-
In-frameENST00000528117ENST00000228938TMEM9Bchr11

8977737

-MGPchr12

15035981

-
In-frameENST00000528117ENST00000539261TMEM9Bchr11

8977737

-MGPchr12

15035981

-

check buttonORFfinder result based on the fusion transcript sequence of in-frame fusion genes.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandSeq length
(transcript)
BP loci
(transcript)
Predicted start
(transcript)
Predicted stop
(transcript)
Seq length
(amino acids)
ENST00000309134TMEM9Bchr118977737-ENST00000539261MGPchr1215035981-1518342114608164
ENST00000309134TMEM9Bchr118977737-ENST00000228938MGPchr1215035981-801342114608164
ENST00000528117TMEM9Bchr118977737-ENST00000539261MGPchr1215035981-147930375569164
ENST00000528117TMEM9Bchr118977737-ENST00000228938MGPchr1215035981-76230375569164

check buttonDeepORF prediction of the coding potential based on the fusion transcript sequence of in-frame fusion genes. DeepORF is a coding potential classifier based on convolutional neural network by comparing the real Ribo-seq data. If the no-coding score < 0.5 and coding score > 0.5, then the in-frame fusion transcript is predicted as being likely translated.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandNo-coding scoreCoding score
ENST00000309134ENST00000539261TMEM9Bchr118977737-MGPchr1215035981-0.176463630.82353634
ENST00000309134ENST00000228938TMEM9Bchr118977737-MGPchr1215035981-0.276437850.7235622
ENST00000528117ENST00000539261TMEM9Bchr118977737-MGPchr1215035981-0.208012550.7919874
ENST00000528117ENST00000228938TMEM9Bchr118977737-MGPchr1215035981-0.315011860.6849881

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Fusion Genomic Features for TMEM9B-MGP


check buttonFusionAI prediction of the potential fusion gene breakpoint based on the pre-mature RNA sequence context (+/- 5kb of individual partner genes, total 20kb length sequence). FusionAI is a fusion gene breakpoint classifier based on convolutional neural network by comparing the fusion positive and negative sequence context of ~ 20K fusion gene data. From here, we can have the relative potentency of the 20K genomic sequence how individual sequnce will be likely used as the gene fusion breakpoints.
HgeneHchrHbpHstrandTgeneTchrTbpTstrand1-pp (fusion gene breakpoint)

check buttonDistribution of 44 human genomic features loci across 20kb length fusion breakpoint regions. We integrated a total of 44 different types of human genomic feature loci information across five big categories including virus integration sites, repeats, structural variants, chromatin states, and gene expression regulation. More details are in help page.
genomic feature

check buttonDistribution of 44 human genomic features loci across 20kb length fusion breakpoint regions that are ovelapped with the top 1% feature importance score regions. More details are in help page.

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Fusion Protein Features for TMEM9B-MGP


check button Four levels of functional features of fusion genes
Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/chr11:8977737/chr12:15035981)
- FGviewer provides the online visualization of the retention search of the protein functional features across DNA, RNA, protein, and pathological levels.
- How to search
1. Put your fusion gene symbol.
2. Press the tab key until there will be shown the breakpoint information filled.
4. Go down and press 'Search' tab twice.
4. Go down to have the hyperlink of the search result.
5. Click the hyperlink.
6. See the FGviewer result for your fusion gene.
FGviewer

check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
.MGP

P08493

FUNCTION: Transcriptional activator which is required for calcium-dependent dendritic growth and branching in cortical neurons. Recruits CREB-binding protein (CREBBP) to nuclear bodies. Component of the CREST-BRG1 complex, a multiprotein complex that regulates promoter activation by orchestrating a calcium-dependent release of a repressor complex and a recruitment of an activator complex. In resting neurons, transcription of the c-FOS promoter is inhibited by BRG1-dependent recruitment of a phospho-RB1-HDAC1 repressor complex. Upon calcium influx, RB1 is dephosphorylated by calcineurin, which leads to release of the repressor complex. At the same time, there is increased recruitment of CREBBP to the promoter by a CREST-dependent mechanism, which leads to transcriptional activation. The CREST-BRG1 complex also binds to the NR2B promoter, and activity-dependent induction of NR2B expression involves a release of HDAC1 and recruitment of CREBBP (By similarity). {ECO:0000250}.FUNCTION: Associates with the organic matrix of bone and cartilage. Thought to act as an inhibitor of bone formation.

check buttonRetention analysis result of each fusion partner protein across 39 protein features of UniProt such as six molecule processing features, 13 region features, four site features, six amino acid modification features, two natural variation features, five experimental info features, and 3 secondary structure features. Here, because of limited space for viewing, we only show the protein feature retention information belong to the 13 regional features. All retention annotation result can be downloaded at

download page


* Minus value of BPloci means that the break pointn is located before the CDS.
- In-frame and retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
TgeneMGPchr11:8977737chr12:15035981ENST000005392611451_9731104.0DomainGla

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneTMEM9Bchr11:8977737chr12:15035981ENST00000534025-35105_125102199.0TransmembraneHelical
TgeneMGPchr11:8977737chr12:15035981ENST000002289382551_9756129.0DomainGla


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Fusion Gene Sequence for TMEM9B-MGP


check button For in-frame fusion transcripts, we provide the fusion transcript sequences and fusion amino acid sequences. To have fusion amino acid sequence, we ran ORFfinder and chose the longest ORF among the all predicted ones.
>92298_92298_1_TMEM9B-MGP_TMEM9B_chr11_8977737_ENST00000309134_MGP_chr12_15035981_ENST00000228938_length(transcript)=801nt_BP=342nt
GACGGAAGTGCGGGCGGAGGATCCCCAGCCGGGTCCCAAGCCTGTGCCTGAGCCTGAGCCTGAGCCTGAGCCCGAGCCGGGAGCCGGTCG
CGGGGGCTCCGGGCTGTGGGACCGCTGGGCCCCCAGCGATGGCGACCCTGTGGGGAGGCCTTCTTCGGCTTGGCTCCTTGCTCAGCCTGT
CGTGCCTGGCGCTTTCCGTGCTGCTGCTGGCGCAGCTGTCAGACGCCGCCAAGTGATTGCCTTCATGTTGTGGAGCCCATGCCTGTGCGG
GGGCCTGATGTAGAAGCATACTGTCTACGCTGTGAATGCAAATATGAAGAAAGAAGCTCTGTCACAATCAAGATCCCTTCATTAACAGGA
GAAATGCAAATACCTTCATATCCCCTCAGCAGAGATGGAGAGCTAAAGTCCAAGAGAGGATCCGAGAACGCTCTAAGCCTGTCCACGAGC
TCAATAGGGAAGCCTGTGATGACTACAGACTTTGCGAACGCTACGCCATGGTTTATGGATACAATGCTGCCTATAATCGCTACTTCAGGA
AGCGCCGAGGGACCAAATGAGACTGAGGGAAGAAAAAAAATCTCTTTTTTTCTGGAGGCTGGCACCTGATTTTGTATCCCCCTGTAGCAG
CATTACAGAAATACATAGGCTTATATACAATGCTTCTTTCCTGTATATTCTCTTGTCTGGCTGCACCCCTTTTTCCCGCCCCCAGATTGA

>92298_92298_1_TMEM9B-MGP_TMEM9B_chr11_8977737_ENST00000309134_MGP_chr12_15035981_ENST00000228938_length(amino acids)=164AA_BP=75
MGPQRWRPCGEAFFGLAPCSACRAWRFPCCCWRSCQTPPSDCLHVVEPMPVRGPDVEAYCLRCECKYEERSSVTIKIPSLTGEMQIPSYP

--------------------------------------------------------------
>92298_92298_2_TMEM9B-MGP_TMEM9B_chr11_8977737_ENST00000309134_MGP_chr12_15035981_ENST00000539261_length(transcript)=1518nt_BP=342nt
GACGGAAGTGCGGGCGGAGGATCCCCAGCCGGGTCCCAAGCCTGTGCCTGAGCCTGAGCCTGAGCCTGAGCCCGAGCCGGGAGCCGGTCG
CGGGGGCTCCGGGCTGTGGGACCGCTGGGCCCCCAGCGATGGCGACCCTGTGGGGAGGCCTTCTTCGGCTTGGCTCCTTGCTCAGCCTGT
CGTGCCTGGCGCTTTCCGTGCTGCTGCTGGCGCAGCTGTCAGACGCCGCCAAGTGATTGCCTTCATGTTGTGGAGCCCATGCCTGTGCGG
GGGCCTGATGTAGAAGCATACTGTCTACGCTGTGAATGCAAATATGAAGAAAGAAGCTCTGTCACAATCAAGATCCCTTCATTAACAGGA
GAAATGCAAATACCTTCATATCCCCTCAGCAGAGATGGAGAGCTAAAGTCCAAGAGAGGATCCGAGAACGCTCTAAGCCTGTCCACGAGC
TCAATAGGGAAGCCTGTGATGACTACAGACTTTGCGAACGCTACGCCATGGTTTATGGATACAATGCTGCCTATAATCGCTACTTCAGGA
AGCGCCGAGGGACCAAATGAGACTGAGGGAAGAAAAAAAATCTCTTTTTTTCTGGAGGCTGGCACCTGATTTTGTATCCCCCTGTAGCAG
CATTACAGAAATACATAGGCTTATATACAATGCTTCTTTCCTGTATATTCTCTTGTCTGGCTGCACCCCTTTTTCCCGCCCCCAGATTGA
TAAGTAATGAAAGTGCACTGCAGTGAGGGTCAAAGGAGAGTCAACATATGTGATTGTTCCATAATAAACTTCTGGTGTGATACTTTCATC
TTGTAAATCTGCTTTCTTTTGGGAAGATATTGAGATATTTAAATCATGGCCCACCTTACCCAAAATAGGAGATTCTGTTCATCTCATATC
TAGTATTAATTAGAAAAATAACTACATAAAAAGAAGGAAGCTAAGAAGGCACTCACTCAGCCATAAATTCTCTAAACCCTCTCTACCTTG
GAATCCGTGAATGGAATCTGGTATGTTTTTTGCAGGATTTTCCTATTGTAAATTGTGGCAAATACAGGGCTCCCTTCATTTGCTTTTCAT
CTCTTATGCATCAAAGTCAAAAACATTTCTGAATCAAGATAATCTAGAAGAGAAAAAAGGAGGAAAAGGAAAAGAGAAAGCAGAAGGGAC
AAATAAAAGCAATTGGCAAAAACTGTCAATAATAGTTTATACACTTAACTATATCAATAATCACATTATATGTAAATAGTCTAAACAATC
CAATTATTTTTTACTTCTACTTATGTTATATTTTTACTTCTACATTTGTTAAAGGTTCCACGCTACATTTTTACTATTCTTGCTTTAAAT
AATTTTAATAATTTCTTTTAAAGTTTAGATAATAAGAAAATATCCCGGGCCAGGCACAGTGGCCACACCTGTAATCTCAGTAGCCATGAC

>92298_92298_2_TMEM9B-MGP_TMEM9B_chr11_8977737_ENST00000309134_MGP_chr12_15035981_ENST00000539261_length(amino acids)=164AA_BP=75
MGPQRWRPCGEAFFGLAPCSACRAWRFPCCCWRSCQTPPSDCLHVVEPMPVRGPDVEAYCLRCECKYEERSSVTIKIPSLTGEMQIPSYP

--------------------------------------------------------------
>92298_92298_3_TMEM9B-MGP_TMEM9B_chr11_8977737_ENST00000528117_MGP_chr12_15035981_ENST00000228938_length(transcript)=762nt_BP=303nt
GCCTGTGCCTGAGCCTGAGCCTGAGCCTGAGCCCGAGCCGGGAGCCGGTCGCGGGGGCTCCGGGCTGTGGGACCGCTGGGCCCCCAGCGA
TGGCGACCCTGTGGGGAGGCCTTCTTCGGCTTGGCTCCTTGCTCAGCCTGTCGTGCCTGGCGCTTTCCGTGCTGCTGCTGGCGCAGCTGT
CAGACGCCGCCAAGTGATTGCCTTCATGTTGTGGAGCCCATGCCTGTGCGGGGGCCTGATGTAGAAGCATACTGTCTACGCTGTGAATGC
AAATATGAAGAAAGAAGCTCTGTCACAATCAAGATCCCTTCATTAACAGGAGAAATGCAAATACCTTCATATCCCCTCAGCAGAGATGGA
GAGCTAAAGTCCAAGAGAGGATCCGAGAACGCTCTAAGCCTGTCCACGAGCTCAATAGGGAAGCCTGTGATGACTACAGACTTTGCGAAC
GCTACGCCATGGTTTATGGATACAATGCTGCCTATAATCGCTACTTCAGGAAGCGCCGAGGGACCAAATGAGACTGAGGGAAGAAAAAAA
ATCTCTTTTTTTCTGGAGGCTGGCACCTGATTTTGTATCCCCCTGTAGCAGCATTACAGAAATACATAGGCTTATATACAATGCTTCTTT
CCTGTATATTCTCTTGTCTGGCTGCACCCCTTTTTCCCGCCCCCAGATTGATAAGTAATGAAAGTGCACTGCAGTGAGGGTCAAAGGAGA

>92298_92298_3_TMEM9B-MGP_TMEM9B_chr11_8977737_ENST00000528117_MGP_chr12_15035981_ENST00000228938_length(amino acids)=164AA_BP=75
MGPQRWRPCGEAFFGLAPCSACRAWRFPCCCWRSCQTPPSDCLHVVEPMPVRGPDVEAYCLRCECKYEERSSVTIKIPSLTGEMQIPSYP

--------------------------------------------------------------
>92298_92298_4_TMEM9B-MGP_TMEM9B_chr11_8977737_ENST00000528117_MGP_chr12_15035981_ENST00000539261_length(transcript)=1479nt_BP=303nt
GCCTGTGCCTGAGCCTGAGCCTGAGCCTGAGCCCGAGCCGGGAGCCGGTCGCGGGGGCTCCGGGCTGTGGGACCGCTGGGCCCCCAGCGA
TGGCGACCCTGTGGGGAGGCCTTCTTCGGCTTGGCTCCTTGCTCAGCCTGTCGTGCCTGGCGCTTTCCGTGCTGCTGCTGGCGCAGCTGT
CAGACGCCGCCAAGTGATTGCCTTCATGTTGTGGAGCCCATGCCTGTGCGGGGGCCTGATGTAGAAGCATACTGTCTACGCTGTGAATGC
AAATATGAAGAAAGAAGCTCTGTCACAATCAAGATCCCTTCATTAACAGGAGAAATGCAAATACCTTCATATCCCCTCAGCAGAGATGGA
GAGCTAAAGTCCAAGAGAGGATCCGAGAACGCTCTAAGCCTGTCCACGAGCTCAATAGGGAAGCCTGTGATGACTACAGACTTTGCGAAC
GCTACGCCATGGTTTATGGATACAATGCTGCCTATAATCGCTACTTCAGGAAGCGCCGAGGGACCAAATGAGACTGAGGGAAGAAAAAAA
ATCTCTTTTTTTCTGGAGGCTGGCACCTGATTTTGTATCCCCCTGTAGCAGCATTACAGAAATACATAGGCTTATATACAATGCTTCTTT
CCTGTATATTCTCTTGTCTGGCTGCACCCCTTTTTCCCGCCCCCAGATTGATAAGTAATGAAAGTGCACTGCAGTGAGGGTCAAAGGAGA
GTCAACATATGTGATTGTTCCATAATAAACTTCTGGTGTGATACTTTCATCTTGTAAATCTGCTTTCTTTTGGGAAGATATTGAGATATT
TAAATCATGGCCCACCTTACCCAAAATAGGAGATTCTGTTCATCTCATATCTAGTATTAATTAGAAAAATAACTACATAAAAAGAAGGAA
GCTAAGAAGGCACTCACTCAGCCATAAATTCTCTAAACCCTCTCTACCTTGGAATCCGTGAATGGAATCTGGTATGTTTTTTGCAGGATT
TTCCTATTGTAAATTGTGGCAAATACAGGGCTCCCTTCATTTGCTTTTCATCTCTTATGCATCAAAGTCAAAAACATTTCTGAATCAAGA
TAATCTAGAAGAGAAAAAAGGAGGAAAAGGAAAAGAGAAAGCAGAAGGGACAAATAAAAGCAATTGGCAAAAACTGTCAATAATAGTTTA
TACACTTAACTATATCAATAATCACATTATATGTAAATAGTCTAAACAATCCAATTATTTTTTACTTCTACTTATGTTATATTTTTACTT
CTACATTTGTTAAAGGTTCCACGCTACATTTTTACTATTCTTGCTTTAAATAATTTTAATAATTTCTTTTAAAGTTTAGATAATAAGAAA
ATATCCCGGGCCAGGCACAGTGGCCACACCTGTAATCTCAGTAGCCATGACCATACCAATGCACTCCAGCCTGTGAAACAGAGTGAGACT

>92298_92298_4_TMEM9B-MGP_TMEM9B_chr11_8977737_ENST00000528117_MGP_chr12_15035981_ENST00000539261_length(amino acids)=164AA_BP=75
MGPQRWRPCGEAFFGLAPCSACRAWRFPCCCWRSCQTPPSDCLHVVEPMPVRGPDVEAYCLRCECKYEERSSVTIKIPSLTGEMQIPSYP

--------------------------------------------------------------

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Fusion Gene PPI Analysis for TMEM9B-MGP


check button Go to ChiPPI (Chimeric Protein-Protein interactions) to see the chimeric PPI interaction in

ChiPPI page.


check button Protein-protein interactors with each fusion partner protein in wild-type (BIOGRID-3.4.160)
HgeneHgene's interactorsTgeneTgene's interactors


check button - Retained PPIs in in-frame fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenStill interaction with


check button - Lost PPIs in in-frame fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


check button - Retained PPIs, but lost function due to frame-shift fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


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Related Drugs for TMEM9B-MGP


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.8 2021-05-08)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

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Related Diseases for TMEM9B-MGP


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource