NIA Mouse Mesenchymal Stem Cell cDNA Library (Long)

Library Description

Organism:	Mus musculus
Strain:	C3H/He
Tissue:	Mesenchymal stem cell
Cell line:	9-15-C cells
Vector:	pSPORT1 (Invitrogen)
Vector type:	plasmid (ampicillin resistant)
Cloning site 1:	SalI
Cloning site 2:	NotI
Lab host:	DH10B

Mouse cDNA project by the Laboratory of Genetics, National Institute on Aging (NIA), Intramural Research Program, NIH (http://lgsun.grc.nia.nih.gov/cDNA). This is a long-transcript enriched cDNA library (Ref. Genome Res. 11: 1553-1558 (2001). [PMID: 11544199]). Total RNAs were obtained from Dr. Akihiro Umezawa (Keio University School of Medicine, Japan). Double-stranded cDNAs were synthesized with an Oligo(dT) primer [Invitrogen: 5'-pGACTAGTTCTAGATCGCGAGCGGCCGCCCTTTTTTTTTTTTTTT-3'] from 2.2 ug of total RNA, treated with T4 DNA polymerase, and purified by ethanol-precipitation. The cDNAs were ligated to Lone-linker LL-Sal4, purified by phenol/chloroform, and separated from free linkers by Centricon 100. Then, the cDNAs were amplified by long-range high fidelity PCR using Ex Taq polymerase (Takara) with a primer Sal4-S. The products were purified by phenol/chloroform and Centricon 100. The cDNAs were digested with SalI and NotI enzymes and cloned into SalI/NotI site of pSPORT1 plasmid vector. The DH10B E. coli host was transformed with the ligation mixture by the standard chemical method. The average insert size is about 2.5 kb. The library was constructed by Yulan Piao (NIA).

Source: Dawood B. Dudekula, National Institute on Aging/National Institutes of Health

Gene Content Analysis

6,196 ESTs from this library were grouped into 2,365 UniGene entries (putative genes) [UniGene build #194, 25-Jan-2013]. EST counts for each entry may be used to calculate an approximate expression level in transcripts per million (TPM).

ESTsTPM UniGene Entry

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80	12912	Mm.138471	Eukaryotic translation elongation factor 1 alpha 1.
60	9684	Mm.277792	Collagen, type I, alpha 2.
49	7908	Mm.379939	Transcribed locus, strongly similar to NP_989488.2 EEF1A1 gene product [Gallus gallus].
46	7424	Mm.419997	Ubiquitin C.
39	6294	Mm.326799	Eukaryotic translation elongation factor 2.
29	4680	Mm.336743	Heat shock protein 8.
27	4358	Mm.290022	Eukaryotic translation initiation factor 4B.
27	4358	Mm.238973	ATP synthase, H+ transporting mitochondrial F1 complex, beta subunit.
26	4196	Mm.485669	Eukaryotic translation elongation factor 1 alpha 1.
26	4196	Mm.392075	Calumenin.
26	4196	Mm.2180	Heat shock protein 90 alpha (cytosolic), class B member 1.
25	4035	Mm.277735	Collagen, type I, alpha 1.
24	3873	Mm.87773	Heat shock protein 90, beta (Grp94), member 1.
22	3551	Mm.290774	Heat shock protein 8.
20	3228	Mm.392113	Tubulin, alpha 1B.
18	2905	Mm.412745	Transcribed locus, strongly similar to NP_990334.1 HSPA8 gene product [Gallus gallus].
18	2905	Mm.341186	Heat shock protein 90, alpha (cytosolic), class A member 1.
18	2905	Mm.280083	Ribosomal protein L4.
18	2905	Mm.268000	Vimentin.
17	2744	Mm.70666	Enolase 1, alpha non-neuron.
15	2421	Mm.303231	Chemokine (C-X-C motif) ligand 12.
15	2421	Mm.289936	Phosphoserine aminotransferase 1.
15	2421	Mm.265610	Polypyrimidine tract binding protein 1.
15	2421	Mm.203866	AHNAK nucleoprotein (desmoyokin).
14	2260	Mm.487021	Stearoyl-Coenzyme A desaturase 2.
14	2260	Mm.428571	Septin 11.
14	2260	Mm.2608	Biglycan.
14	2260	Mm.258633	Stress-induced phosphoprotein 1.
14	2260	Mm.247788	Chaperonin containing Tcp1, subunit 2 (beta).
14	2260	Mm.22560	Cytochrome b5 reductase 3.
13	2098	Mm.396243	Ribosomal protein L3.
13	2098	Mm.330160	Heat shock protein 5.
13	2098	Mm.279923	Neural precursor cell expressed, developmentally down-regulated 4.
12	1937	Mm.81144	Actinin alpha 4.
12	1937	Mm.28278	Caveolin 1, caveolae protein.
12	1937	Mm.270186	Retinoblastoma binding protein 7.
12	1937	Mm.260256	Eukaryotic translation initiation factor 4, gamma 1.
12	1937	Mm.254588	Clathrin, heavy polypeptide (Hc).
12	1937	Mm.24174	Alanyl-tRNA synthetase.
12	1937	Mm.197486	Ribonucleotide reductase M1.
12	1937	Mm.196173	Transcribed locus, strongly similar to NP_033739.1 actin, cytoplasmic 2 [Mus musculus].
11	1775	Mm.295533	Filamin, alpha.
11	1775	Mm.289915	Damage specific DNA binding protein 1.
11	1775	Mm.282158	Chaperonin containing Tcp1, subunit 5 (epsilon).
11	1775	Mm.237064	Heterogeneous nuclear ribonucleoprotein A1.
11	1775	Mm.14910	Structural maintenance of chromosomes 3.
11	1775	Mm.1104	Ubiquitin-like modifier activating enzyme 1.
11	1775	Mm.10299	Collagen, type V, alpha 2.
10	1614	Mm.426706	Actin, gamma, cytoplasmic 1.
10	1614	Mm.387108	ERO1-like (S. cerevisiae).
10	1614	Mm.38087	Anoctamin 6.
10	1614	Mm.3757	Pre-mRNA processing factor 8.
10	1614	Mm.3224	DNA segment, Chr 15, ERATO Doi 621, expressed.
10	1614	Mm.30012	High density lipoprotein (HDL) binding protein.
10	1614	Mm.291442	Secreted acidic cysteine rich glycoprotein.
10	1614	Mm.289662	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 3, X-linked.
10	1614	Mm.260084	Eukaryotic translation initiation factor 4A2.
10	1614	Mm.245976	Valosin containing protein.
10	1614	Mm.24169	CCAAT/enhancer binding protein zeta.
10	1614	Mm.21109	Gelsolin.
10	1614	Mm.193099	Fibronectin 1.
10	1614	Mm.1777	Heat shock protein 1 (chaperonin).
10	1614

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Monday, June 30, 2014

9-15c database データベース　ncbi

NIA Mouse Mesenchymal Stem Cell cDNA Library (Long)

Library Description

Gene Content Analysis

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Monday, June 30, 2014

9-15c database データベース ncbi

NIA Mouse Mesenchymal Stem Cell cDNA Library (Long)

Library Description

Gene Content Analysis

No comments:

Post a Comment

9-15c database データベース　ncbi