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cDNA libraries |
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| Lib name |
Tissue (Animals) |
Description |
Reads |
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| Amn |
Amnion (S) |
- |
2,394 |
| Aor |
Aorta (M) |
- |
5,121 |
| Bla |
Bladder (M) |
- |
8,042 |
| Nbma |
Bone marrow (S) |
115 days, bone marrow |
10,068 |
| Cbe |
Brain (M) |
Cerebellum |
4,180 |
| Cbrb |
Brain (B) |
Brain (cortex) |
7,814 |
| Fco |
Brain (M) |
Frontal cortex |
6,361 |
| Hyp |
Brain (S) |
Hypothalamus |
7,001 |
| Pgl |
Brain (M) |
Pituitary gland |
8,440 |
| Ecca |
Brain (S) |
F 50 days, cortex |
8,693 |
| Ecea |
Brain (S) |
F 50 days, cerebellum |
4,361 |
| Fcea |
Brain (S) |
F 100, cerebellum |
3,682 |
| Fcca |
Brain (S) |
F 107, cortex cerebri |
5,056 |
| Fhia |
Brain (S) |
F 107 Hippocampus |
5,897 |
| Cblb |
Haemopoetic (B) |
Blood |
8,711 |
| Jca |
Cartillage (S) |
Joint capsule |
8,775 |
| Ncaa |
Cartillage (S) |
115 days, cartilage |
7,306 |
| Panb |
Endocrine glands (M) |
Pancreas |
4,238 |
| Ret |
Eye (M) |
Retina |
7,768 |
| Eyea |
Eye (S) |
F 50, eye |
5,865 |
| Fat |
Fat (M) |
Fat |
6,783 |
| Che |
Heart (B) |
- |
7,336 |
| Hea |
Heart (M) |
- |
4,890 |
| Hlv |
Heart (S) |
Left ventricle |
7,181 |
| Cje |
Intestine (B) |
Jejunum |
6,052 |
| Col |
Intestine (S) |
Large intest, colon asc. |
5,128 |
| Duo |
Intestine (S) |
Small intest, duodenum |
5,787 |
| Ill |
Intestine (S) |
Small intest, illeum |
5,695 |
| Jej |
Intestine (S) |
Small intest, jejunum |
10,109 |
| Lin |
Intestine (M) |
Large intestine |
6,868 |
| Sin |
Intestine (M) |
Small intestine |
5,716 |
| Ejea |
Intestine (S) |
F 50, Jejunum |
10,118 |
| Ncoa |
Intestine (S) |
115 days, colon |
6,183 |
| Njea |
Intestine (S) |
115 days, jejunum |
6,027 |
| Cki |
Kidney (B) |
- |
6,052 |
| Kid |
Kidney (M) |
- |
7,708 |
| Cli |
Liver (B) |
- |
6,544 |
| Liv |
Liver (M) |
- |
6,836 |
| Elia |
Liver (S) |
F 50, liver |
6,587 |
| Flia |
Liver (S) |
F 100, liver |
4,929 |
| Clu |
Lung (B) |
- |
8,358 |
| Lunc |
Lung (M) |
- |
6,645 |
| Elua |
Lung (S) |
F 50 days, lung |
2,595 |
| Nlua |
Lung (S) |
115 days, lung |
5,217 |
| Cly |
Lymphatic gland (B) |
- |
8,289 |
| Lyg |
Lymphatic gland (M) |
- |
7,513 |
| Lnt |
Lymphatic gland (S) |
- |
7,027 |
| Cga |
Mammary gland (B) |
- |
3,583 |
| Mcp |
Mammary gland (S) |
Mammae, collostrum prod |
5,860 |
| Mga |
Mammary gland (M) |
7 days after weaning |
6,242 |
| Mgmb |
Mammary gland (M) |
14 days after birth |
5,545 |
| Mgp |
Mammary gland (M) |
7 days pre-birth |
4,335 |
| Med |
Mediastinum (S) |
- |
8,602 |
| Bfe |
Muscles (M) |
M. biceps femoris |
6,673 |
| Ctlb |
Muscles (B) |
Tenderloin |
6,533 |
| Isp |
Muscles (M) |
M. infraspinatus |
6,650 |
| Ldo |
Muscles (M) |
M. longissimus dorsi |
10,309 |
| Mas |
Muscles (S) |
M. masseter |
4,755 |
| Sme |
Muscles (M) |
M. semimembranosus |
3,274 |
| Ssp |
Muscles (M) |
M. supraspinatus |
7,379 |
| Ste |
Muscles (M) |
M. semitendinosus |
7,396 |
| Tbr |
Muscles (M) |
M. triceps brachii |
6,486 |
| Vin |
Muscles (M) |
M. vastus intermedius |
3,007 |
| Esea |
Muscles (S) |
F 50, M. semitendinosus |
7,905 |
| Nmsa |
Muscles (S) |
115 days, M. semitendinosus |
4,676 |
| Gul |
Oesophagus (M) |
- |
5,631 |
| Ova |
Ovary (M) |
- |
7,744 |
| Cov |
Ovary (S) |
- |
7,567 |
| Plad |
Placenta (M) |
- |
7,481 |
| Pro |
Prostata (M) |
- |
1,953 |
| Rec |
Rectum (M) |
- |
5,778 |
| Cmu |
Rhinal mucosal membrane (B) |
- |
5,365 |
| Nmma |
Rhinal mucosal membrane (S) |
115 days, mucosal memb. |
7,530 |
| Sag |
Salivary gland (M) |
- |
5,473 |
| Csk |
Skin (B) |
- |
7,105 |
| Ski |
Skin (M) |
- |
6,815 |
| Ton |
Skin (S) |
Tip of tongue, mucosa |
5,698 |
| Eepa |
Skin (S) |
F 50, epidermis |
8,159 |
| Erua |
Skin (S) |
F 50, regium bilicalis |
8,330 |
| Nepa |
Skin (S) |
115 days, epidermis |
5,437 |
| Spc |
Spinal cord (M) |
Spinal cord |
8,821 |
| Ebsa |
Spinal cord (S) |
F 50 days, brainstem |
8,453 |
| Fbsa |
Spinal cord (S) |
F 107 brainstem |
5,703 |
| Spl |
Spleen (M) |
- |
6,984 |
| Csp |
Spleen (B) |
- |
6,204 |
| Cst |
Stomach (B) |
- |
7,141 |
| Sto |
Stomach (M) |
- |
5,561 |
| Sug |
Suprarenal glands (M) |
- |
7,856 |
| Cag |
Suprarenal glands (B) |
Adrenal gland |
6,614 |
| Cte |
Testicle (B) |
- |
3,416 |
| Tes |
Testicle (M) |
- |
4,812 |
| Cty |
Thyroid glands (B) |
- |
9,608 |
| Thg |
Thyroid glands (M) |
- |
7,887 |
| Pty |
Thyroid glands (S) |
Piglet 2 days, thymus |
7,007 |
| Ftya |
Thyroid glands (S) |
F 100, thymus |
5,687 |
| Tra |
Trachea (M) |
- |
8,124 |
| Ute |
Uterus (S) |
- |
7,531 |
| Cut |
Uterus (B) |
- |
5,885 |
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The generated cDNA libraries, representing 35 tissues. They are here shown as two (overlapping) sets: a physiologic set and a developmental set. The column 'Lib name' gives three letter code for the library. 'Tissue' indicates the overall tissue the library was generated from, where '(Animals)' indicates whether the library was generated from a single (S or B) or multiple (M) animals. Libraries listed with (M) and (S) represent the pig breeds (mostly cross-breeds) used in Danish breeding (Landrace, Yorkshire, Duroc, and Hampshire), whereas the libraries listed with (B) present Chinese pig breeds. 'Description' provides a short description. The column 'Reads' shows the number of reads that went into that library after cleaning. The sum of all 'Reads' corresponds to the number of generated reads that contributed to the assembly, that is the number of reads after cleaning vector, repeats, and so on. Library names beginning with 'C' originates from Chinese pig breeds (except for 'Col' and 'Cbe'), whereas the remaining libraries originated from Danish pig breeds. aDevelopmental tissue. bIgnored in expression analysis (see Materials and methods). cLikely to be heavily contaminated by liver expressed sequence tags. dA normalized library. | |||
Gorodkin et al. Genome Biology 2007 8:R45 doi:10.1186/gb-2007-8-4-r45 |
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