archive:rna
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archive:rna [2015/05/08 01:28] JaredC |
archive:rna [2015/05/23 19:34] ceisenhart Fixed spelling error miss-communication to miscommunication |
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| In Feburary 2015 the [[http://omegabiotek.com/store/product/e-z-n-a-mollusc-rna-kit/|Omega Bio Tek E.Z.N.A.® Mollusc RNA kit]] was used to prepare 28 isolations of RNA from 16 tissue samples. Note that this kit is not recommended for RNA <200nt and there was no DNase treatment. | In Feburary 2015 the [[http://omegabiotek.com/store/product/e-z-n-a-mollusc-rna-kit/|Omega Bio Tek E.Z.N.A.® Mollusc RNA kit]] was used to prepare 28 isolations of RNA from 16 tissue samples. Note that this kit is not recommended for RNA <200nt and there was no DNase treatment. | ||
| - | In April 2015 the [[http://www.lifetechnologies.com/order/catalog/product/AM1561|mirVana™ miRNA Isolation Kit, without phenol]] was used to create a size selected sample of one of the RNA isolates (dg2). Later that month 9 RNA samples (V2, K, SMT, DA2, PA1, DG3, DG1, DG2-S, DG2-L) were run on a 1.5% CE Agarose gel compared to a 100nt RNA ladder. Unfortunately there was a miss-communication between Jared and his supervisor it is mostly unknown which sample made it to what well. Note that there is still a presence of small RNA (<200 nt) but no distinct rRNA, tRNA, or miRNA bands. | + | In April 2015 the [[http://www.lifetechnologies.com/order/catalog/product/AM1561|mirVana™ miRNA Isolation Kit, without phenol]] was used to create a size selected sample of one of the RNA isolates (dg2). Later that month 9 RNA samples (V2, K, SMT, DA2, PA1, DG3, DG1, DG2-S, DG2-L) were run on a 1.5% CE Agarose gel compared to a [[https://www.neb.com/products/n3231-100-bp-dna-ladder|NEB 100nt DNA ladder]]. Unfortunately there was a miscommunication between Jared and his supervisor it is mostly unknown which sample made it to what well. Note that there is still a presence of small RNA (<200 nt) but no distinct rRNA, tRNA, or miRNA bands. |
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| + | If we decide to make small RNA libraries a different protocol will need to be run on one of the left-over tissue cuts. | ||
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| Abbreviations for tissues cuts: | Abbreviations for tissues cuts: | ||
| | Tissue cut | Abbreviation ID | number of cuts from tissue | | | Tissue cut | Abbreviation ID | number of cuts from tissue | | ||
| - | | Albumen gland (proximal) | pa | 2 | | ||
| - | | Albumen gland (distal) | da | 2 | | ||
| | Penis | p | 3 | | | Penis | p | 3 | | ||
| | Digestive Gland | dg | 3 | | | Digestive Gland | dg | 3 | | ||
| + | | Albumen gland (proximal) | pa | 2 | | ||
| + | | Albumen gland (distal) | da | 2 | | ||
| | Vagina | v | 2 | | | Vagina | v | 2 | | ||
| | Penis Muscle | pm | 2 | | | Penis Muscle | pm | 2 | | ||
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| | da1 | 150.2 | 2.04 | 1.36 | 70 | 10.51 | | | | da1 | 150.2 | 2.04 | 1.36 | 70 | 10.51 | | | ||
| | da2 | 113.4 | 2.09 | 0.23 | 61 | 6.93 | contaminated? | | | da2 | 113.4 | 2.09 | 0.23 | 61 | 6.93 | contaminated? | | ||
| - | | v1 | 112 | 2.02 | 0.97 | 70 | 7.84 | tougher, lighter, bulbous | | + | | v1 | 112.0 | 2.02 | 0.97 | 70 | 7.84 | tougher, lighter, bulbous | |
| | v2 | 78.42 | 2.03 | 0.83 | 56 | 4.39 | flimsy, darker, sleeve-like | | | v2 | 78.42 | 2.03 | 0.83 | 56 | 4.39 | flimsy, darker, sleeve-like | | ||
| | pm1 | 3.207 | 1.91 | 0.41 | 70 | 0.22 | | | | pm1 | 3.207 | 1.91 | 0.41 | 70 | 0.22 | | | ||
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| | f1 | 40.84 | 1.88 | 0.89 | 70 | 2.86 | | | | f1 | 40.84 | 1.88 | 0.89 | 70 | 2.86 | | | ||
| | f2 | 47.03 | 1.84 | 1.77 | 69 | 3.25 | | | | f2 | 47.03 | 1.84 | 1.77 | 69 | 3.25 | | | ||
| - | | sg1 | 338 | 1.9 | 1.62 | 70 | 23.66 | dense with dark veins | | + | | sg1 | 338.0 | 1.9 | 1.62 | 70 | 23.66 | dense with dark veins | |
| | sg2 | 64.12 | 1.9 | 0.54 | 70 | 4.49 | absent of dark veins | | | sg2 | 64.12 | 1.9 | 0.54 | 70 | 4.49 | absent of dark veins | | ||
| | ot1 | 39.95 | 1.82 | 1.2 | 70 | 2.80 | | | | ot1 | 39.95 | 1.82 | 1.2 | 70 | 2.80 | | | ||
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| | ct | 40.43 | 1.92 | 1.82 | 70 | 2.83 | | | | ct | 40.43 | 1.92 | 1.82 | 70 | 2.83 | | | ||
| | smt | 93.26 | 1.95 | 1.86 | 59 | 5.50 | Steven spilled some | | | smt | 93.26 | 1.95 | 1.86 | 59 | 5.50 | Steven spilled some | | ||
| - | | k | 160 | 1.98 | 2.11 | 63.5 | 10.16 | | | + | | k | 160.0 | 1.98 | 2.11 | 63.5 | 10.16 | | |
| | p1 | 53.08 | 1.89 | 1.59 | 70 | 3.72 | only epiphallus | | | p1 | 53.08 | 1.89 | 1.59 | 70 | 3.72 | only epiphallus | | ||
| | p2 | 16.91 | 1.75 | 1.06 | 70 | 1.18 | | | | p2 | 16.91 | 1.75 | 1.06 | 70 | 1.18 | | | ||
archive/rna.txt · Last modified: 2015/07/28 05:58 by ceisenhart
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