Contrasting genotypes selection - labbces/sugarcane_RNAome GitHub Wiki
Genotype selection
We selected the following 54 genotypes contrasting in fiber and sugar content to assess co-expression of lncRNAs:
| Paper | PMID | Genotype | SRA/ENA Accession |
|---|---|---|---|
| Hoang et al. 2017 | 28532419 | Q200 | SRR5258946,SRR5258947,SRR5258986,SRR5258987 |
| Q241 | SRR5258948,SRR5258949,SRR5258988,SRR5258989 | ||
| QA96-1749 | SRR5258950,SRR5258951,SRR5258990,SRR5258991 | ||
| QS99-2014 | SRR5258952,SRR5258953,SRR5258992,SRR5258993 | ||
| QN05-1509 | SRR5258954,SRR5258955,SRR5258994,SRR5258995 | ||
| QN05-1743 | SRR5258956,SRR5258957,SRR5258996,SRR5258997 | ||
| QN05-1460 | SRR5258958,SRR5258959,SRR5258998,SRR5258999 | ||
| KQB09-20432 | SRR5258960,SRR5258961,SRR5259000,SRR5259001 | ||
| QA02-1009 | SRR5258962,SRR5258963,SRR5259002,SRR5259003 | ||
| KQB09-20620 | SRR5258964,SRR5258965,SRR5259004,SRR5259005 | ||
| KQB09-23137 | SRR5258966,SRR5258967,SRR5259006,SRR5259007 | ||
| QBYN04-26041 | SRR5258968,SRR5258969,SRR5259008,SRR5259009 | ||
| KQB07-24739 | SRR5258970,SRR5258971,SRR5259010,SRR5259011 | ||
| KQB07-24619 | SRR5258972,SRR5258973,SRR5259012,SRR5259013 | ||
| KQ08-2850 | SRR5258974,SRR5258975,SRR5259014,SRR5259015 | ||
| KQB07-23990 | SRR5258976,SRR5258977,SRR5259016,SRR5259017 | ||
| KQB08-32953 | SRR5258978,SRR5258979,SRR5259018,SRR5259019 | ||
| KQB07-23863 | SRR5258980,SRR5258981,SRR5259020,SRR5259021 | ||
| QN05-803 | SRR5258982,SRR5258983,SRR5259022,SRR5259023 | ||
| QC02-402 | SRR5258984,SRR5258985,SRR5259024,SRR5259025 | ||
| Correr et al. 2020 | 32993494 | Criolla Rayada | ERR4165208,ERR4165232 |
| White Transparent | ERR4165201,ERR4165202,ERR4165203,ERR4165225,ERR4165226,ERR4165227 | ||
| RB72454 | ERR4165198,ERR4165199,ERR4165200,ERR4165222,ERR4165223,ERR4165224 | ||
| RB855156 | ERR4165197,ERR4165221 | ||
| SP80-3280 | ERR4165204,ERR4165205,ERR4165206,ERR4165228,ERR4165229,ERR4165230 | ||
| TUC71–7 | ERR4165207,ERR4165231 | ||
| US85–1008 | ERR4165194,ERR4165195,ERR4165196,ERR4165218,ERR4165219,ERR4165220 | ||
| SES205A | ERR4165190,ERR4165191,ERR4165192,ERR4165214,ERR4165215,ERR4165216 | ||
| Krakatau | ERR4165189,ERR4165213 | ||
| IN84-88 | ERR4165193,ERR4165217 | ||
| IN84-58 | ERR4165185,ERR4165186,ERR4165187,ERR4165209,ERR4165210,ERR4165211 | ||
| IJ76-318 | ERR4165188,ERR4165212 | ||
| Perlo et al. 2022 | 35224663 | KQ236 | ERR5884039,ERR5885373,ERR5886291,ERR5905994,ERR5909881,ERR5981716,ERR5883365,ERR5902922,ERR5903243,ERR5917081,ERR5948708,ERR5953116,ERR5954120,ERR5986543,ERR5987646 |
| MQ239 | ERR5884017,ERR5906603,ERR5916890,ERR5936526,ERR5950733,ERR5979339,ERR5883203,ERR5884046,ERR5903230,ERR5950732,ERR5952572,ERR6000314,ERR5885034,ERR5950346,ERR5987083 | ||
| Q124 | ERR5881604,ERR5903071,ERR5934463,ERR5950350,ERR5977012,ERR5981713,ERR5882938,ERR5884038,ERR5902760,ERR5976780,ERR5976785,ERR5981704,ERR5976786,ERR5976802,ERR5986545 | ||
| Q135 | ERR5881820,ERR5883420,ERR5884118,ERR5886760,ERR5919572,ERR5978018,ERR5880619,ERR5881730,ERR5881912,ERR5927880,ERR5948420,ERR5954139,ERR5947504,ERR5986540,ERR5986956 | ||
| Q138 | ERR5884045,ERR5902711,ERR5906597,ERR5948290,ERR5959896,ERR5960127,ERR5908732,ERR5916889,ERR5934461,ERR5948388,ERR5950347,ERR5976728,ERR5943506,ERR5948272,ERR5950736 | ||
| Q151 | ERR5882008,ERR5882378,ERR5884014,ERR5950059,ERR5954095,ERR5976777,ERR5882631,ERR5884011,ERR5884047,ERR5902818,ERR5927883,ERR5950057,ERR5970143,ERR5976781,ERR5979921 | ||
| Q155 | ERR5882599,ERR5883111,ERR5883695,ERR5919475,ERR5954098,ERR5954110,ERR5881985,ERR5906598,ERR5906716,ERR5948280,ERR5954221,ERR5981715,ERR5948419,ERR5954123,ERR5957085 | ||
| Q157 | ERR5881766,ERR5883918,ERR5900082,ERR5948291,ERR5959253,ERR5978222,ERR5881673,ERR5906604,ERR5917041,ERR5959255,ERR5976733,ERR5978239,ERR5948284,ERR5950935,ERR5957071 | ||
| Q186 | ERR5888697,ERR5906386,ERR5914030,ERR5954116,ERR5976114,ERR5979485,ERR5881618,ERR5881980,ERR5903127,ERR5954238,ERR5976783,ERR5981344,ERR5954125,ERR5987085,ERR5987707 | ||
| Q200 | ERR5883595,ERR5890843,ERR5902481,ERR5956586,ERR5957090,ERR5969620,ERR5881779,ERR5882032,ERR5902492,ERR5946264,ERR5954121,ERR5981711,ERR5948275,ERR5981714,ERR5987777 | ||
| Q208 | ERR5881979,ERR5886249,ERR5916888,ERR5957065,ERR5969622,ERR5978457,ERR5884016,ERR5884037,ERR5902696,ERR5948279,ERR5948356,ERR5976806,ERR5950344,ERR5957069,ERR5969623 | ||
| Q237 | ERR5884018,ERR5900087,ERR5906596,ERR5954124,ERR5956420,ERR5976346,ERR5881808,ERR5884013,ERR5886322,ERR5956516,ERR5957073,ERR5981315,ERR5956571,ERR5986996,ERR5987469 | ||
| Q238 | ERR5884032,ERR5884190,ERR5906605,ERR5927881,ERR5948456,ERR5954113,ERR5881556,ERR5881831,ERR5890966,ERR5943487,ERR5948326,ERR5981343,ERR5950349,ERR5954215,ERR5975231 | ||
| Q240 | ERR5881976,ERR5882932,ERR5883771,ERR5948545,ERR5976520,ERR5981712,ERR5881977,ERR5886312,ERR5902781,ERR5914043,ERR5954180,ERR5956575,ERR5950587,ERR5986953,ERR5986954 | ||
| Q241 | ERR5883134,ERR5883634,ERR5886589,ERR5955369,ERR5956523,ERR5960150,ERR5883265,ERR5900339,ERR5906602,ERR5950928,ERR5954115,ERR5960089,ERR5918398,ERR5956582,ERR5987086 | ||
| Q253 | ERR5880620,ERR5882927,ERR5884019,ERR5917085,ERR5949402,ERR5976787,ERR5882924,ERR5883704,ERR5902783,ERR5922084,ERR5969624,ERR5976784,ERR5922114,ERR5948273,ERR5986477 | ||
| QN05-1743 | ERR5882632,ERR5884028,ERR5903195,ERR5919258,ERR5936494,ERR5960129,ERR5881983,ERR5881986,ERR5900395,ERR5954112,ERR5954117,ERR5976736,ERR5919417,ERR5987167,ERR5987806 | ||
| SRA1 | ERR5906595,ERR5914325,ERR5918519,ERR5948285,ERR5954092,ERR5960151,ERR5881329,ERR5881901,ERR5918393,ERR5969621,ERR5976732,ERR5978017,ERR5950738,ERR5959763,ERR5981340 | ||
| SRA2 | ERR5884010,ERR5884048,ERR5906600,ERR5950735,ERR5954368,ERR5976734,ERR5880736,ERR5881663,ERR5882603,ERR5936009,ERR5947684,ERR5976735,ERR5969904,ERR5976779,ERR5986476 | ||
| SRA3 | ERR5882821,ERR5884419,ERR5927876,ERR5934427,ERR5952766,ERR5976782,ERR5881566,ERR5881616,ERR5882600,ERR5927878,ERR5935630,ERR5974750,ERR5885438,ERR5957083,ERR5970264 | ||
| SRA5 | ERR5882606,ERR5884188,ERR5906599,ERR5914380,ERR5957070,ERR5960092,ERR5881408,ERR5881975,ERR5900056,ERR5927882,ERR5950343,ERR5976778,ERR5947505,ERR5952368,ERR5986541 | ||
| SRA8 | ERR5881560,ERR5884031,ERR5885040,ERR5948293,ERR5957079,ERR5960088,ERR5883268,ERR5883996,ERR5906385,ERR5936077,ERR5957197,ERR5960112,ERR5948278,ERR5956560,ERR5960090 |