bitotech and ms access
giobertmwlsh3
sampledb_tables.xlsxSampleInfo
| Fastq files | Sample_source_name | age | cultivar | genotype | organism | organism part | Instrument model | Library layout |
| SRR1662130 | seedlings_wildtype | 10-day old | Col-0 | wildtype | Arabidopsis thaliana | whole plant | Illumina HiSeq 2500 | SINGLE |
| SRR1662131 | seedlings_wildtype | 10-day old | Col-0 | wildtype | Arabidopsis thaliana | whole plant | Illumina HiSeq 2500 | SINGLE |
| SRR1662132 | seedlings_wildtype_flg22 | 10-day old | Col-0 | wildtype | Arabidopsis thaliana | whole plant | Illumina HiSeq 2500 | SINGLE |
| SRR1662133 | seedlings_wildtype_flg22 | 10-day old | Col-0 | wildtype | Arabidopsis thaliana | whole plant | Illumina HiSeq 2500 | SINGLE |
| SRR1662134 | seedlings_asr3-1 | 10-day old | asr3-1 | Arabidopsis thaliana | whole plant | Illumina HiSeq 2500 | SINGLE | |
| SRR1662135 | seedlings_asr3-1 | 10-day old | asr3-1 | Arabidopsis thaliana | whole plant | Illumina HiSeq 2500 | SINGLE | |
| SRR1662136 | seedlings_asr3-1_flg22 | 10-day old | asr3-1 | Arabidopsis thaliana | whole plant | Illumina HiSeq 2500 | SINGLE | |
| SRR1662137 | seedlings_asr3-1_flg22 | 10-day old | asr3-1 | Arabidopsis thaliana | whole plant | Illumina HiSeq 2500 | SINGLE | |
| SRR1662138 | seedlings_OX9 | 10-day old | 35S:ASR3-HA transgenic line OX9 | Arabidopsis thaliana | whole plant | Illumina HiSeq 2500 | SINGLE | |
| SRR1662139 | seedlings_OX9 | 10-day old | 35S:ASR3-HA transgenic line OX9 | Arabidopsis thaliana | whole plant | Illumina HiSeq 2500 | SINGLE | |
| SRR1662140 | seedlings_OX9_flg22 | 10-day old | 35S:ASR3-HA transgenic line OX9 | Arabidopsis thaliana | whole plant | Illumina HiSeq 2500 | SINGLE | |
| SRR1662141 | seedlings_OX9_flg22 | 10-day old | 35S:ASR3-HA transgenic line OX9 | Arabidopsis thaliana | whole plant | Illumina HiSeq 2500 | SINGLE |
AlignmentStats
| SampleID | TotalReadCount | AlignRate_percent |
| ACD1 | 40402304 | 87.7 |
| ACD1 | 43280431 | 87.8 |
| AHBP | 32489350 | 81.6 |
| Control pRAP Root | 43621243 | 89.6 |
| Control pRAP Root | 41710155 | 89.9 |
| Control pRAP Root | 41516125 | 87.8 |
| CPR5 | 44857728 | 90.8 |
| NPR1 | 39088179 | 85.2 |
| NPR1 | 42092685 | 89.8 |
| PAD4 | 39611748 | 83.7 |
| PAD4 | 37075327 | 83.4 |
| PAD4 | 38522814 | 79.5 |
| RAP2.6 | 38662027 | 90.2 |
| RAP2.6 | 41063673 | 87.7 |
| RAP2.6 | 42497242 | 89.6 |
| SGT1 | 38521004 | 90.5 |
| SGT1 | 35788431 | 89.3 |
| WRKY70 | 43730086 | 90.4 |
| WRKY70 | 37916990 | 89.4 |
| WRKY70 | 43144853 | 90.9 |
ReadCounts
| SampleID | SampleReplicaID | Transcript_ID | Gene_Read_Count | |
| ACD1 | ACD1_a | Glyma.01G000100.1 | 93 | |
| ACD1 | ACD1_a | Glyma.01G000200.1 | 459 | |
| ACD1 | ACD1_a | Glyma.01G000300.1 | 26 | |
| ACD1 | ACD1_a | Glyma.01G000400.1 | 394 | |
| ACD1 | ACD1_a | Glyma.01G000500.1 | 9 | |
| ACD1 | ACD1_a | Glyma.01G000600.1 | 449 | |
| ACD1 | ACD1_a | Glyma.01G000600.2 | 463 | |
| ACD1 | ACD1_a | Glyma.01G000700.1 | 115 | |
| ACD1 | ACD1_a | Glyma.01G000800.1 | 23 | |
| ACD1 | ACD1_a | Glyma.01G000900.1 | 1068 |
GeneAnnotation
| Transcript_ID | Gene_Desc | …. |
| Glyma.01G000100.1 | magnesium ion binding;thiamin pyrophosphate binding;hydro-lyases;catalytics;2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylic-acid synthases | |
| Glyma.01G000200.1 | ||
| Glyma.01G000300.1 | ||
| Glyma.01G000400.1 | FAR1-related sequence 9 | |
| Glyma.01G000500.1 | ||
| Glyma.01G000600.1 | FAR1-related sequence 5 | |
| Glyma.01G000600.2 | FAR1-related sequence 5 |
DifferentialExpression
| Gene_ID | Chr_Locus | Transcript_ID | SampleID | status | value_1 | value_2 | Foldchange | Transcript_stat | p_value | q_value | signif | Exp_Significance_Status |
| Glyma.01G000100 | Chr01:27354-28320 | Glyma.01G000100.1 | ACD1 | OK | 3.2387 | 2.05622 | -0.6554202076 | -0.75445 | 0.3967 | 0.668468 | no | no change |
| Glyma.01G000100 | Chr01:27354-28320 | Glyma.01G000100.1 | AHBP | OK | 2.45061 | 2.73311 | 0.1574026193 | 0.167923 | 0.88355 | 0.93448 | no | no change |
| Glyma.01G000100 | Chr01:27354-28320 | Glyma.01G000100.1 | CPR5 | OK | 2.97387 | 1.07043 | -1.4741511279 | -1.52149 | 0.19495 | 0.971403 | no | no change |
| Glyma.01G000100 | Chr01:27354-28320 | Glyma.01G000100.1 | NPR1 | OK | 2.26019 | 0.922478 | -1.2928576459 | -1.22077 | 0.1785 | 0.428075 | no | no change |
| Glyma.01G000100 | Chr01:27354-28320 | Glyma.01G000100.1 | PAD4 | OK | 2.71996 | 0.7387 | -1.8805249525 | -2.10378 | 0.01155 | 0.0439916 | yes | suppressed |
| Glyma.01G000100 | Chr01:27354-28320 | Glyma.01G000100.1 | RAP2.6 | OK | 2.99531 | 2.10136 | -0.5113819804 | -0.572477 | 0.47245 | 0.784605 | no | no change |
| Glyma.01G000100 | Chr01:27354-28320 | Glyma.01G000100.1 | SGT1 | OK | 2.32929 | 2.21312 | -0.0738085892 | -0.0734818 | 0.93005 | 0.970883 | no | no change |
| Glyma.01G000100 | Chr01:27354-28320 | Glyma.01G000100.1 | WRKY70 | OK | 4.49321 | 0.797702 | -2.4938246908 | -1.5821 | 0.07365 | 0.573207 | no | no change |
| Glyma.01G000200 | Chr01:58974-67527 | Glyma.01G000200.1 | ACD1 | OK | 0.565367 | 0.880031 | 0.6383666683 | 0.603736 | 0.44985 | 0.707334 | no | no change |
| Glyma.01G000200 | Chr01:58974-67527 | Glyma.01G000200.1 | AHBP | OK | 0.416314 | 0.724977 | 0.8002631512 | 0.708029 | 0.4948 | 0.684922 | no | no change |
