TnSeqCorr

• These are correlations of TnSeq responses across 82 experimental conditions.
• LFCs (log2-fold-changes) were computed for each gene in each condition relative to a relevant control condition (e.g. H37Rv grown on 7H9).
• The LFCs were normalized by dividing by the standard deviation for each condition. (so roughly, |LFC|>2 are the outliers, i.e. tails of the distribution)
• Note that essential genes often have LFCs around 0.
• Data for some genes is not available if they have less than 3 TA sites, or the dynamic range of LFCs is less than 2.0 across all conditions. (This is the case for many essential genes.)
• 'leverage' on each plot is a statistical score that indicates how much the regression is influenced by a few outlier points; the traditional threshold is indicated on the plots (3p/n, which is about 0.07 for this dataset), but in practice, cases with leverage > ~0.2 seem to be the least reliable (most misleading) correlation coefficients.

Top 10 genes with highest correlation to Rv3069/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv2010/vapC15	(cc=0.5865)	info on Rv2010/vapC15
Rv2628/-	(cc=0.5602)	info on Rv2628/-
Rv0953c/-	(cc=0.5241)	info on Rv0953c/-
Rv1736c/narX	(cc=0.5103)	info on Rv1736c/narX
Rv1940/ribA1	(cc=0.4978)	info on Rv1940/ribA1
Rv3519/-	(cc=0.4877)	info on Rv3519/-
Rv1939/-	(cc=0.4849)	info on Rv1939/-
Rv1250/-	(cc=0.4655)	info on Rv1250/-
Rv2624c/-	(cc=0.4581)	info on Rv2624c/-
Rv1267c/embR	(cc=0.4539)	info on Rv1267c/embR

Correlation of Rv3069/- with Rv2010/vapC15

Normalized LFCs for Rv3069/-:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv3069/-	Rv2010/vapC15
Fe_supp_jason_reseq	-1.525	-0.161
low_pH_jason_reseq	1.111	0.214
NO_jason_reseq	1.297	0.0
B6_jason_reseq	0.619	-0.023
MHCII_jason_reseq	1.495	-0.247
Isoniazid02	-1.008	-1.924
Rifampicin4	-0.252	-1.809
Ethambutol3	-0.755	-1.902
Meropenem3	-0.182	-1.904
Vancomycin16	-0.621	-1.531
Rv2680_day32	-0.51	-0.969
H37Rv_KO_MarP	0.192	0.213
hypoxia_3wks	-0.072	-0.339
hypoxia_6wks	0.177	-0.958
glycerol	0.285	-0.034
cholesterol	-0.383	-0.149
AJ	0.419	0.239
Bibs02	0.0	-0.419
Bibs02c	0.13	-0.208
BL6	-0.323	-0.176
BL6a	-0.181	-1.136
BXD01	-0.851	-1.314
BXD010	-1.639	-1.555
BXD011	-0.678	-1.343
BXD03	-1.268	-1.295
BXD04	-1.815	-1.412
BXD05	-1.323	-1.577
BXD06	-0.494	-1.497
BXD07	-0.737	-0.571
BXD08	-1.247	-0.81
BXD09	-1.018	-0.615
CAST	0.073	-0.332
CCcont	-1.539	-2.214
DS01	-0.01	-0.378
DS02	0.2	-0.6
DS04	0.129	-0.156
DS0c	0.416	-1.062
GP01	1.214	-1.117
GP02	1.65	-0.133
GP0c	0.68	0.056
NOD	-0.76	0.104
NZO	0.036	-0.998
PWK	0.063	-1.091
H37Rv_KO_CtpC	-0.248	-1.514
H37Rv_KO_CtpD	-2.98	-0.918
H37Rv_KO_Rv1272	-0.39	-0.198
H37Rv_KO_SugABC	-1.097	0.517
H37Rv_KO_MbtN	-1.025	-2.206
Trans05	0.152	0.177
macrophage_unactivated	1.297	0.145
IL1	1.536	0.899
Rapamycin	0.865	0.813
Tcell	1.87	1.342
GMCSF	0.449	-0.19
IFNab	0.729	0.559
IFNg	0.171	0.959
IFNg_GMCSF1	2.262	0.742
Rv1432_day32	0.249	0.707
Rv1565c_day32	1.652	1.54
secA2_input	-1.565	1.39
delta_Rv3594	-0.968	-0.881
delta_Rv3717	-0.396	-0.839
delta_Rv3811	0.079	0.342
delta_Rv0954	0.738	0.037
PonA1	0.299	-0.446
EccD1_KO	1.799	1.536
EspI_KO	1.517	1.138
PE35_KO	2.252	-0.306
PPE68_KO	1.987	0.422
glycerol2	0.025	-0.331
lignocerate	-0.565	-0.887
oleate	0.496	0.641
phosphatidylcholine	0.013	-0.265
acetate	-1.275	-1.012
glucAc	-1.298	-1.882
Rv0950ko	-0.274	-0.184
Rv1096ko	0.872	-0.856
Rv3684ko	-1.618	-0.999
delta_otsA_trehalose	-0.087	0.004