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 Rv3519/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv0990c/-	(cc=0.5039)	info on Rv0990c/-
Rv3069/-	(cc=0.4877)	info on Rv3069/-
Rv2980/-	(cc=0.4589)	info on Rv2980/-
Rv2505c/fadD35	(cc=0.4514)	info on Rv2505c/fadD35
Rv1023/eno	(cc=0.4475)	info on Rv1023/eno
Rv1711/-	(cc=0.4393)	info on Rv1711/-
Rv1138c/-	(cc=0.4387)	info on Rv1138c/-
Rv1939/-	(cc=0.4269)	info on Rv1939/-
Rv2052c/-	(cc=0.4125)	info on Rv2052c/-
Rv3129/-	(cc=0.4061)	info on Rv3129/-

Correlation of Rv3519/- with Rv0990c/-

Normalized LFCs for Rv3519/-:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv3519/-	Rv0990c/-
Fe_supp_jason_reseq	-0.436	-1.389
low_pH_jason_reseq	0.03	0.683
NO_jason_reseq	0.803	-0.499
B6_jason_reseq	0.639	0.178
MHCII_jason_reseq	0.692	0.942
Isoniazid02	-0.342	-0.138
Rifampicin4	0.466	-0.455
Ethambutol3	0.154	0.315
Meropenem3	-0.535	0.359
Vancomycin16	-0.271	-0.066
Rv2680_day32	0.428	-0.444
H37Rv_KO_MarP	-0.502	-0.179
hypoxia_3wks	-0.805	-0.514
hypoxia_6wks	0.816	-0.963
glycerol	0.295	0.19
cholesterol	-0.374	-0.302
AJ	0.074	0.459
Bibs02	-0.073	-0.261
Bibs02c	0.388	-0.605
BL6	-0.12	0.157
BL6a	0.232	0.082
BXD01	-0.449	-0.413
BXD010	-0.299	0.199
BXD011	-0.318	0.476
BXD03	-0.455	-0.204
BXD04	0.159	-0.837
BXD05	-0.857	-0.757
BXD06	0.195	-0.475
BXD07	-0.709	-0.338
BXD08	-0.496	-0.312
BXD09	0.063	-0.472
CAST	-0.576	-0.582
CCcont	-0.718	-0.312
DS01	0.062	0.311
DS02	0.378	0.624
DS04	0.691	0.514
DS0c	0.793	0.679
GP01	0.505	0.16
GP02	0.862	0.23
GP0c	-0.017	0.479
NOD	-1.058	0.225
NZO	-1.27	1.087
PWK	-0.173	0.014
H37Rv_KO_CtpC	-0.392	0.244
H37Rv_KO_CtpD	0.683	0.22
H37Rv_KO_Rv1272	-0.284	-0.271
H37Rv_KO_SugABC	0.038	0.403
H37Rv_KO_MbtN	0.915	0.579
Trans05	-0.009	0.947
macrophage_unactivated	0.148	0.06
IL1	0.833	0.762
Rapamycin	0.583	0.737
Tcell	0.753	-0.714
GMCSF	0.333	-0.293
IFNab	0.278	0.284
IFNg	0.278	0.102
IFNg_GMCSF1	-0.6	-0.06
Rv1432_day32	-0.562	-0.227
Rv1565c_day32	0.441	-0.066
secA2_input	-0.225	-0.285
delta_Rv3594	-0.15	-1.386
delta_Rv3717	-0.802	-1.475
delta_Rv3811	-0.705	-2.195
delta_Rv0954	-0.373	-0.282
PonA1	-0.104	-0.136
EccD1_KO	1.898	1.901
EspI_KO	2.002	2.935
PE35_KO	1.065	0.974
PPE68_KO	0.982	1.312
glycerol2	-0.383	-1.819
lignocerate	-0.258	-0.437
oleate	-0.267	-0.486
phosphatidylcholine	-0.231	-0.916
acetate	-0.07	0.06
glucAc	-0.363	-0.716
Rv0950ko	0.38	-0.223
Rv1096ko	1.348	-0.362
Rv3684ko	-0.236	0.452
delta_otsA_trehalose	-0.576	-0.111