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 Rv0213c/-:

update plot	correlation	link to info on gene
Rv3812/PE_PGRS62	(cc=0.5641)	info on Rv3812/PE_PGRS62
Rv3233c/-	(cc=0.494)	info on Rv3233c/-
Rv0755c/PPE12	(cc=0.4929)	info on Rv0755c/PPE12
Rv0515/-	(cc=0.4854)	info on Rv0515/-
Rv3424c/-	(cc=0.4828)	info on Rv3424c/-
Rv1260/-	(cc=0.4703)	info on Rv1260/-
Rv3697c/vapC48	(cc=0.4698)	info on Rv3697c/vapC48
Rv2472/-	(cc=0.4678)	info on Rv2472/-
Rv0186A/mymT	(cc=0.4675)	info on Rv0186A/mymT
Rv0394c/-	(cc=0.461)	info on Rv0394c/-

Correlation of Rv0213c/- with Rv2472/-

Normalized LFCs for Rv0213c/-:
(description and provenance of datasets)

	Rv0213c/-	Rv2472/-
Fe_supp_jason_reseq	-0.581	0.273
low_pH_jason_reseq	-0.489	-0.089
NO_jason_reseq	0.155	1.488
B6_jason_reseq	-0.017	-0.235
MHCII_jason_reseq	1.053	0.931
Isoniazid02	-0.77	-1.668
Rifampicin4	0.217	-1.01
Ethambutol3	-0.621	-0.697
Meropenem3	-0.046	-1.69
Vancomycin16	-0.05	-0.56
Rv2680_day32	0.122	0.382
H37Rv_KO_MarP	0.478	-0.15
hypoxia_3wks	0.267	0.128
hypoxia_6wks	0.0	0.044
glycerol	0.171	0.114
cholesterol	0.236	1.028
AJ	0.684	0.541
Bibs02	0.223	0.576
Bibs02c	1.075	0.846
BL6	0.283	0.116
BL6a	0.653	0.352
BXD01	0.331	0.761
BXD010	0.277	0.509
BXD011	0.264	1.007
BXD03	0.085	0.064
BXD04	0.036	-0.404
BXD05	0.039	0.604
BXD06	0.237	0.237
BXD07	0.219	-0.082
BXD08	0.35	-0.507
BXD09	0.0	-0.083
CAST	1.081	0.294
CCcont	0.38	-1.266
DS01	0.676	1.408
DS02	0.632	0.277
DS04	0.52	1.081
DS0c	0.751	1.571
GP01	-0.851	-1.322
GP02	0.219	-0.198
GP0c	-0.326	-0.799
NOD	1.539	-1.051
NZO	0.461	0.0
PWK	0.672	0.632
H37Rv_KO_CtpC	-0.048	0.031
H37Rv_KO_CtpD	0.637	0.256
H37Rv_KO_Rv1272	0.057	-0.129
H37Rv_KO_SugABC	0.964	2.094
H37Rv_KO_MbtN	-0.529	-0.258
Trans05	0.543	0.402
macrophage_unactivated	-0.287	-1.139
IL1	-0.792	-0.833
Rapamycin	0.0	2.087
Tcell	0.094	-0.717
GMCSF	-0.705	-2.226
IFNab	-0.06	-0.532
IFNg	-0.134	-0.628
IFNg_GMCSF1	-0.031	-0.836
Rv1432_day32	0.442	0.258
Rv1565c_day32	0.239	-1.085
secA2_input	0.045	0.466
delta_Rv3594	-0.48	-0.288
delta_Rv3717	-0.395	-0.998
delta_Rv3811	-0.287	-0.071
delta_Rv0954	-0.031	-1.875
PonA1	-0.083	-0.083
EccD1_KO	0.247	0.431
EspI_KO	-0.399	0.676
PE35_KO	-0.318	0.42
PPE68_KO	-0.182	-0.048
glycerol2	0.248	-0.113
lignocerate	0.192	-0.862
oleate	0.189	0.492
phosphatidylcholine	0.186	0.245
acetate	-0.193	-0.761
glucAc	-0.32	-2.642
Rv0950ko	0.419	1.095
Rv1096ko	0.178	-0.609
Rv3684ko	0.655	-0.599
delta_otsA_trehalose	-0.306	-0.335