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 Rv0515/-

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

	Rv0213c/-	Rv0515/-
Fe_supp_jason_reseq	-0.581	0.237
low_pH_jason_reseq	-0.489	-1.26
NO_jason_reseq	0.155	0.228
B6_jason_reseq	-0.017	-0.109
MHCII_jason_reseq	1.053	0.314
Isoniazid02	-0.77	0.141
Rifampicin4	0.217	0.788
Ethambutol3	-0.621	0.118
Meropenem3	-0.046	0.763
Vancomycin16	-0.05	0.257
Rv2680_day32	0.122	-0.13
H37Rv_KO_MarP	0.478	-0.04
hypoxia_3wks	0.267	0.211
hypoxia_6wks	0.0	-0.223
glycerol	0.171	-0.079
cholesterol	0.236	0.076
AJ	0.684	0.598
Bibs02	0.223	0.633
Bibs02c	1.075	1.128
BL6	0.283	-0.053
BL6a	0.653	0.643
BXD01	0.331	0.086
BXD010	0.277	0.351
BXD011	0.264	-0.225
BXD03	0.085	0.355
BXD04	0.036	0.502
BXD05	0.039	0.253
BXD06	0.237	-0.04
BXD07	0.219	0.11
BXD08	0.35	0.184
BXD09	0.0	0.037
CAST	1.081	0.677
CCcont	0.38	-0.109
DS01	0.676	0.977
DS02	0.632	0.531
DS04	0.52	0.651
DS0c	0.751	0.503
GP01	-0.851	0.358
GP02	0.219	0.564
GP0c	-0.326	0.023
NOD	1.539	0.61
NZO	0.461	0.669
PWK	0.672	0.827
H37Rv_KO_CtpC	-0.048	0.934
H37Rv_KO_CtpD	0.637	0.69
H37Rv_KO_Rv1272	0.057	0.317
H37Rv_KO_SugABC	0.964	0.466
H37Rv_KO_MbtN	-0.529	0.597
Trans05	0.543	0.393
macrophage_unactivated	-0.287	-0.609
IL1	-0.792	-0.884
Rapamycin	0.0	-0.562
Tcell	0.094	-1.18
GMCSF	-0.705	-0.333
IFNab	-0.06	-1.004
IFNg	-0.134	-0.19
IFNg_GMCSF1	-0.031	-0.575
Rv1432_day32	0.442	0.274
Rv1565c_day32	0.239	-0.234
secA2_input	0.045	0.013
delta_Rv3594	-0.48	-0.768
delta_Rv3717	-0.395	-0.574
delta_Rv3811	-0.287	-0.672
delta_Rv0954	-0.031	-0.638
PonA1	-0.083	-0.517
EccD1_KO	0.247	0.388
EspI_KO	-0.399	0.248
PE35_KO	-0.318	0.335
PPE68_KO	-0.182	0.083
glycerol2	0.248	0.249
lignocerate	0.192	0.234
oleate	0.189	-0.135
phosphatidylcholine	0.186	0.111
acetate	-0.193	0.165
glucAc	-0.32	0.338
Rv0950ko	0.419	0.452
Rv1096ko	0.178	0.265
Rv3684ko	0.655	0.373
delta_otsA_trehalose	-0.306	0.594