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 Rv2077c/-:

update plot	correlation	link to info on gene
Rv1781c/malQ	(cc=0.588)	info on Rv1781c/malQ
Rv3738c/PPE66	(cc=0.537)	info on Rv3738c/PPE66
Rv3688c/-	(cc=0.5317)	info on Rv3688c/-
Rv1103c/mazE3	(cc=0.5285)	info on Rv1103c/mazE3
Rv2390c/-	(cc=0.526)	info on Rv2390c/-
Rv0194/-	(cc=0.5153)	info on Rv0194/-
Rv1045/-	(cc=0.4897)	info on Rv1045/-
Rv2602/vapC41	(cc=0.4682)	info on Rv2602/vapC41
Rv1263/amiB2	(cc=0.4636)	info on Rv1263/amiB2
Rv0572c/-	(cc=0.4501)	info on Rv0572c/-

Correlation of Rv2077c/- with Rv0572c/-

Normalized LFCs for Rv2077c/-:
(description and provenance of datasets)

	Rv2077c/-	Rv0572c/-
Fe_supp_jason_reseq	-0.658	-0.704
low_pH_jason_reseq	-0.442	-0.642
NO_jason_reseq	0.249	-0.113
B6_jason_reseq	0.26	-0.323
MHCII_jason_reseq	-0.431	-0.164
Isoniazid02	-0.18	-0.442
Rifampicin4	0.043	0.195
Ethambutol3	-0.505	0.112
Meropenem3	-0.181	-0.071
Vancomycin16	-0.143	0.082
Rv2680_day32	0.272	-0.024
H37Rv_KO_MarP	0.113	-0.349
hypoxia_3wks	0.355	0.02
hypoxia_6wks	0.198	0.52
glycerol	-0.357	0.786
cholesterol	-0.385	0.303
AJ	0.161	-0.501
Bibs02	0.465	1.257
Bibs02c	-0.064	0.668
BL6	0.336	0.552
BL6a	0.116	0.402
BXD01	-0.309	-0.145
BXD010	-0.019	0.242
BXD011	-0.142	0.82
BXD03	-0.295	0.888
BXD04	-0.317	0.015
BXD05	-0.128	0.184
BXD06	-0.031	0.319
BXD07	-0.215	0.434
BXD08	0.13	0.233
BXD09	0.032	0.017
CAST	-0.367	0.047
CCcont	-0.148	0.799
DS01	-0.195	-0.284
DS02	-0.243	-0.08
DS04	0.195	0.055
DS0c	-0.556	-0.036
GP01	0.514	0.362
GP02	0.626	2.156
GP0c	0.205	0.117
NOD	-0.096	0.063
NZO	-0.101	0.032
PWK	0.409	0.047
H37Rv_KO_CtpC	0.304	1.011
H37Rv_KO_CtpD	0.53	0.638
H37Rv_KO_Rv1272	0.412	0.674
H37Rv_KO_SugABC	0.799	0.184
H37Rv_KO_MbtN	0.307	-0.143
Trans05	0.764	0.783
macrophage_unactivated	-0.06	0.338
IL1	0.294	-0.255
Rapamycin	-0.325	-0.071
Tcell	-0.463	-0.046
GMCSF	-0.227	-0.074
IFNab	0.042	-0.348
IFNg	0.345	-0.216
IFNg_GMCSF1	-0.544	-0.27
Rv1432_day32	0.143	-0.229
Rv1565c_day32	0.103	0.662
secA2_input	0.158	0.008
delta_Rv3594	-0.323	-0.184
delta_Rv3717	-0.339	-0.034
delta_Rv3811	-0.03	0.039
delta_Rv0954	0.388	-0.421
PonA1	0.055	-0.517
EccD1_KO	-0.464	-0.056
EspI_KO	-0.268	0.482
PE35_KO	-1.024	-0.23
PPE68_KO	-0.819	-0.237
glycerol2	0.928	0.902
lignocerate	0.906	1.179
oleate	0.808	0.103
phosphatidylcholine	1.206	0.852
acetate	0.527	0.071
glucAc	0.385	0.395
Rv0950ko	0.525	0.063
Rv1096ko	0.036	0.763
Rv3684ko	0.393	0.331
delta_otsA_trehalose	0.628	2.429