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 Rv0141c/-:

update plot	correlation	link to info on gene
Rv3733c/-	(cc=0.4706)	info on Rv3733c/-
Rv2725c/hflX	(cc=0.4694)	info on Rv2725c/hflX
Rv1374c/-	(cc=0.4496)	info on Rv1374c/-
Rv2432c/-	(cc=0.4335)	info on Rv2432c/-
Rv1528c/papA4	(cc=0.4268)	info on Rv1528c/papA4
Rv0213c/-	(cc=0.4268)	info on Rv0213c/-
Rv0402c/mmpL1	(cc=0.418)	info on Rv0402c/mmpL1
Rv0276/-	(cc=0.4136)	info on Rv0276/-
Rv2800/-	(cc=0.4122)	info on Rv2800/-
Rv3714c/-	(cc=0.4036)	info on Rv3714c/-

Correlation of Rv0141c/- with Rv0276/-

Normalized LFCs for Rv0141c/-:
(description and provenance of datasets)

	Rv0141c/-	Rv0276/-
Fe_supp_jason_reseq	-0.764	-0.807
low_pH_jason_reseq	-0.182	-0.855
NO_jason_reseq	-0.181	-0.113
B6_jason_reseq	0.128	0.322
MHCII_jason_reseq	0.178	0.118
Isoniazid02	0.615	0.141
Rifampicin4	-0.412	-0.23
Ethambutol3	0.303	0.238
Meropenem3	0.165	-0.272
Vancomycin16	0.507	0.478
Rv2680_day32	1.774	0.73
H37Rv_KO_MarP	-0.591	0.452
hypoxia_3wks	0.032	-0.12
hypoxia_6wks	-0.733	-0.194
glycerol	-0.644	-0.297
cholesterol	-0.121	0.193
AJ	-0.062	0.277
Bibs02	-0.076	0.335
Bibs02c	0.721	0.108
BL6	0.089	0.3
BL6a	0.307	0.112
BXD01	-0.008	-0.035
BXD010	0.285	-0.135
BXD011	0.241	0.347
BXD03	-0.383	-0.241
BXD04	0.177	0.613
BXD05	-0.235	0.451
BXD06	0.12	-0.164
BXD07	0.247	0.421
BXD08	-0.036	-0.287
BXD09	0.401	0.142
CAST	1.126	0.619
CCcont	-0.41	-0.211
DS01	0.407	0.525
DS02	0.77	0.714
DS04	0.474	0.177
DS0c	1.42	0.187
GP01	-0.651	0.094
GP02	-1.98	-1.435
GP0c	-1.07	-0.51
NOD	2.652	1.435
NZO	0.191	-0.075
PWK	0.874	0.746
H37Rv_KO_CtpC	-0.533	0.067
H37Rv_KO_CtpD	0.239	-0.282
H37Rv_KO_Rv1272	0.127	0.195
H37Rv_KO_SugABC	0.406	-0.128
H37Rv_KO_MbtN	-1.292	-0.898
Trans05	-1.792	0.061
macrophage_unactivated	-0.142	0.139
IL1	-0.053	0.706
Rapamycin	-0.368	-0.258
Tcell	0.28	-0.098
GMCSF	-0.42	-0.201
IFNab	-0.856	0.112
IFNg	0.118	0.174
IFNg_GMCSF1	0.399	0.789
Rv1432_day32	1.065	-0.1
Rv1565c_day32	0.599	-0.046
secA2_input	-0.977	0.928
delta_Rv3594	-0.315	-0.441
delta_Rv3717	-0.467	-0.622
delta_Rv3811	-0.828	-0.669
delta_Rv0954	0.194	0.557
PonA1	-0.643	-0.44
EccD1_KO	-0.595	-0.26
EspI_KO	0.819	-0.385
PE35_KO	0.44	-0.738
PPE68_KO	0.384	-0.618
glycerol2	0.214	0.135
lignocerate	-0.518	0.418
oleate	0.715	0.262
phosphatidylcholine	-0.195	0.28
acetate	-0.673	-0.083
glucAc	-1.034	0.051
Rv0950ko	0.033	1.604
Rv1096ko	-0.452	1.514
Rv3684ko	0.072	1.837
delta_otsA_trehalose	-0.025	1.079