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 Rv1418/lprH:

update plot	correlation	link to info on gene
Rv3008/-	(cc=0.56)	info on Rv3008/-
Rv0588/yrbE2B	(cc=0.4638)	info on Rv0588/yrbE2B
Rv0052/-	(cc=0.4475)	info on Rv0052/-
Rv3521/-	(cc=0.4389)	info on Rv3521/-
Rv0781/ptrBa	(cc=0.4335)	info on Rv0781/ptrBa
Rv0500/proC	(cc=0.429)	info on Rv0500/proC
Rv3125c/PPE49	(cc=0.426)	info on Rv3125c/PPE49
Rv3796/-	(cc=0.4236)	info on Rv3796/-
Rv1050/-	(cc=0.4206)	info on Rv1050/-
Rv0828c/-	(cc=0.4177)	info on Rv0828c/-

Correlation of Rv1418/lprH with Rv3521/-

Normalized LFCs for Rv1418/lprH:
(description and provenance of datasets)

	Rv1418/lprH	Rv3521/-
Fe_supp_jason_reseq	-0.534	-0.287
low_pH_jason_reseq	-0.478	-0.927
NO_jason_reseq	-0.284	0.339
B6_jason_reseq	0.122	-0.667
MHCII_jason_reseq	0.04	-0.091
Isoniazid02	-0.451	-0.22
Rifampicin4	0.883	0.309
Ethambutol3	-0.659	0.666
Meropenem3	-0.52	-0.187
Vancomycin16	0.387	1.059
Rv2680_day32	-0.721	-0.058
H37Rv_KO_MarP	0.84	0.524
hypoxia_3wks	-0.403	0.231
hypoxia_6wks	-0.161	-0.025
glycerol	-0.173	0.159
cholesterol	-0.01	-0.219
AJ	0.134	0.578
Bibs02	-0.156	0.241
Bibs02c	-0.247	-0.147
BL6	0.654	0.325
BL6a	0.565	0.044
BXD01	0.552	0.424
BXD010	0.581	0.455
BXD011	0.602	0.736
BXD03	0.566	0.672
BXD04	0.524	0.272
BXD05	0.86	0.415
BXD06	0.752	0.342
BXD07	1.155	0.232
BXD08	0.666	1.005
BXD09	0.909	0.163
CAST	0.352	0.142
CCcont	0.066	-0.257
DS01	0.315	0.156
DS02	0.682	0.566
DS04	0.382	0.804
DS0c	0.273	0.64
GP01	-0.24	-0.032
GP02	-0.603	0.832
GP0c	-0.187	0.296
NOD	0.225	0.26
NZO	0.488	0.623
PWK	0.56	0.179
H37Rv_KO_CtpC	-0.291	0.155
H37Rv_KO_CtpD	1.111	0.765
H37Rv_KO_Rv1272	-0.01	1.102
H37Rv_KO_SugABC	0.288	0.614
H37Rv_KO_MbtN	-0.29	-0.252
Trans05	0.249	0.759
macrophage_unactivated	0.669	-0.331
IL1	0.442	0.561
Rapamycin	0.651	0.684
Tcell	-0.648	0.283
GMCSF	0.018	0.354
IFNab	-0.109	0.166
IFNg	0.329	0.045
IFNg_GMCSF1	0.666	0.421
Rv1432_day32	1.027	-0.005
Rv1565c_day32	0.771	0.172
secA2_input	-0.559	-0.041
delta_Rv3594	-0.069	0.194
delta_Rv3717	0.274	0.167
delta_Rv3811	0.228	0.106
delta_Rv0954	0.093	0.513
PonA1	1.154	0.16
EccD1_KO	0.194	0.234
EspI_KO	-0.106	0.054
PE35_KO	-1.129	-0.146
PPE68_KO	-0.534	-0.048
glycerol2	0.185	-0.149
lignocerate	-0.279	-0.223
oleate	0.526	0.103
phosphatidylcholine	0.343	0.207
acetate	-0.416	-0.69
glucAc	-0.49	-0.429
Rv0950ko	0.434	0.32
Rv1096ko	0.863	0.365
Rv3684ko	0.347	0.763
delta_otsA_trehalose	-1.113	-0.673