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 Rv2142c/parE2:

update plot	correlation	link to info on gene
Rv2958c/-	(cc=0.63)	info on Rv2958c/-
Rv1814/erg3	(cc=0.6115)	info on Rv1814/erg3
Rv1523/-	(cc=0.5781)	info on Rv1523/-
Rv2550c/vapB20	(cc=0.543)	info on Rv2550c/vapB20
Rv0755A/-	(cc=0.5426)	info on Rv0755A/-
Rv1071c/echA9	(cc=0.5367)	info on Rv1071c/echA9
Rv3065/mmr	(cc=0.5107)	info on Rv3065/mmr
Rv3691/-	(cc=0.501)	info on Rv3691/-
Rv2768c/PPE43	(cc=0.498)	info on Rv2768c/PPE43
Rv0346c/ansP2	(cc=0.4873)	info on Rv0346c/ansP2

Correlation of Rv2142c/parE2 with Rv2958c/-

Normalized LFCs for Rv2142c/parE2:
(description and provenance of datasets)

	Rv2142c/parE2	Rv2958c/-
Fe_supp_jason_reseq	-1.225	0.218
low_pH_jason_reseq	-0.974	-0.591
NO_jason_reseq	-0.543	-0.412
B6_jason_reseq	-0.423	-0.317
MHCII_jason_reseq	0.684	0.082
Isoniazid02	0.112	0.674
Rifampicin4	0.133	0.103
Ethambutol3	1.125	0.818
Meropenem3	0.327	0.367
Vancomycin16	-0.263	0.257
Rv2680_day32	0.358	0.459
H37Rv_KO_MarP	-0.013	0.464
hypoxia_3wks	-0.052	0.016
hypoxia_6wks	0.38	-0.495
glycerol	-1.513	-1.678
cholesterol	-0.494	-0.524
AJ	0.385	0.212
Bibs02	0.607	0.257
Bibs02c	-0.058	0.382
BL6	-0.252	-0.448
BL6a	-0.122	0.211
BXD01	-0.004	-0.022
BXD010	0.156	0.164
BXD011	-0.238	0.071
BXD03	0.282	-0.041
BXD04	-0.041	0.179
BXD05	0.399	0.198
BXD06	-0.104	-0.162
BXD07	-0.108	-0.105
BXD08	-0.057	0.008
BXD09	-0.228	-0.21
CAST	0.377	0.092
CCcont	-0.42	-0.071
DS01	0.715	0.269
DS02	0.991	0.263
DS04	-0.006	0.548
DS0c	1.009	0.225
GP01	0.088	0.408
GP02	0.005	0.959
GP0c	-0.423	-0.35
NOD	0.519	0.937
NZO	0.105	0.475
PWK	0.823	0.485
H37Rv_KO_CtpC	0.172	0.377
H37Rv_KO_CtpD	-0.326	0.694
H37Rv_KO_Rv1272	0.688	0.96
H37Rv_KO_SugABC	0.245	0.495
H37Rv_KO_MbtN	0.158	0.425
Trans05	0.698	1.058
macrophage_unactivated	0.234	0.136
IL1	-0.955	-0.744
Rapamycin	-0.147	-0.276
Tcell	-0.094	-0.306
GMCSF	-0.285	-0.177
IFNab	-0.311	-0.414
IFNg	-0.543	-0.179
IFNg_GMCSF1	-0.182	0.277
Rv1432_day32	0.521	0.365
Rv1565c_day32	-0.262	0.303
secA2_input	-0.26	-0.524
delta_Rv3594	0.477	0.366
delta_Rv3717	0.437	-0.198
delta_Rv3811	0.202	0.26
delta_Rv0954	0.863	-0.059
PonA1	0.212	-0.108
EccD1_KO	0.26	0.28
EspI_KO	0.06	0.342
PE35_KO	-0.257	0.586
PPE68_KO	-0.013	0.394
glycerol2	0.685	0.509
lignocerate	0.85	0.6
oleate	1.187	0.509
phosphatidylcholine	1.181	0.71
acetate	0.407	0.166
glucAc	-0.012	0.194
Rv0950ko	-0.093	0.066
Rv1096ko	-0.386	-0.682
Rv3684ko	-0.488	-0.465
delta_otsA_trehalose	-0.109	0.014