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 Rv1172c/PE12:

update plot	correlation	link to info on gene
Rv1833c/-	(cc=0.503)	info on Rv1833c/-
Rv3729/-	(cc=0.4509)	info on Rv3729/-
Rv0521/-	(cc=0.448)	info on Rv0521/-
Rv3315c/cdd	(cc=0.446)	info on Rv3315c/cdd
Rv1722/-	(cc=0.445)	info on Rv1722/-
Rv0325/-	(cc=0.4331)	info on Rv0325/-
Rv0620/galK	(cc=0.4312)	info on Rv0620/galK
Rv0210/-	(cc=0.4299)	info on Rv0210/-
Rv1907c/-	(cc=0.4254)	info on Rv1907c/-
Rv0687/-	(cc=0.4249)	info on Rv0687/-

Correlation of Rv1172c/PE12 with Rv1833c/-

Normalized LFCs for Rv1172c/PE12:
(description and provenance of datasets)

	Rv1172c/PE12	Rv1833c/-
Fe_supp_jason_reseq	-1.135	-0.456
low_pH_jason_reseq	-0.873	-0.502
NO_jason_reseq	-0.323	0.071
B6_jason_reseq	0.023	-0.689
MHCII_jason_reseq	0.309	-0.529
Isoniazid02	1.705	1.359
Rifampicin4	-0.669	0.801
Ethambutol3	1.79	2.69
Meropenem3	-0.187	1.206
Vancomycin16	0.374	0.464
Rv2680_day32	0.853	-0.806
H37Rv_KO_MarP	0.27	-0.291
hypoxia_3wks	-0.187	-0.877
hypoxia_6wks	-0.727	0.221
glycerol	0.544	-0.408
cholesterol	0.179	0.541
AJ	1.003	-1.303
Bibs02	-0.032	-0.54
Bibs02c	-0.611	-0.279
BL6	0.212	-0.346
BL6a	-0.38	-0.509
BXD01	0.747	-0.299
BXD010	-0.749	-0.329
BXD011	-0.069	-0.038
BXD03	0.024	-1.04
BXD04	-0.885	-0.648
BXD05	-0.245	-0.398
BXD06	-0.161	0.226
BXD07	-0.404	-0.127
BXD08	-0.036	-0.446
BXD09	-0.184	-0.457
CAST	-0.062	0.776
CCcont	0.265	-0.427
DS01	0.101	0.2
DS02	0.148	0.369
DS04	0.083	-0.242
DS0c	0.614	-0.308
GP01	-0.3	-0.998
GP02	-0.462	0.435
GP0c	0.211	0.236
NOD	2.263	1.29
NZO	0.217	-0.532
PWK	0.051	-0.396
H37Rv_KO_CtpC	0.794	-0.344
H37Rv_KO_CtpD	0.801	0.292
H37Rv_KO_Rv1272	0.073	0.139
H37Rv_KO_SugABC	-0.726	-0.732
H37Rv_KO_MbtN	0.559	1.985
Trans05	0.011	-0.241
macrophage_unactivated	0.047	-0.862
IL1	-1.216	-1.255
Rapamycin	-1.132	-0.706
Tcell	-0.205	-1.03
GMCSF	0.0	-0.43
IFNab	-0.71	-0.868
IFNg	-0.214	-1.486
IFNg_GMCSF1	1.04	-0.386
Rv1432_day32	0.326	-0.153
Rv1565c_day32	0.278	0.13
secA2_input	-0.189	-1.086
delta_Rv3594	0.996	0.716
delta_Rv3717	0.559	0.443
delta_Rv3811	1.398	0.915
delta_Rv0954	0.827	0.756
PonA1	1.275	1.118
EccD1_KO	0.171	0.039
EspI_KO	-0.727	-0.533
PE35_KO	0.032	-0.344
PPE68_KO	-0.278	0.31
glycerol2	0.296	0.224
lignocerate	0.712	1.335
oleate	0.086	-0.123
phosphatidylcholine	0.563	0.668
acetate	0.48	2.091
glucAc	0.681	1.638
Rv0950ko	0.422	0.259
Rv1096ko	-0.296	0.383
Rv3684ko	-0.586	0.996
delta_otsA_trehalose	0.536	0.44