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 Rv0066c/icd2:

update plot	correlation	link to info on gene
Rv3754/tyrA	(cc=0.6527)	info on Rv3754/tyrA
Rv0211/pckA	(cc=0.584)	info on Rv0211/pckA
Rv1610/-	(cc=0.5691)	info on Rv1610/-
Rv2524c/fas	(cc=0.569)	info on Rv2524c/fas
Rv1543/-	(cc=0.551)	info on Rv1543/-
Rv1457c/-	(cc=0.5495)	info on Rv1457c/-
Rv2202c/adoK	(cc=0.5306)	info on Rv2202c/adoK
Rv1120c/-	(cc=0.5241)	info on Rv1120c/-
Rv1872c/lldD2	(cc=0.5169)	info on Rv1872c/lldD2
Rv3410c/guaB3	(cc=0.5025)	info on Rv3410c/guaB3

Correlation of Rv0066c/icd2 with Rv1543/-

Normalized LFCs for Rv0066c/icd2:
(description and provenance of datasets)

	Rv0066c/icd2	Rv1543/-
Fe_supp_jason_reseq	0.415	1.138
low_pH_jason_reseq	0.0	2.111
NO_jason_reseq	0.0	-0.121
B6_jason_reseq	0.0	-0.943
MHCII_jason_reseq	0.0	-0.627
Isoniazid02	1.752	2.127
Rifampicin4	0.325	0.374
Ethambutol3	2.251	2.931
Meropenem3	2.259	3.136
Vancomycin16	0.162	0.634
Rv2680_day32	0.0	3.129
H37Rv_KO_MarP	0.957	-0.109
hypoxia_3wks	0.0	-0.12
hypoxia_6wks	-0.288	3.236
glycerol	0.0	0.762
cholesterol	0.0	0.798
AJ	0.0	-0.845
Bibs02	0.0	1.71
Bibs02c	0.0	1.782
BL6	0.0	0.81
BL6a	0.198	1.106
BXD01	0.0	1.074
BXD010	0.0	1.906
BXD011	0.782	0.513
BXD03	0.0	1.508
BXD04	0.0	0.903
BXD05	0.256	0.966
BXD06	0.0	2.239
BXD07	0.0	0.812
BXD08	0.0	-0.58
BXD09	0.0	2.66
CAST	0.0	-0.145
CCcont	0.525	1.196
DS01	0.0	1.319
DS02	0.0	1.957
DS04	0.194	2.079
DS0c	0.0	0.929
GP01	0.0	4.132
GP02	0.0	3.411
GP0c	0.13	3.483
NOD	0.0	0.185
NZO	0.0	2.111
PWK	0.0	1.583
H37Rv_KO_CtpC	0.162	2.066
H37Rv_KO_CtpD	0.127	1.583
H37Rv_KO_Rv1272	0.0	0.459
H37Rv_KO_SugABC	0.42	0.891
H37Rv_KO_MbtN	1.147	4.254
Trans05	0.0	0.785
macrophage_unactivated	-1.411	-2.121
IL1	-1.326	-4.102
Rapamycin	-1.372	-3.274
Tcell	-0.671	1.026
GMCSF	-1.545	-3.195
IFNab	0.0	2.796
IFNg	-1.563	-3.547
IFNg_GMCSF1	-1.838	-3.497
Rv1432_day32	0.0	5.188
Rv1565c_day32	0.0	-0.87
secA2_input	2.453	-0.401
delta_Rv3594	0.0	0.226
delta_Rv3717	1.067	3.118
delta_Rv3811	0.0	0.44
delta_Rv0954	0.627	-1.572
PonA1	0.0	-1.829
EccD1_KO	-0.635	-2.819
EspI_KO	-0.265	-2.444
PE35_KO	-0.271	-2.202
PPE68_KO	0.278	-2.16
glycerol2	0.193	-0.022
lignocerate	0.0	-0.414
oleate	0.0	0.951
phosphatidylcholine	0.0	0.296
acetate	0.229	-0.705
glucAc	0.0	-0.316
Rv0950ko	-1.294	-1.396
Rv1096ko	-1.641	-1.948
Rv3684ko	-1.985	-1.867
delta_otsA_trehalose	0.468	1.088