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 Rv1724c/-:

update plot	correlation	link to info on gene
Rv3528c/-	(cc=0.5811)	info on Rv3528c/-
Rv1500/-	(cc=0.5604)	info on Rv1500/-
Rv1753c/PPE24	(cc=0.5376)	info on Rv1753c/PPE24
Rv3840/-	(cc=0.536)	info on Rv3840/-
Rv2735c/-	(cc=0.533)	info on Rv2735c/-
Rv1923/lipD	(cc=0.5269)	info on Rv1923/lipD
Rv3116/moeB2	(cc=0.5126)	info on Rv3116/moeB2
Rv1984c/cfp21	(cc=0.5107)	info on Rv1984c/cfp21
Rv1498c/-	(cc=0.5073)	info on Rv1498c/-
Rv0642c/mmaA4	(cc=0.5002)	info on Rv0642c/mmaA4

Correlation of Rv1724c/- with Rv1923/lipD

Normalized LFCs for Rv1724c/-:
(description and provenance of datasets)

	Rv1724c/-	Rv1923/lipD
Fe_supp_jason_reseq	0.971	0.423
low_pH_jason_reseq	0.069	-0.189
NO_jason_reseq	0.252	-0.137
B6_jason_reseq	0.292	0.493
MHCII_jason_reseq	0.452	0.496
Isoniazid02	-0.189	-1.609
Rifampicin4	-0.282	0.187
Ethambutol3	-0.203	-1.132
Meropenem3	-0.369	0.086
Vancomycin16	-0.276	-0.828
Rv2680_day32	-0.018	-0.194
H37Rv_KO_MarP	0.031	-0.048
hypoxia_3wks	0.199	-0.522
hypoxia_6wks	-0.34	0.117
glycerol	-0.834	-0.095
cholesterol	-0.048	-0.195
AJ	1.045	0.052
Bibs02	0.764	-0.303
Bibs02c	-0.023	-0.073
BL6	0.085	-0.1
BL6a	0.561	0.103
BXD01	0.442	0.068
BXD010	1.103	0.359
BXD011	0.485	0.383
BXD03	0.496	0.179
BXD04	0.38	0.173
BXD05	0.946	0.262
BXD06	0.705	0.145
BXD07	0.709	0.16
BXD08	0.835	-0.496
BXD09	0.682	0.364
CAST	0.464	-0.035
CCcont	0.294	-0.322
DS01	0.455	0.072
DS02	0.408	-0.11
DS04	0.142	-0.523
DS0c	0.058	-0.19
GP01	1.668	1.082
GP02	1.07	1.378
GP0c	0.586	0.559
NOD	0.199	0.431
NZO	0.419	-0.053
PWK	-0.385	-0.213
H37Rv_KO_CtpC	1.1	0.232
H37Rv_KO_CtpD	0.086	0.21
H37Rv_KO_Rv1272	0.923	0.324
H37Rv_KO_SugABC	0.87	0.168
H37Rv_KO_MbtN	0.803	0.737
Trans05	0.69	0.498
macrophage_unactivated	-0.271	-1.086
IL1	-0.089	-0.306
Rapamycin	-0.199	-0.408
Tcell	-0.049	-0.694
GMCSF	0.407	-0.14
IFNab	0.133	-0.206
IFNg	-0.16	-0.54
IFNg_GMCSF1	0.255	-0.198
Rv1432_day32	0.057	0.179
Rv1565c_day32	0.479	-0.128
secA2_input	0.141	-0.28
delta_Rv3594	0.228	-0.151
delta_Rv3717	0.525	0.367
delta_Rv3811	0.128	0.419
delta_Rv0954	0.208	0.088
PonA1	-0.097	-0.27
EccD1_KO	-0.73	0.266
EspI_KO	-0.242	-0.262
PE35_KO	0.219	-0.213
PPE68_KO	0.093	-0.134
glycerol2	0.247	0.35
lignocerate	0.33	0.392
oleate	0.391	0.247
phosphatidylcholine	0.517	0.49
acetate	-0.11	0.156
glucAc	0.779	0.382
Rv0950ko	1.158	-0.021
Rv1096ko	-0.229	0.118
Rv3684ko	0.121	0.023
delta_otsA_trehalose	-1.162	-0.383