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 Rv3334/-:

update plot	correlation	link to info on gene
Rv1897c/-	(cc=0.4902)	info on Rv1897c/-
Rv0557/mgtA	(cc=0.4376)	info on Rv0557/mgtA
Rv1055/-	(cc=0.4336)	info on Rv1055/-
Rv1687c/-	(cc=0.4229)	info on Rv1687c/-
Rv3017c/esxQ	(cc=0.4205)	info on Rv3017c/esxQ
Rv1936/-	(cc=0.4147)	info on Rv1936/-
Rv0377/-	(cc=0.4069)	info on Rv0377/-
Rv2290/lppO	(cc=0.3888)	info on Rv2290/lppO
Rv2811/-	(cc=0.3828)	info on Rv2811/-
Rv3069/-	(cc=0.3823)	info on Rv3069/-

Correlation of Rv3334/- with Rv3017c/esxQ

Normalized LFCs for Rv3334/-:
(description and provenance of datasets)

	Rv3334/-	Rv3017c/esxQ
Fe_supp_jason_reseq	0.346	-0.273
low_pH_jason_reseq	0.535	-0.157
NO_jason_reseq	0.202	0.465
B6_jason_reseq	0.019	-0.203
MHCII_jason_reseq	0.075	0.223
Isoniazid02	0.374	1.099
Rifampicin4	0.027	0.108
Ethambutol3	-0.161	1.217
Meropenem3	0.134	0.268
Vancomycin16	0.345	0.114
Rv2680_day32	-2.671	-0.576
H37Rv_KO_MarP	1.031	0.785
hypoxia_3wks	0.762	0.331
hypoxia_6wks	-0.443	0.01
glycerol	-1.295	0.262
cholesterol	-0.753	0.122
AJ	0.254	-0.128
Bibs02	0.785	0.801
Bibs02c	-0.809	0.54
BL6	-0.059	-0.617
BL6a	-0.057	0.631
BXD01	0.115	-0.138
BXD010	0.309	-0.33
BXD011	0.325	0.291
BXD03	0.038	-0.349
BXD04	-0.014	0.272
BXD05	0.112	0.396
BXD06	-0.272	-0.305
BXD07	0.309	-0.232
BXD08	-0.224	0.318
BXD09	-0.19	0.009
CAST	0.556	0.242
CCcont	-0.736	-0.915
DS01	0.548	0.84
DS02	-0.551	0.485
DS04	0.572	-0.121
DS0c	0.074	0.454
GP01	0.098	-0.514
GP02	0.074	0.913
GP0c	-1.215	-0.291
NOD	1.902	1.198
NZO	0.25	0.117
PWK	0.894	0.045
H37Rv_KO_CtpC	-0.712	1.144
H37Rv_KO_CtpD	-1.507	-0.248
H37Rv_KO_Rv1272	0.268	0.636
H37Rv_KO_SugABC	-0.624	-0.826
H37Rv_KO_MbtN	-0.181	1.13
Trans05	0.516	1.318
macrophage_unactivated	-0.107	0.398
IL1	-0.074	-0.033
Rapamycin	0.681	0.7
Tcell	0.212	-0.375
GMCSF	0.771	-0.098
IFNab	0.29	-0.399
IFNg	0.575	-0.657
IFNg_GMCSF1	1.625	0.773
Rv1432_day32	-1.454	0.027
Rv1565c_day32	1.042	0.242
secA2_input	-1.586	-0.167
delta_Rv3594	0.514	-0.076
delta_Rv3717	0.49	-0.242
delta_Rv3811	0.416	-0.15
delta_Rv0954	0.525	-1.138
PonA1	0.187	-1.031
EccD1_KO	1.266	-0.171
EspI_KO	1.169	1.66
PE35_KO	0.391	0.82
PPE68_KO	0.333	0.774
glycerol2	-0.307	-0.422
lignocerate	-1.102	-0.58
oleate	0.347	-0.058
phosphatidylcholine	1.318	-0.057
acetate	-1.77	-1.647
glucAc	-2.307	-1.625
Rv0950ko	0.238	0.473
Rv1096ko	0.317	-0.44
Rv3684ko	0.147	-0.609
delta_otsA_trehalose	1.149	0.555