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 Rv3069/-

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

	Rv3334/-	Rv3069/-
Fe_supp_jason_reseq	0.346	-1.525
low_pH_jason_reseq	0.535	1.111
NO_jason_reseq	0.202	1.297
B6_jason_reseq	0.019	0.619
MHCII_jason_reseq	0.075	1.495
Isoniazid02	0.374	-1.008
Rifampicin4	0.027	-0.252
Ethambutol3	-0.161	-0.755
Meropenem3	0.134	-0.182
Vancomycin16	0.345	-0.621
Rv2680_day32	-2.671	-0.51
H37Rv_KO_MarP	1.031	0.192
hypoxia_3wks	0.762	-0.072
hypoxia_6wks	-0.443	0.177
glycerol	-1.295	0.285
cholesterol	-0.753	-0.383
AJ	0.254	0.419
Bibs02	0.785	0.0
Bibs02c	-0.809	0.13
BL6	-0.059	-0.323
BL6a	-0.057	-0.181
BXD01	0.115	-0.851
BXD010	0.309	-1.639
BXD011	0.325	-0.678
BXD03	0.038	-1.268
BXD04	-0.014	-1.815
BXD05	0.112	-1.323
BXD06	-0.272	-0.494
BXD07	0.309	-0.737
BXD08	-0.224	-1.247
BXD09	-0.19	-1.018
CAST	0.556	0.073
CCcont	-0.736	-1.539
DS01	0.548	-0.01
DS02	-0.551	0.2
DS04	0.572	0.129
DS0c	0.074	0.416
GP01	0.098	1.214
GP02	0.074	1.65
GP0c	-1.215	0.68
NOD	1.902	-0.76
NZO	0.25	0.036
PWK	0.894	0.063
H37Rv_KO_CtpC	-0.712	-0.248
H37Rv_KO_CtpD	-1.507	-2.98
H37Rv_KO_Rv1272	0.268	-0.39
H37Rv_KO_SugABC	-0.624	-1.097
H37Rv_KO_MbtN	-0.181	-1.025
Trans05	0.516	0.152
macrophage_unactivated	-0.107	1.297
IL1	-0.074	1.536
Rapamycin	0.681	0.865
Tcell	0.212	1.87
GMCSF	0.771	0.449
IFNab	0.29	0.729
IFNg	0.575	0.171
IFNg_GMCSF1	1.625	2.262
Rv1432_day32	-1.454	0.249
Rv1565c_day32	1.042	1.652
secA2_input	-1.586	-1.565
delta_Rv3594	0.514	-0.968
delta_Rv3717	0.49	-0.396
delta_Rv3811	0.416	0.079
delta_Rv0954	0.525	0.738
PonA1	0.187	0.299
EccD1_KO	1.266	1.799
EspI_KO	1.169	1.517
PE35_KO	0.391	2.252
PPE68_KO	0.333	1.987
glycerol2	-0.307	0.025
lignocerate	-1.102	-0.565
oleate	0.347	0.496
phosphatidylcholine	1.318	0.013
acetate	-1.77	-1.275
glucAc	-2.307	-1.298
Rv0950ko	0.238	-0.274
Rv1096ko	0.317	0.872
Rv3684ko	0.147	-1.618
delta_otsA_trehalose	1.149	-0.087