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 Rv1897c/-

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

	Rv3334/-	Rv1897c/-
Fe_supp_jason_reseq	0.346	-1.2
low_pH_jason_reseq	0.535	-0.684
NO_jason_reseq	0.202	0.63
B6_jason_reseq	0.019	-1.711
MHCII_jason_reseq	0.075	-1.238
Isoniazid02	0.374	-0.422
Rifampicin4	0.027	0.942
Ethambutol3	-0.161	0.193
Meropenem3	0.134	0.97
Vancomycin16	0.345	0.639
Rv2680_day32	-2.671	-0.262
H37Rv_KO_MarP	1.031	1.054
hypoxia_3wks	0.762	0.69
hypoxia_6wks	-0.443	-0.267
glycerol	-1.295	-1.902
cholesterol	-0.753	-0.343
AJ	0.254	0.8
Bibs02	0.785	0.07
Bibs02c	-0.809	-0.953
BL6	-0.059	-2.352
BL6a	-0.057	-0.319
BXD01	0.115	-0.516
BXD010	0.309	-0.409
BXD011	0.325	-0.798
BXD03	0.038	-0.46
BXD04	-0.014	-1.072
BXD05	0.112	-1.167
BXD06	-0.272	-0.278
BXD07	0.309	-0.829
BXD08	-0.224	-0.075
BXD09	-0.19	0.096
CAST	0.556	0.619
CCcont	-0.736	-1.691
DS01	0.548	-0.857
DS02	-0.551	-2.675
DS04	0.572	0.828
DS0c	0.074	-0.646
GP01	0.098	-0.662
GP02	0.074	0.871
GP0c	-1.215	0.079
NOD	1.902	-0.578
NZO	0.25	-0.637
PWK	0.894	0.699
H37Rv_KO_CtpC	-0.712	-0.039
H37Rv_KO_CtpD	-1.507	-1.121
H37Rv_KO_Rv1272	0.268	0.033
H37Rv_KO_SugABC	-0.624	-2.014
H37Rv_KO_MbtN	-0.181	-2.041
Trans05	0.516	-1.11
macrophage_unactivated	-0.107	2.187
IL1	-0.074	0.228
Rapamycin	0.681	0.829
Tcell	0.212	-0.199
GMCSF	0.771	2.693
IFNab	0.29	0.118
IFNg	0.575	-0.82
IFNg_GMCSF1	1.625	1.049
Rv1432_day32	-1.454	-0.454
Rv1565c_day32	1.042	0.703
secA2_input	-1.586	-1.584
delta_Rv3594	0.514	1.262
delta_Rv3717	0.49	0.979
delta_Rv3811	0.416	2.58
delta_Rv0954	0.525	1.11
PonA1	0.187	0.137
EccD1_KO	1.266	2.5
EspI_KO	1.169	1.015
PE35_KO	0.391	0.111
PPE68_KO	0.333	0.182
glycerol2	-0.307	-0.321
lignocerate	-1.102	-1.414
oleate	0.347	0.383
phosphatidylcholine	1.318	-0.392
acetate	-1.77	-1.662
glucAc	-2.307	-3.119
Rv0950ko	0.238	-1.462
Rv1096ko	0.317	-0.226
Rv3684ko	0.147	-1.48
delta_otsA_trehalose	1.149	-0.66