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 Rv2134c/-:

update plot	correlation	link to info on gene
Rv0642c/mmaA4	(cc=0.6957)	info on Rv0642c/mmaA4
Rv2569c/-	(cc=0.6723)	info on Rv2569c/-
Rv2131c/cysQ	(cc=0.6678)	info on Rv2131c/cysQ
Rv0502/-	(cc=0.6622)	info on Rv0502/-
Rv0928/pstS3	(cc=0.6403)	info on Rv0928/pstS3
Rv0930/pstA1	(cc=0.6348)	info on Rv0930/pstA1
Rv0818/-	(cc=0.6344)	info on Rv0818/-
Rv0211/pckA	(cc=0.6324)	info on Rv0211/pckA
Rv2567/-	(cc=0.6302)	info on Rv2567/-
Rv2735c/-	(cc=0.625)	info on Rv2735c/-

Correlation of Rv2134c/- with Rv2567/-

Normalized LFCs for Rv2134c/-:
(description and provenance of datasets)

	Rv2134c/-	Rv2567/-
Fe_supp_jason_reseq	0.297	-0.955
low_pH_jason_reseq	1.402	3.403
NO_jason_reseq	-0.142	-0.559
B6_jason_reseq	-0.671	0.085
MHCII_jason_reseq	-1.365	-1.254
Isoniazid02	1.529	2.357
Rifampicin4	0.07	0.785
Ethambutol3	-0.032	-0.066
Meropenem3	-0.25	0.701
Vancomycin16	-0.361	0.589
Rv2680_day32	0.576	1.485
H37Rv_KO_MarP	0.164	-1.226
hypoxia_3wks	0.79	0.885
hypoxia_6wks	0.449	1.539
glycerol	1.514	1.327
cholesterol	0.072	-0.276
AJ	2.664	0.459
Bibs02	0.135	0.294
Bibs02c	0.053	0.174
BL6	1.098	0.933
BL6a	1.845	0.781
BXD01	1.944	1.622
BXD010	0.894	0.956
BXD011	1.787	1.818
BXD03	2.13	1.341
BXD04	2.684	2.213
BXD05	1.601	1.114
BXD06	1.723	2.234
BXD07	1.997	0.809
BXD08	1.765	1.448
BXD09	1.672	0.89
CAST	-0.06	0.455
CCcont	2.265	1.82
DS01	-0.123	0.291
DS02	-0.635	0.792
DS04	0.738	1.134
DS0c	0.707	0.506
GP01	1.676	0.855
GP02	0.119	0.797
GP0c	1.772	1.102
NOD	2.185	0.277
NZO	2.438	0.533
PWK	0.526	1.242
H37Rv_KO_CtpC	0.646	0.0
H37Rv_KO_CtpD	2.104	0.608
H37Rv_KO_Rv1272	0.767	0.469
H37Rv_KO_SugABC	0.539	0.231
H37Rv_KO_MbtN	2.6	2.453
Trans05	2.043	1.132
macrophage_unactivated	0.297	0.0
IL1	-1.089	0.0
Rapamycin	-0.417	-0.285
Tcell	0.052	0.42
GMCSF	-0.129	0.0
IFNab	1.376	0.39
IFNg	-0.818	-0.951
IFNg_GMCSF1	-0.657	-1.7
Rv1432_day32	-0.442	0.888
Rv1565c_day32	-0.518	-1.2
secA2_input	-1.199	-1.42
delta_Rv3594	1.104	-0.073
delta_Rv3717	0.985	0.863
delta_Rv3811	1.38	-0.354
delta_Rv0954	1.147	-1.507
PonA1	-1.337	-0.34
EccD1_KO	-0.276	-0.48
EspI_KO	-0.653	-0.596
PE35_KO	-0.586	-0.516
PPE68_KO	-0.921	-0.275
glycerol2	-0.214	-1.611
lignocerate	-0.725	-0.267
oleate	-1.345	-0.56
phosphatidylcholine	-1.246	-0.966
acetate	0.118	0.961
glucAc	-0.055	0.693
Rv0950ko	0.0	0.166
Rv1096ko	-1.71	0.166
Rv3684ko	-2.122	-0.488
delta_otsA_trehalose	-0.164	1.209