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 Rv3200c/-:

update plot	correlation	link to info on gene
Rv2691/ceoB	(cc=0.7262)	info on Rv2691/ceoB
Rv2694c/-	(cc=0.6311)	info on Rv2694c/-
Rv2692/ceoC	(cc=0.6216)	info on Rv2692/ceoC
Rv2690c/-	(cc=0.5603)	info on Rv2690c/-
Rv2946c/pks1	(cc=0.5456)	info on Rv2946c/pks1
Rv2942/mmpL7	(cc=0.5231)	info on Rv2942/mmpL7
Rv1421/-	(cc=0.515)	info on Rv1421/-
Rv1420/uvrC	(cc=0.5111)	info on Rv1420/uvrC
Rv1364c/-	(cc=0.4844)	info on Rv1364c/-
Rv0019c/fhaB	(cc=0.48)	info on Rv0019c/fhaB

Correlation of Rv3200c/- with Rv2692/ceoC

Normalized LFCs for Rv3200c/-:
(description and provenance of datasets)

	Rv3200c/-	Rv2692/ceoC
Fe_supp_jason_reseq	2.104	1.553
low_pH_jason_reseq	0.811	-1.489
NO_jason_reseq	-3.108	-5.684
B6_jason_reseq	-0.929	0.132
MHCII_jason_reseq	-0.818	0.85
Isoniazid02	0.627	0.383
Rifampicin4	2.226	0.986
Ethambutol3	0.123	-0.773
Meropenem3	-0.144	-0.295
Vancomycin16	2.069	2.175
Rv2680_day32	-1.066	-0.257
H37Rv_KO_MarP	-2.822	-1.046
hypoxia_3wks	0.794	-1.754
hypoxia_6wks	2.998	4.266
glycerol	-0.633	1.502
cholesterol	2.534	2.321
AJ	-0.728	-2.044
Bibs02	0.703	-0.403
Bibs02c	0.505	2.613
BL6	-0.684	1.592
BL6a	0.595	1.2
BXD01	-0.478	0.4
BXD010	-0.543	1.041
BXD011	-0.05	-0.691
BXD03	0.284	1.024
BXD04	-0.048	0.211
BXD05	-0.354	0.874
BXD06	0.05	0.95
BXD07	-0.054	0.918
BXD08	-0.488	1.121
BXD09	-0.769	0.286
CAST	-0.976	-1.355
CCcont	1.552	0.79
DS01	1.665	2.804
DS02	0.717	3.85
DS04	1.903	1.924
DS0c	0.652	1.585
GP01	0.38	1.018
GP02	-0.455	-0.239
GP0c	0.049	0.871
NOD	-1.38	-2.608
NZO	-1.691	-3.329
PWK	-0.158	-3.274
H37Rv_KO_CtpC	0.75	-0.021
H37Rv_KO_CtpD	0.52	-0.141
H37Rv_KO_Rv1272	1.294	0.419
H37Rv_KO_SugABC	1.711	3.035
H37Rv_KO_MbtN	2.884	2.362
Trans05	0.274	2.032
macrophage_unactivated	1.812	0.735
IL1	-0.836	-2.607
Rapamycin	-0.522	-0.927
Tcell	2.463	-0.528
GMCSF	-0.264	-1.067
IFNab	1.735	1.527
IFNg	-0.754	-1.347
IFNg_GMCSF1	-1.141	-1.496
Rv1432_day32	-2.154	-1.464
Rv1565c_day32	2.159	2.099
secA2_input	-3.604	0.598
delta_Rv3594	2.236	1.761
delta_Rv3717	2.162	3.043
delta_Rv3811	2.229	2.333
delta_Rv0954	0.336	0.629
PonA1	0.0	0.482
EccD1_KO	-1.161	0.197
EspI_KO	-0.031	1.686
PE35_KO	0.825	0.968
PPE68_KO	0.176	1.702
glycerol2	0.13	0.193
lignocerate	-0.122	0.0
oleate	0.784	2.731
phosphatidylcholine	-0.289	0.0
acetate	0.155	2.79
glucAc	-0.213	0.957
Rv0950ko	-0.507	-1.218
Rv1096ko	1.936	0.896
Rv3684ko	-0.242	-1.159
delta_otsA_trehalose	-0.346	-0.776