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 Rv2491/-:

update plot	correlation	link to info on gene
Rv3110/moaB1	(cc=0.5125)	info on Rv3110/moaB1
Rv1073/-	(cc=0.4958)	info on Rv1073/-
Rv2396/PE_PGRS41	(cc=0.4604)	info on Rv2396/PE_PGRS41
Rv1498c/-	(cc=0.4582)	info on Rv1498c/-
Rv1923/lipD	(cc=0.4526)	info on Rv1923/lipD
Rv1647/-	(cc=0.4475)	info on Rv1647/-
Rv3217c/-	(cc=0.4425)	info on Rv3217c/-
Rv1470/trxA	(cc=0.4353)	info on Rv1470/trxA
Rv3643/-	(cc=0.4321)	info on Rv3643/-
Rv3109/moaA1	(cc=0.431)	info on Rv3109/moaA1

Correlation of Rv2491/- with Rv1498c/-

Normalized LFCs for Rv2491/-:
(description and provenance of datasets)

	Rv2491/-	Rv1498c/-
Fe_supp_jason_reseq	2.339	1.557
low_pH_jason_reseq	-0.358	0.499
NO_jason_reseq	0.711	0.339
B6_jason_reseq	-0.443	-0.235
MHCII_jason_reseq	-0.05	-0.081
Isoniazid02	-1.436	-1.26
Rifampicin4	0.173	0.23
Ethambutol3	-1.584	-1.16
Meropenem3	-1.064	-1.318
Vancomycin16	-0.804	-0.806
Rv2680_day32	0.171	0.016
H37Rv_KO_MarP	-0.635	-0.631
hypoxia_3wks	0.478	0.443
hypoxia_6wks	0.994	0.092
glycerol	-2.108	-0.064
cholesterol	-0.827	0.441
AJ	0.242	0.402
Bibs02	0.6	0.525
Bibs02c	-0.18	-0.189
BL6	-0.266	0.969
BL6a	0.441	0.65
BXD01	-0.683	0.548
BXD010	0.655	1.26
BXD011	-0.229	1.351
BXD03	0.036	0.869
BXD04	-0.896	0.713
BXD05	-1.051	1.417
BXD06	0.297	0.962
BXD07	-0.16	0.97
BXD08	-0.527	0.654
BXD09	-0.802	0.855
CAST	-0.34	-0.35
CCcont	-0.592	0.82
DS01	-1.348	0.517
DS02	-0.537	-0.391
DS04	-1.107	0.817
DS0c	-1.138	0.434
GP01	1.444	0.704
GP02	-0.235	0.51
GP0c	1.012	0.225
NOD	0.0	1.538
NZO	0.0	0.548
PWK	0.602	0.644
H37Rv_KO_CtpC	2.331	1.414
H37Rv_KO_CtpD	1.227	0.01
H37Rv_KO_Rv1272	1.059	0.942
H37Rv_KO_SugABC	1.033	1.369
H37Rv_KO_MbtN	1.734	0.905
Trans05	1.71	1.564
macrophage_unactivated	-1.222	0.404
IL1	-1.492	0.08
Rapamycin	-0.555	0.015
Tcell	-0.912	0.384
GMCSF	-0.478	-0.071
IFNab	-1.17	0.082
IFNg	0.0	0.633
IFNg_GMCSF1	0.0	0.54
Rv1432_day32	-1.555	0.282
Rv1565c_day32	-0.147	0.646
secA2_input	0.312	-0.233
delta_Rv3594	-0.335	-0.205
delta_Rv3717	-0.565	-0.238
delta_Rv3811	-0.587	-0.691
delta_Rv0954	-0.345	-0.702
PonA1	-0.652	-0.268
EccD1_KO	-0.247	0.865
EspI_KO	0.205	0.85
PE35_KO	0.779	1.397
PPE68_KO	0.0	1.667
glycerol2	0.488	0.252
lignocerate	1.442	0.818
oleate	0.634	0.109
phosphatidylcholine	1.104	0.374
acetate	2.326	0.332
glucAc	1.683	0.76
Rv0950ko	-1.269	0.241
Rv1096ko	-2.126	-0.908
Rv3684ko	0.062	-0.301
delta_otsA_trehalose	-0.241	-1.361