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 Rv2696c/-:

update plot	correlation	link to info on gene
Rv2190c/-	(cc=0.7379)	info on Rv2190c/-
Rv1836c/-	(cc=0.6532)	info on Rv1836c/-
Rv1821/secA2	(cc=0.607)	info on Rv1821/secA2
Rv0019c/fhaB	(cc=0.5833)	info on Rv0019c/fhaB
Rv0385/-	(cc=0.5786)	info on Rv0385/-
Rv1421/-	(cc=0.5704)	info on Rv1421/-
Rv2553c/-	(cc=0.5658)	info on Rv2553c/-
Rv1565c/-	(cc=0.565)	info on Rv1565c/-
Rv3330/dacB1	(cc=0.5628)	info on Rv3330/dacB1
Rv0017c/rodA	(cc=0.556)	info on Rv0017c/rodA

Correlation of Rv2696c/- with Rv3330/dacB1

Normalized LFCs for Rv2696c/-:
(description and provenance of datasets)

	Rv2696c/-	Rv3330/dacB1
Fe_supp_jason_reseq	2.276	-0.104
low_pH_jason_reseq	0.843	-0.55
NO_jason_reseq	-0.294	-0.381
B6_jason_reseq	0.047	-0.431
MHCII_jason_reseq	-0.228	0.622
Isoniazid02	-1.775	-0.125
Rifampicin4	-0.241	-2.364
Ethambutol3	-3.006	0.266
Meropenem3	-2.344	-1.579
Vancomycin16	-0.623	-0.515
Rv2680_day32	-1.481	-0.82
H37Rv_KO_MarP	-5.136	-1.795
hypoxia_3wks	-0.77	0.271
hypoxia_6wks	1.462	-0.509
glycerol	-1.181	0.173
cholesterol	1.678	0.537
AJ	-0.914	-0.343
Bibs02	1.405	0.866
Bibs02c	0.45	0.211
BL6	0.357	0.492
BL6a	1.313	0.032
BXD01	0.664	0.0
BXD010	2.192	-0.201
BXD011	0.65	0.336
BXD03	1.318	0.296
BXD04	1.019	0.262
BXD05	2.54	0.631
BXD06	1.422	0.032
BXD07	1.083	0.482
BXD08	0.923	0.291
BXD09	1.158	0.0
CAST	-2.039	-0.637
CCcont	2.208	0.605
DS01	0.78	0.149
DS02	1.336	-0.49
DS04	1.434	0.136
DS0c	0.0	0.327
GP01	1.734	0.723
GP02	2.198	0.751
GP0c	1.762	0.649
NOD	-0.885	-0.439
NZO	-1.631	-0.116
PWK	-1.878	0.566
H37Rv_KO_CtpC	0.094	0.245
H37Rv_KO_CtpD	0.143	-0.649
H37Rv_KO_Rv1272	0.912	0.515
H37Rv_KO_SugABC	1.137	0.664
H37Rv_KO_MbtN	2.563	0.92
Trans05	1.447	0.268
macrophage_unactivated	0.969	0.505
IL1	0.561	0.199
Rapamycin	0.58	0.635
Tcell	-0.042	0.339
GMCSF	1.267	0.784
IFNab	0.834	0.227
IFNg	0.567	0.778
IFNg_GMCSF1	-0.041	0.952
Rv1432_day32	1.295	0.714
Rv1565c_day32	-1.995	-0.167
secA2_input	-3.311	-0.291
delta_Rv3594	0.727	-0.132
delta_Rv3717	2.114	-0.159
delta_Rv3811	1.46	-0.342
delta_Rv0954	0.983	-0.012
PonA1	0.055	0.572
EccD1_KO	-0.312	-0.585
EspI_KO	-1.235	-1.469
PE35_KO	-1.698	-1.581
PPE68_KO	-0.825	-1.065
glycerol2	-0.27	-0.111
lignocerate	0.392	0.106
oleate	-0.588	-0.293
phosphatidylcholine	-0.581	-0.398
acetate	1.736	0.263
glucAc	0.78	0.211
Rv0950ko	-2.421	-0.805
Rv1096ko	-0.603	-0.09
Rv3684ko	-0.714	-0.648
delta_otsA_trehalose	3.153	0.825