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 Rv2164c/-:

update plot	correlation	link to info on gene
Rv2678c/hemE	(cc=0.761)	info on Rv2678c/hemE
Rv3858c/gltD	(cc=0.6997)	info on Rv3858c/gltD
Rv0541c/-	(cc=0.6988)	info on Rv0541c/-
Rv3918c/parA	(cc=0.6919)	info on Rv3918c/parA
Rv0701/rplC	(cc=0.6902)	info on Rv0701/rplC
Rv2697c/dut	(cc=0.6849)	info on Rv2697c/dut
Rv3764c/tcrY	(cc=0.6649)	info on Rv3764c/tcrY
Rv3456c/rplQ	(cc=0.6568)	info on Rv3456c/rplQ
Rv3673c/-	(cc=0.6566)	info on Rv3673c/-
Rv2611c/-	(cc=0.637)	info on Rv2611c/-

Correlation of Rv2164c/- with Rv3918c/parA

Normalized LFCs for Rv2164c/-:
(description and provenance of datasets)

	Rv2164c/-	Rv3918c/parA
Fe_supp_jason_reseq	0.0	0.182
low_pH_jason_reseq	0.0	-0.211
NO_jason_reseq	0.0	0.302
B6_jason_reseq	0.0	-0.292
MHCII_jason_reseq	0.0	-0.257
Isoniazid02	0.0	0.407
Rifampicin4	0.0	-0.29
Ethambutol3	0.0	0.0
Meropenem3	0.0	0.858
Vancomycin16	0.0	0.0
Rv2680_day32	0.0	0.101
H37Rv_KO_MarP	0.0	-0.454
hypoxia_3wks	0.0	0.327
hypoxia_6wks	0.0	-1.05
glycerol	0.0	-0.353
cholesterol	0.0	-0.398
AJ	0.0	0.504
Bibs02	0.0	0.397
Bibs02c	0.0	0.162
BL6	0.0	-0.343
BL6a	0.0	-0.544
BXD01	0.0	0.194
BXD010	0.0	-0.224
BXD011	0.0	-0.35
BXD03	0.0	-0.371
BXD04	0.0	-0.34
BXD05	0.0	-0.369
BXD06	0.0	-0.366
BXD07	0.0	-0.242
BXD08	0.0	-0.365
BXD09	0.0	-0.386
CAST	0.0	-0.402
CCcont	0.0	0.957
DS01	0.0	-0.197
DS02	0.0	-0.597
DS04	0.0	-0.533
DS0c	0.0	0.608
GP01	0.0	-0.271
GP02	0.0	-0.228
GP0c	0.0	-0.357
NOD	0.0	-0.617
NZO	0.0	-0.348
PWK	0.0	-0.163
H37Rv_KO_CtpC	0.0	0.0
H37Rv_KO_CtpD	0.0	0.43
H37Rv_KO_Rv1272	0.0	-0.117
H37Rv_KO_SugABC	0.0	-0.272
H37Rv_KO_MbtN	0.0	-0.086
Trans05	0.0	-0.359
macrophage_unactivated	0.0	0.436
IL1	0.0	0.0
Rapamycin	0.0	0.0
Tcell	0.0	0.0
GMCSF	0.0	0.0
IFNab	0.0	0.0
IFNg	0.0	0.0
IFNg_GMCSF1	0.0	0.0
Rv1432_day32	0.0	0.0
Rv1565c_day32	0.0	-0.847
secA2_input	0.0	0.482
delta_Rv3594	1.416	2.094
delta_Rv3717	1.803	0.834
delta_Rv3811	1.487	2.296
delta_Rv0954	0.0	0.0
PonA1	1.313	0.0
EccD1_KO	-0.22	-0.921
EspI_KO	-2.852	-0.95
PE35_KO	-2.917	-2.45
PPE68_KO	-2.796	-2.451
glycerol2	0.0	-0.224
lignocerate	0.0	-0.807
oleate	0.0	-0.94
phosphatidylcholine	0.0	-0.929
acetate	0.0	-1.31
glucAc	0.0	-0.815
Rv0950ko	-0.416	0.289
Rv1096ko	-0.416	-0.477
Rv3684ko	-0.452	-0.701
delta_otsA_trehalose	0.0	0.103